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Wang X, Deng W, Hu H, Jia X, Chen J, Fang P, Cheng C, Zhang S, Jiang X, Ding D, Ma B. Seasonal variations in soil microbial community co-occurrence network complexity respond differently to field-simulated warming experiments in a northern subtropical forest. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 949:174692. [PMID: 39002597 DOI: 10.1016/j.scitotenv.2024.174692] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/03/2024] [Revised: 07/08/2024] [Accepted: 07/09/2024] [Indexed: 07/15/2024]
Abstract
Global warming may reshape seasonal changes in microbial community diversity and co-occurrence network patterns, with significant implications for terrestrial ecosystem function. We conducted a 2-year in situ field simulation of the effects of warming on the seasonal dynamics of soil microbial communities in a northern subtropical Quercus acutissima forest. Our study revealed that warming had no significant effect on the richness or diversity of soil bacteria or fungi in the growing season, whereas different warming gradients had different effects on their diversity in the nongrowing season. Warming also changed the microbial community structure, increasing the abundance of some thermophilic microbial species and decreasing the abundance of some symbiotrophic microorganisms. The co-occurrence network analysis of the microbial community showed that warming decreased the complexity of the intradomain network in the soil bacterial community in the growing and nongrowing seasons but increased it in the fungal community. Moreover, increasing warming temperatures increased the complexity of the interdomain network between bacteria and fungi in the growing season but decreased it in the nongrowing season, and the keystone species in the interdomain network changed with warming. Warming also reduced the proportion of positive microbial community interactions, indicating that warming reduced the mutualism, commensalism, and neutralism of microorganisms as they adapted to soil environmental stress. The factors affecting the fungal community varied considerably across warming gradients, with the bacterial community being significantly affected by soil temperature, MBC, NO3--N and NH4+-N, moreover, SOC and TN significantly affected fungal communities in the 4 °C warming treatment. These results suggest that warming increases seasonal differences in the diversity and complexity of soil microbial communities in the northern subtropical region, significantly influencing soil dynamic processes regulating forest ecosystems under global warming.
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Affiliation(s)
- Xia Wang
- Co-Innovation Center for the Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China; Key Laboratory of Soil and Water Conservation and Ecological Restoration in Jiangsu Province, Nanjing 210037, China
| | - Wenbin Deng
- Co-Innovation Center for the Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China; Key Laboratory of Soil and Water Conservation and Ecological Restoration in Jiangsu Province, Nanjing 210037, China
| | - Haibo Hu
- Co-Innovation Center for the Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China; Key Laboratory of Soil and Water Conservation and Ecological Restoration in Jiangsu Province, Nanjing 210037, China.
| | - Xichuan Jia
- Co-Innovation Center for the Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China; Key Laboratory of Soil and Water Conservation and Ecological Restoration in Jiangsu Province, Nanjing 210037, China
| | - Jianyu Chen
- Co-Innovation Center for the Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China; Key Laboratory of Soil and Water Conservation and Ecological Restoration in Jiangsu Province, Nanjing 210037, China
| | - Pei Fang
- Co-Innovation Center for the Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China; Key Laboratory of Soil and Water Conservation and Ecological Restoration in Jiangsu Province, Nanjing 210037, China
| | - Can Cheng
- Co-Innovation Center for the Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China; Key Laboratory of Soil and Water Conservation and Ecological Restoration in Jiangsu Province, Nanjing 210037, China
| | - Shuai Zhang
- Co-Innovation Center for the Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China; Key Laboratory of Soil and Water Conservation and Ecological Restoration in Jiangsu Province, Nanjing 210037, China
| | - Xuyi Jiang
- Co-Innovation Center for the Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China; Key Laboratory of Soil and Water Conservation and Ecological Restoration in Jiangsu Province, Nanjing 210037, China
| | - Dongxia Ding
- Co-Innovation Center for the Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China; Key Laboratory of Soil and Water Conservation and Ecological Restoration in Jiangsu Province, Nanjing 210037, China
| | - Bing Ma
- Geological Environment Exploration Institute of Jiangsu Province, Nanjing 211102, China
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Kan ZR, Xu Y, Virk AL, Liu M, Pei X, Li Y, Yang H, Chen C. Organic fertilizer substitution benefits microbial richness and wheat yield under warming. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 945:174007. [PMID: 38885710 DOI: 10.1016/j.scitotenv.2024.174007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2024] [Revised: 06/11/2024] [Accepted: 06/13/2024] [Indexed: 06/20/2024]
Abstract
Climate warming poses a serious threat to soil biodiversity and crop yield. Application of organic fertilizer has been extensively practiced to improve soil health and crop productivity. However, information is limited about the effects of organic fertilizer on microbial communities and diversity (richness) under warming. Thus, to investigate the interactive effects of temperature (ambient temperature and warming) and fertilizer (chemical fertilizer and partial substitution of chemical fertilizer with organic fertilizer) on microbial properties and wheat yield, a two-factorial pot experiment was conducted using soils with high and low fertility The results showed that warming and organic fertilizer had minor effects on bacterial Shannon and Simpson indexes. Due to concomitant reductions in soil moisture, warming decreased the average Chao index by 5.4 % and Ace index by 3.8 % for soils with high and low fertility (P < 0.05). High-throughput sequence presented that dominated genus was Bacillus with spore-forming ability. Under warming and drying conditions, microbes with adaptive traits (spore-forming ability) would outcompete the other microbes, and decrease microbial Chao and Ace index (richness). However, organic fertilizer counteracted the adverse effects of warming on microbial richness attributed to positive interaction between temperature and fertilizer on soil nutrients and organic carbon. The strong relationships between bacterial richness and wheat yield, as well as soil nutrients, highlighted the importance of soil biodiversity in improving soil nutrients and crop productivity. Partial substitution of chemical fertilizer with organic fertilizer significantly increased wheat yield by 27.1 % and 14.9 % under ambient temperature and by 28.0 % and 19.6 % under warming for soils with high and low fertility, respectively. Overall, this study provided the possibility to increase bacterial richness related to nutrient turnover and crop production by organic fertilizer application with reduced chemical fertilizer, especially under climate warming.
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Affiliation(s)
- Zheng-Rong Kan
- College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Yinan Xu
- Institute of Agricultural Resources and Environment, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China
| | - Ahmad Latif Virk
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou 311300, China
| | - Mengting Liu
- College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Xinyu Pei
- College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Yanling Li
- College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Haishui Yang
- College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China; Jiangsu Key Laboratory for Information Agriculture, Nanjing Agricultural University, Nanjing 210095, China; Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing 210095, China
| | - Changqing Chen
- College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China.
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3
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Fang K, Kou YP, Tang N, Liu J, Zhang XY, He HL, Xia RX, Zhao WQ, Li DD, Liu Q. Differential responses of soil bacteria, fungi and protists to root exudates and temperature. Microbiol Res 2024; 286:127829. [PMID: 39018940 DOI: 10.1016/j.micres.2024.127829] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2024] [Accepted: 06/30/2024] [Indexed: 07/19/2024]
Abstract
The impact of climate warming on soil microbes has been well documented, with studies revealing its effects on diversity, community structure and network dynamics. However, the consistency of soil microbial community assembly, particularly in response to diverse plant root exudates under varying temperature conditions, remains an unresolved issue. To address this issue, we employed a growth chamber to integrate temperature and root exudates in a controlled experiment to examine the response of soil bacteria, fungi, and protists. Our findings revealed that temperature independently regulated microbial diversity, with distinct patterns observed among bacteria, fungi, and protists. Both root exudates and temperature significantly influenced microbial community composition, yet interpretations of these factors varied among prokaryotes and eukaryotes. In addition to phototrophic bacteria and protists, as well as protistan consumers, root exudates determined to varying degrees the enrichment of other microbial functional guilds at specific temperatures. The effects of temperature and root exudates on microbial co-occurrence patterns were interdependent; root exudates primarily simplified the network at low and high temperatures, while responses to temperature varied between single and mixed exudate treatments. Moreover, temperature altered the composition of keystone species within the microbial network, while root exudates led to a decrease in their number. These results emphasize the substantial impact of plant root exudates on soil microbial community responses to temperature, underscoring the necessity for future climate change research to incorporate additional environmental variables.
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Affiliation(s)
- Kai Fang
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610213, China; College of Agriculture and Biological Sciences, Dali University, Dali 671003, China
| | - Yong-Ping Kou
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610213, China.
| | - Na Tang
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610213, China
| | - Jia Liu
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610213, China
| | - Xiao-Ying Zhang
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610213, China
| | - He-Liang He
- College of Agriculture, Forestry and Food Engineering, Yibin University, Yibin 644007, China
| | - Rui-Xue Xia
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610213, China
| | - Wen-Qiang Zhao
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610213, China
| | - Dan-Dan Li
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610213, China
| | - Qing Liu
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration and Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610213, China.
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4
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Liu Y, Delgado-Baquerizo M, Bing H, Wang Y, Wang J, Chen J, Qiu S, Zhu H, Wu Y, Fang L, Chang R. Warming-induced shifts in alpine soil microbiome: An ecosystem-scale study with environmental context-dependent insights. ENVIRONMENTAL RESEARCH 2024; 255:119206. [PMID: 38782346 DOI: 10.1016/j.envres.2024.119206] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2024] [Revised: 05/17/2024] [Accepted: 05/20/2024] [Indexed: 05/25/2024]
Abstract
Climate warming is a pressing global issue with substantial impacts on soil health and function. However, the influence of environmental context on the responses of soil microorganisms to warming remains largely elusive, particularly in alpine ecosystems. This study examined the responses of the soil microbiome to in situ experimental warming across three elevations (3850 m, 4100 m, and 4250 m) in the meadow of Gongga Mountain, eastern Tibetan Plateau. Our findings demonstrate that soil microbial diversity is highly resilient to warming, with significant impacts observed only at specific elevations. Furthermore, the influence of warming on the composition of the soil microbial community is also elevation-dependent, underscoring the importance of local environmental context in shaping microbial evolution in alpine soils under climate warming. Notably, we identified soil moisture at 3850 m and carbon-to-nitrogen ratio at 4250 m as indirect predictors regulating the responses of microbial diversity to warming at specific elevations. These findings underscore the paramount importance of considering pre-existing environmental conditions in predicting the response of alpine soil microbiomes to climate warming. Our study provides novel insights into the intricate interactions between climate warming, soil microbiome, and environmental context in alpine ecosystems, illuminating the complex mechanisms governing soil microbial ecology in these fragile and sensitive environments.
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Affiliation(s)
- Ye Liu
- Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, 610299, China
| | - Manuel Delgado-Baquerizo
- Laboratorio de Biodiversidad y Funcionamiento Ecosistémico, Institutode Recursos Naturales y Agrobiología de Sevilla (IRNAS), CSIC, Sevilla, Spain
| | - Haijian Bing
- Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, 610299, China.
| | - Yuhan Wang
- Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, 610299, China; Key Laboratory of Green Utilization of Critical Non-Metallic Mineral Resources, Ministry of Education, Wuhan University of Technology, Wuhan, 430070, China
| | - Jianjun Wang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academic of Sciences, Nanjing, 210008, China
| | - Ji Chen
- State Key Laboratory of Loess and Quaternary Geology, Institute of Earth Environment, Chinese Academy of Sciences, Xi'an, 710061, China
| | - Shaojun Qiu
- Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, 610299, China
| | - He Zhu
- Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, 610299, China
| | - Yanhong Wu
- Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, 610299, China
| | - Linchuan Fang
- Key Laboratory of Green Utilization of Critical Non-Metallic Mineral Resources, Ministry of Education, Wuhan University of Technology, Wuhan, 430070, China
| | - Ruiying Chang
- Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, 610299, China
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5
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Xin Y, Gao Q, Chen X, Sun S, Liu J, Gao H, Zhou J, Xia X. High biological N fixation potential dominated by heterotrophic diazotrophs in alpine permafrost rivers on the Qinghai‒Tibet Plateau. WATER RESEARCH 2024; 264:122239. [PMID: 39137482 DOI: 10.1016/j.watres.2024.122239] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2024] [Revised: 07/02/2024] [Accepted: 08/07/2024] [Indexed: 08/15/2024]
Abstract
Biological nitrogen (N) fixation is a pivotal N source in N-deficient ecosystems. The Qinghai‒Tibet Plateau (QTP) region, which is assumed to be N limited and suboxic, is an ideal habitat for diazotrophs. However, the diazotrophic communities and associated N fixation rates in these high-altitude alpine permafrost QTP rivers remain largely unknown. Herein, we examined diazotrophic communities in the sediment and biofilm of QTP rivers via the nitrogenase (nifH) gene sequencing and assessed their N fixing activities via a 15N isotope incubation assay. Strikingly, anaerobic heterotrophic diazotrophs, such as sulfate- and iron-reducing bacteria, had emerged as dominant N fixers. Remarkably, the nifH gene abundance and N fixation rates increased with altitude, and the average nifH gene abundance (2.57 ± 2.60 × 108 copies g-1) and N fixation rate (2.29 ± 3.36 nmol N g-1d-1) surpassed that documented in most aquatic environments (nifH gene abundance: 1.31 × 105 ∼ 2.57 × 108 copies g-1, nitrogen fixation rates: 2.34 × 10-4 ∼ 4.11 nmol N g-1d-1). Such distinctive heterotrophic diazotrophic communities and high N fixation potential in QTP rivers were associated with low-nitrogen, abundant organic carbon and unique C:N:P stoichiometries. Additionally, the significant presence of psychrophilic bacteria within the diazotrophic communities, along with the enhanced stability and complexity of the diazotrophic networks at higher altitudes, clearly demonstrate the adaptability of diazotrophic communities to extreme cold and high-altitude conditions in QTP rivers. We further determined that altitude, coupled with organic carbon and phosphorus, was the predominant driver shaping diazotrophic communities and their N-fixing activities. Overall, our study reveals high N fixation potential in N-deficient QTP rivers, which provides novel insights into nitrogen dynamics in alpine permafrost rivers.
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Affiliation(s)
- Yuan Xin
- Key Laboratory of Water and Sediment Sciences of Ministry of Education, State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, China
| | - Qun Gao
- Key Laboratory of Water and Sediment Sciences of Ministry of Education, State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, China.
| | - Xin Chen
- Key Laboratory of Water and Sediment Sciences of Ministry of Education, State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, China
| | - Siyue Sun
- Key Laboratory of Water and Sediment Sciences of Ministry of Education, State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, China
| | - Jiao Liu
- Key Laboratory of Water and Sediment Sciences of Ministry of Education, State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, China
| | - Hui Gao
- Key Laboratory of Water and Sediment Sciences of Ministry of Education, State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, China
| | - Jizhong Zhou
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK 73019, USA; School of Biological Sciences, University of Oklahoma, Norman, OK 73019, USA; School of Civil Engineering and Environmental Sciences, University of Oklahoma, Norman, OK, USA; School of Computer Science, University of Oklahoma, Norman, OK, USA; Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Xinghui Xia
- Key Laboratory of Water and Sediment Sciences of Ministry of Education, State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing 100875, China.
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Deslippe JR. Aridity may alter the contributions of plants and fungi to grassland functions. PLoS Biol 2024; 22:e3002765. [PMID: 39146388 PMCID: PMC11326592 DOI: 10.1371/journal.pbio.3002765] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/17/2024] Open
Abstract
Grassland aridification threatens biodiversity which supports ecosystem multifunctionality (EMF), but the relative roles of biota in maintaining EMF are poorly known. A new study in PLoS Biology finds complementarity of above- and belowground biodiversity and a trade-off between fungal and plant richness in driving EMF with aridity.
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Affiliation(s)
- Julie R Deslippe
- School of Biological Sciences, and Centre for Biodiversity and Restoration Ecology, Te Herenga Waka-Victoria University of Wellington, Wellington, New Zealand
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Qiu Z, He S, Lian CA, Qiao X, Zhang Q, Yao C, Mu R, Wang L, Cao XA, Yan Y, Yu K. Large scale exploration reveals rare taxa crucially shape microbial assembly in alkaline lake sediments. NPJ Biofilms Microbiomes 2024; 10:62. [PMID: 39069527 DOI: 10.1038/s41522-024-00537-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2024] [Accepted: 07/19/2024] [Indexed: 07/30/2024] Open
Abstract
Alkaline lakes are extreme environments inhabited by diverse microbial extremophiles. However, large-scale distribution patterns, environmental adaptations, community assembly, and evolutionary dynamics of microbial communities remain largely underexplored. This study investigated the characteristics of microbial communities on rare and abundant taxa in alkaline lake sediments in west and northwest China. We observed that abundant taxa varied significantly with geographical distance, while rare taxa remained unaffected by regional differences. The assembly process of abundant taxa was influenced by dispersal limitation, whilst rare taxa were predominantly driven by heterogeneous selection. Network analysis indicated that rare taxa as core species for community interactions and community stability. Rare taxa exhibited higher speciation and transition rate than abundant taxa, serving as a genetic reservoir and potential candidates to become abundance taxa, highlighting their crucial role in maintaining microbial diversity. These insights underscore the significant influence of rare taxa on ecosystem biodiversity and stability in alkaline lakes.
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Affiliation(s)
- Zhiguang Qiu
- Eco-environment and Resource Efficiency Research Laboratory, School of Environment and Energy, Shenzhen Graduate School, Peking University, Shenzhen, 518055, China
- AI for Science (AI4S)-Preferred Program, Peking University, Shenzhen, 518055, China
| | - Shuhang He
- Eco-environment and Resource Efficiency Research Laboratory, School of Environment and Energy, Shenzhen Graduate School, Peking University, Shenzhen, 518055, China
| | - Chun-Ang Lian
- Eco-environment and Resource Efficiency Research Laboratory, School of Environment and Energy, Shenzhen Graduate School, Peking University, Shenzhen, 518055, China
- AI for Science (AI4S)-Preferred Program, Peking University, Shenzhen, 518055, China
| | - Xuejiao Qiao
- Eco-environment and Resource Efficiency Research Laboratory, School of Environment and Energy, Shenzhen Graduate School, Peking University, Shenzhen, 518055, China
| | - Qing Zhang
- Eco-environment and Resource Efficiency Research Laboratory, School of Environment and Energy, Shenzhen Graduate School, Peking University, Shenzhen, 518055, China
| | - Ciqin Yao
- Eco-environment and Resource Efficiency Research Laboratory, School of Environment and Energy, Shenzhen Graduate School, Peking University, Shenzhen, 518055, China
| | - Rong Mu
- Eco-environment and Resource Efficiency Research Laboratory, School of Environment and Energy, Shenzhen Graduate School, Peking University, Shenzhen, 518055, China
| | - Li Wang
- Eco-environment and Resource Efficiency Research Laboratory, School of Environment and Energy, Shenzhen Graduate School, Peking University, Shenzhen, 518055, China
| | - Xiao-Ai Cao
- Eco-environment and Resource Efficiency Research Laboratory, School of Environment and Energy, Shenzhen Graduate School, Peking University, Shenzhen, 518055, China
| | - Yan Yan
- State Key Laboratory of Isotope Geochemistry, CAS Center for Excellence in Deep Earth Science, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China
| | - Ke Yu
- Eco-environment and Resource Efficiency Research Laboratory, School of Environment and Energy, Shenzhen Graduate School, Peking University, Shenzhen, 518055, China.
- AI for Science (AI4S)-Preferred Program, Peking University, Shenzhen, 518055, China.
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8
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Sun P, Zhu Z, Jin Z, Xie J, Miao H, Liu J. Molecular Characteristics and Functional Identification of a Key Alpha-Amylase-Encoding Gene AMY11 in Musa acuminata. Int J Mol Sci 2024; 25:7832. [PMID: 39063074 PMCID: PMC11276985 DOI: 10.3390/ijms25147832] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2024] [Revised: 06/28/2024] [Accepted: 07/12/2024] [Indexed: 07/28/2024] Open
Abstract
Alpha-amylase (AMY) plays a significant role in regulating the growth, development, and postharvest quality formation in plants. Nevertheless, little is known about the genome-wide features, expression patterns, subcellular localization, and functional regulation of AMY genes (MaAMYs) in the common starchy banana (Musa acuminata). Twelve MaAMY proteins from the banana genome database were clustered into two groups and contained a conserved catalytic domain. These MaAMYs formed collinear pairs with the AMYs of maize and rice. Three tandem gene pairs were found within the MaAMYs and are indicative of putative gene duplication events. Cis-acting elements of the MaAMY promoters were found to be involved in phytohormone, development, and stress responses. Furthermore, MaAMY02, 08, 09, and 11 were actively expressed during fruit development and ripening. Specifically, MaAMY11 showed the highest expression level at the middle and later stages of banana ripening. Subcellular localization showed that MaAMY02 and 11 were predominately found in the chloroplast, whereas MaAMY08 and 09 were primarily localized in the cytoplasm. Notably, transient attenuation of MaAMY11 expression resulted in an obvious increase in the starch content of banana fruit, while a significant decrease in starch content was confirmed through the transient overexpression of MaAMY11. Together, these results reveal new insights into the structure, evolution, and expression patterns of the MaAMY family, affirming the functional role of MaAMY11 in the starch degradation of banana fruit.
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Affiliation(s)
- Peiguang Sun
- National Key Laboratory of Tropical Crop Biological Breeding, Institute of Tropical Bioscience and Biotechnology and Sanya Research Institute, Chinese Academy of Tropical Agricultural Sciences, 4 Xueyuan Road, Haikou 571101, China; (P.S.); (Z.Z.); (Z.J.); (J.X.)
| | - Zhao Zhu
- National Key Laboratory of Tropical Crop Biological Breeding, Institute of Tropical Bioscience and Biotechnology and Sanya Research Institute, Chinese Academy of Tropical Agricultural Sciences, 4 Xueyuan Road, Haikou 571101, China; (P.S.); (Z.Z.); (Z.J.); (J.X.)
- College of Tropical Crops, Hainan University, 58 Renmin Avenue, Haikou 571100, China
| | - Zhiqiang Jin
- National Key Laboratory of Tropical Crop Biological Breeding, Institute of Tropical Bioscience and Biotechnology and Sanya Research Institute, Chinese Academy of Tropical Agricultural Sciences, 4 Xueyuan Road, Haikou 571101, China; (P.S.); (Z.Z.); (Z.J.); (J.X.)
| | - Jianghui Xie
- National Key Laboratory of Tropical Crop Biological Breeding, Institute of Tropical Bioscience and Biotechnology and Sanya Research Institute, Chinese Academy of Tropical Agricultural Sciences, 4 Xueyuan Road, Haikou 571101, China; (P.S.); (Z.Z.); (Z.J.); (J.X.)
| | - Hongxia Miao
- National Key Laboratory of Tropical Crop Biological Breeding, Institute of Tropical Bioscience and Biotechnology and Sanya Research Institute, Chinese Academy of Tropical Agricultural Sciences, 4 Xueyuan Road, Haikou 571101, China; (P.S.); (Z.Z.); (Z.J.); (J.X.)
- Hainan Key Laboratory for Protection and Utilization of Tropical Bioresources, Hainan Institute for Tropical Agricultural Resources, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Juhua Liu
- National Key Laboratory of Tropical Crop Biological Breeding, Institute of Tropical Bioscience and Biotechnology and Sanya Research Institute, Chinese Academy of Tropical Agricultural Sciences, 4 Xueyuan Road, Haikou 571101, China; (P.S.); (Z.Z.); (Z.J.); (J.X.)
- Hainan Key Laboratory for Protection and Utilization of Tropical Bioresources, Hainan Institute for Tropical Agricultural Resources, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
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9
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Xu M, Yang X, Shao J, Huang J, Fan W, Yang A, Ci H, Wang Y, Gan J, Han Y, Zeng J. Biogeographic effects shape soil bacterial communities across intertidal zones on island beaches through regulating soil properties. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 930:172785. [PMID: 38677414 DOI: 10.1016/j.scitotenv.2024.172785] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/12/2024] [Revised: 04/06/2024] [Accepted: 04/24/2024] [Indexed: 04/29/2024]
Abstract
Island coastal zones are often mistakenly perceived as "ecological desert". Actually, they harbour unique communities of organisms. The biodiversity on islands is primarily influenced by the effects of area and isolation (distance from the mainland), which mainly focused on plants and animals, encompassing studies of entire islands. However, the application of area and isolation effects to soil microorganisms on island beaches across the intertidal zones remains largely unexplored. We hypothesized that island area and isolation shape soil bacterial communities by regulating soil properties on island beaches, due to the fact that local soil properties might be strongly influenced by land-use, which may vary among islands of different sizes and isolations. To test this hypothesis, we conducted a study on 108 plots spanning 4 intertidal zones on 9 representative island beaches within Zhoushan Archipelago, eastern China. We employed one-way ANOVA and Tukey's honestly significant difference (HSD) test to assess the differences in diversity, composition of soil bacterial communities and soil properties among intertidal zones. Redundancy analysis and structural equation modelling (SEM) were used to examine the direct and indirect impacts of beach area and isolation on soil bacterial communities. Our findings revealed that the area and isolation did not significantly influence soil bacterial diversity and the relative abundance of dominant soil bacterial phyla. However, soil nitrogen (soil N), phosphorus (soil P), organic carbon (SOC), available potassium content (soil AK), and electrical conductivity (soil EC) showed significant increases with the area and isolation. As the tidal gradient increased on beaches, soil bacterial OTU richness, Chao 1, and relative abundance of Planctomycetota and Crenarchaeota decreased, while relative abundance of other soil bacterial phyla increased. We found that influences of island area and isolation shape soil bacterial communities on beaches by regulating soil properties, particularly soil moisture, salinity, and nutrients, all of which are also influenced by area and isolation. Island with larger areas and in lower intertidal zones, characterized by higher soil water content (SWC), soil EC, and soil AK, exhibited greater soil bacterial diversity and fewer dominant soil bacterial phyla. Conversely, in the higher intertidal zones with vegetation containing higher soil N and SOC, lower soil bacterial diversity and more dominant soil bacterial phyla were observed. These findings have the potential to enhance our new understanding of how island biogeography in interpreting island biome patterns.
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Affiliation(s)
- Mingshan Xu
- Zhejiang Institute of Hydraulics & Estuary (Zhejiang Institute of Marine Planning and Design), Hangzhou 310020, Zhejiang, China
| | - Xiaodong Yang
- Institute of East China Sea, Ningbo University, Ningbo 315211, Zhejiang, China; Department of Geography and Spatial Information Techniques, Ningbo University, Ningbo 315211, Zhejiang, China.
| | - Jie Shao
- Zhejiang Institute of Hydraulics & Estuary (Zhejiang Institute of Marine Planning and Design), Hangzhou 310020, Zhejiang, China
| | - Junbao Huang
- Zhejiang Institute of Hydraulics & Estuary (Zhejiang Institute of Marine Planning and Design), Hangzhou 310020, Zhejiang, China
| | - Wenzhou Fan
- Zhejiang Institute of Hydraulics & Estuary (Zhejiang Institute of Marine Planning and Design), Hangzhou 310020, Zhejiang, China
| | - Anna Yang
- Zhejiang Zhoushan Archipelago Observation and Research Station, Tiantong National Forest Ecosystem Observation and Research Station, School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China
| | - Hang Ci
- Zhejiang Zhoushan Archipelago Observation and Research Station, Tiantong National Forest Ecosystem Observation and Research Station, School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, China
| | - Yongju Wang
- Zhejiang Institute of Hydraulics & Estuary (Zhejiang Institute of Marine Planning and Design), Hangzhou 310020, Zhejiang, China
| | - Jianjun Gan
- Zhejiang Institute of Hydraulics & Estuary (Zhejiang Institute of Marine Planning and Design), Hangzhou 310020, Zhejiang, China
| | - Yu Han
- Zhejiang Institute of Hydraulics & Estuary (Zhejiang Institute of Marine Planning and Design), Hangzhou 310020, Zhejiang, China
| | - Jian Zeng
- Zhejiang Institute of Hydraulics & Estuary (Zhejiang Institute of Marine Planning and Design), Hangzhou 310020, Zhejiang, China.
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Zhang Q, Pu Q, Hao Z, Liu J, Zhang K, Meng B, Feng X. Warming inhibits Hg II methylation but stimulates methylmercury demethylation in paddy soils. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 930:172832. [PMID: 38688367 DOI: 10.1016/j.scitotenv.2024.172832] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2024] [Revised: 04/25/2024] [Accepted: 04/26/2024] [Indexed: 05/02/2024]
Abstract
Inorganic mercury (HgII) can be transformed into neurotoxic methylmercury (MeHg) by microorganisms in paddy soils, and the subsequent accumulation in rice grains poses an exposure risk for human health. Warming as an important manifestation of climate change, changes the composition and structure of microbial communities, and regulates the biogeochemical cycles of Hg in natural environments. However, the response of specific HgII methylation/demethylation to the changes in microbial communities caused by warming remain unclear. Here, nationwide sampling of rice paddy soils and a temperature-adjusted incubation experiment coupled with isotope labeling technique (202HgII and Me198Hg) were conducted to investigate the effects of temperature on HgII methylation, MeHg demethylation, and microbial mechanisms in paddy soils along Hg gradients. We showed that increasing temperature significantly inhibited HgII methylation but promoted MeHg demethylation. The reduction in the relative abundance of Hg-methylating microorganisms and increase in the relative abundance of MeHg-demethylating microorganisms are the likely reasons. Consequently, the net Hg methylation production potential in rice paddy soils was largely inhibited under the increasing temperature. Collectively, our findings offer insights into the decrease in net MeHg production potential associated with increasing temperature and highlight the need for further evaluation of climate change for its potential effect on Hg transformation in Hg-sensitive ecosystems.
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Affiliation(s)
- Qianshuo Zhang
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550081, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Qiang Pu
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550081, China
| | - Zhengdong Hao
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550081, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jiang Liu
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550081, China; College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Kun Zhang
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550081, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Bo Meng
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550081, China.
| | - Xinbin Feng
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550081, China; University of Chinese Academy of Sciences, Beijing 100049, China
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11
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Li D, Wu C, Wu J. Soil fungal community has higher network stability than bacterial community in response to warming and nitrogen addition in a subtropical primary forest. Appl Environ Microbiol 2024; 90:e0000124. [PMID: 38771056 PMCID: PMC11218647 DOI: 10.1128/aem.00001-24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/01/2024] [Accepted: 04/22/2024] [Indexed: 05/22/2024] Open
Abstract
Global change factors are known to strongly affect soil microbial community function and composition. However, as of yet, the effects of warming and increased anthropogenic nitrogen deposition on soil microbial network complexity and stability are still unclear. Here, we examined the effects of experimental warming (3°C above ambient soil temperature) and nitrogen addition (5 g N m-2 year-1) on the complexity and stability of the soil microbial network in a subtropical primary forest. Compared to the control, warming increased |negative cohesion|:positive cohesion by 7% and decreased network vulnerability by 5%; nitrogen addition decreased |negative cohesion|:positive cohesion by 10% and increased network vulnerability by 11%. Warming and decreased soil moisture acted as strong filtering factors that led to higher bacterial network stability. Nitrogen addition reduced bacterial network stability by inhibiting soil respiration and increasing resource availability. Neither warming nor nitrogen addition changed fungal network complexity and stability. These findings suggest that the fungal community is more tolerant than the bacterial community to climate warming and nitrogen addition. The link between bacterial network stability and microbial community functional potential was significantly impacted by nitrogen addition and warming, while the response of soil microbial network stability to climate warming and nitrogen deposition may be independent of its complexity. Our findings demonstrate that changes in microbial network structure are crucial to ecosystem management and to predict the ecological consequences of global change in the future. IMPORTANCE Soil microbes play a very important role in maintaining the function and health of forest ecosystems. Unfortunately, global change factors are profoundly affecting soil microbial structure and function. In this study, we found that climate warming promoted bacterial network stability and nitrogen deposition decreased bacterial network stability. Changes in bacterial network stability had strong effects on bacterial community functional potentials linked to metabolism, nitrogen cycling, and carbon cycling, which would change the biogeochemical cycle in primary forests.
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Affiliation(s)
- Debao Li
- Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology, Institute of Biodiversity, School of Ecology and Environmental Science, Yunnan University, Kunming, China
- Laboratory of Soil Ecology and Health in Universities of Yunnan Province, Yunnan University, Kunming, China
| | - Chuansheng Wu
- Anhui Province Key Laboratory of Environmental Hormone and Reproduction, Fuyang Normal University, Fuyang, China
| | - Jianping Wu
- Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology, Institute of Biodiversity, School of Ecology and Environmental Science, Yunnan University, Kunming, China
- Laboratory of Soil Ecology and Health in Universities of Yunnan Province, Yunnan University, Kunming, China
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12
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Zeng Y, Guo X, Lei J, Shi Y, Liu X, Dai T, Zhang Q, Gao Q, Chu H, Liu Y, Zhou J, Yang Y. Regional microbial biogeography linked to soil respiration. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 929:172263. [PMID: 38583623 DOI: 10.1016/j.scitotenv.2024.172263] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2023] [Revised: 03/21/2024] [Accepted: 04/04/2024] [Indexed: 04/09/2024]
Abstract
The relationships between α-diversity and ecosystem functioning (BEF) have been extensively examined. However, it remains unknown how spatial heterogeneity of microbial community, i.e., microbial β-diversity within a region, shapes ecosystem functioning. Here, we examined microbial community compositions and soil respiration (Rs) along an elevation gradient of 853-4420 m a.s.l. in the southeastern Tibetan Plateau, which is renowned as one of the world's biodiversity hotspots. There were significant distance-decay relationships for both bacterial and fungal communities. Stochastic processes played a dominant role in shaping bacterial and fungal community compositions, while soil temperature was the most important environmental factor that affected microbial communities. We evaluated BEF relationships based on α-diversity measured by species richness and β-diversity measured by community dispersions, revealing significantly positive correlations between microbial β-diversities and Rs. These correlations became stronger with increasing sample size, differing from those between microbial α-diversities and Rs. Using Structural Equation Modeling (SEM), we found that soil temperature, soil moisture, and total nitrogen were the most important edaphic properties in explaining Rs. Meanwhile, stochastic processes (e.g., homogenous dispersal and dispersal limitation) significantly mediated effects between microbial β-diversities and Rs. Microbial α-diversity poorly explained Rs, directly or indirectly. In a nutshell, we identified a previously unknown BEF relationship between microbial β-diversity and Rs. By complementing common practices to examine BEF with α-diversity, we demonstrate that a focus on β-diversity could be leveraged to explain Rs.
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Affiliation(s)
- Yufei Zeng
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
| | - Xue Guo
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China; State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Jiesi Lei
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
| | - Yu Shi
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng 475004, China
| | - Xu Liu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China
| | - Tianjiao Dai
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China; School of Water Resources and Environment, China University of Geosciences (Beijing), Beijing 100083, China
| | - Qiuting Zhang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China; Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, USA
| | - Qun Gao
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
| | - Haiyan Chu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China
| | - Yongqin Liu
- Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100101, China
| | - Jizhong Zhou
- Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, USA; School of Civil Engineering and Environmental Sciences, University of Oklahoma, Norman, OK 73019, USA; Earth and Environmental Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
| | - Yunfeng Yang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China.
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13
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Shen Z, Yu B, Gong Y, Shao K, Gao G, Tang X. Unraveling the impact of climatic warming and wetting on eukaryotic microbial diversity and assembly mechanisms: A 10-year case study in Lake Bosten, NW China. WATER RESEARCH 2024; 256:121559. [PMID: 38579508 DOI: 10.1016/j.watres.2024.121559] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/11/2023] [Revised: 03/29/2024] [Accepted: 03/30/2024] [Indexed: 04/07/2024]
Abstract
Over the last six decades, northwest China has undergone a significant climatic shift from "warm-dry" to "warm-wet", profoundly impacting the structures and functions of lake ecosystem across the region. However, the influences of this climatic transition on the diversity patterns, co-occurrence network, and assembly processes of eukaryotic microbial communities in lake ecosystem, along with the underlying mechanisms, remain largely unexplored. To bridge this knowledge gap, our study focused on Lake Bosten, the largest inland freshwater body in China, conducting a comprehensive analysis. Firstly, we examined the dynamics of key water quality parameters in the lake based on long-term monitoring data (1992-2022). Subsequently, we collected 93 water samples spanning two distinctive periods: low water level (WL) and high total dissolved solids (TDS) (PerWLTDS; 2010-2011; attributed to "warm-dry" climate), and high WL and low TDS (PerTDSWL; 2021-2022; associated with "warm-wet" climate). Eukaryotic microorganisms were further investigated using 18S rRNA gene sequencing and various statistical methods. Our findings revealed that climatic warming and wetting significantly increased eukaryotic microbial α-diversity (all Wilcox. test: P<0.05), while simultaneously reducing β-diversity (all Wilcox. test: P<0.001) and network complexity. Through the two sampling periods, assembly mechanisms of eukaryotic microorganisms were predominantly influenced by dispersal limitation (DL) and drift (DR) within stochastic processes, alongside homogeneous selection (HoS) within deterministic processes. WL played a mediating role in eukaryotic microbial DL and HoS processes in the PerTDSWL, whereas water quality and α-diversity influenced the DL process in the PerWLTDS. Collectively, these results underscore the direct and indirect impacts of "warm-wet" conditions on the eukaryotic microorganisms within Lake Bosten. This study provides valuable insights into the evolutionary dynamics of lake ecosystems under such climatic conditions and aids in predicting the ecological ramifications of global climatic changes.
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Affiliation(s)
- Zhen Shen
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, PR China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Bobing Yu
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, PR China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Yi Gong
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, PR China
| | - Keqiang Shao
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, PR China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Guang Gao
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, PR China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Xiangming Tang
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, PR China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, PR China.
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Zhou G, Long F, Zu L, Jarvie S, Peng Y, Zang L, Chen D, Zhang G, Sui M, He Y, Liu Q. Stand spatial structure and microbial diversity are key drivers of soil multifunctionality during secondary succession in degraded karst forests. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 937:173504. [PMID: 38797411 DOI: 10.1016/j.scitotenv.2024.173504] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2024] [Revised: 05/02/2024] [Accepted: 05/23/2024] [Indexed: 05/29/2024]
Abstract
Studying the relationship between biodiversity and ecosystem multifunctionality (the ability of ecosystems to provide multiple ecosystem functions) (BEMF) is a current hotspot in ecology research. Previous studies on BEMF emphasized the role of plant and microbial diversity but rarely mention stand spatial structure. To investigate the effect of stand spatial structure on BEMF, this study established 30 forest dynamic plots in three natural restoration stages (shrubbery, secondary growth forest, and old-growth forest) in Maolan National Nature Reserve, Guizhou province, China. A positive response in soil multifunctionality (SMF), plant species diversity, stand spatial structure, and fungal β diversity (p < 0.05) followed natural restoration. However, bacterial β diversity showed a negative response (p < 0.05), while microbial α diversity remained unchanged (p > 0.05). These results based on a structural equation model showed that plant species diversity had no direct or indirect effect on SMF, soil microbial diversity was the only direct driver of SMF, and stand spatial structure indirectly affected SMF through soil microbial diversity. The random forest model showed that soil microbial β diversity and the Shannon-Wiener index of the diameter at breast height for woody plant species were the optimal variables to characterize SMF and soil microbial diversity, respectively. These results suggested that natural restoration promoted SMF, and microbial diversity had a direct positive effect on SMF. In the meantime, stand spatial structure had a significant indirect effect on SMF, while plant species diversity did not. Future work on degraded karst forest restoration should direct more attention to the role of the stand spatial structure and emphasize the importance of biodiversity.
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Affiliation(s)
- Guanghui Zhou
- Research Center of Forest Ecology, College of Forestry, Guizhou University, Guiyang 550025, China
| | - Fayu Long
- Research Center of Forest Ecology, College of Forestry, Guizhou University, Guiyang 550025, China
| | - Lei Zu
- Research Center of Forest Ecology, College of Forestry, Guizhou University, Guiyang 550025, China
| | - Scott Jarvie
- Otago Regional Council, Dunedin 9016, New Zealand
| | - Yan Peng
- Key Laboratory for Subtropical Mountain Ecology, School of Geographical Sciences, Fujian Normal University, Fuzhou 350007, China
| | - Lipeng Zang
- Research Center of Forest Ecology, College of Forestry, Guizhou University, Guiyang 550025, China; Guizhou Libo Karst Forest Ecosystem National Observation and Research Station, Libo 558400, China
| | - Danmei Chen
- Research Center of Forest Ecology, College of Forestry, Guizhou University, Guiyang 550025, China; Guizhou Libo Karst Forest Ecosystem National Observation and Research Station, Libo 558400, China
| | - Guangqi Zhang
- Research Center of Forest Ecology, College of Forestry, Guizhou University, Guiyang 550025, China; Guizhou Libo Karst Forest Ecosystem National Observation and Research Station, Libo 558400, China
| | - Mingzhen Sui
- Research Center of Forest Ecology, College of Forestry, Guizhou University, Guiyang 550025, China; Guizhou Libo Karst Forest Ecosystem National Observation and Research Station, Libo 558400, China
| | - Yuejun He
- Research Center of Forest Ecology, College of Forestry, Guizhou University, Guiyang 550025, China
| | - Qingfu Liu
- Research Center of Forest Ecology, College of Forestry, Guizhou University, Guiyang 550025, China; Guizhou Libo Karst Forest Ecosystem National Observation and Research Station, Libo 558400, China.
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15
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Zhao M, Jiang M, Qin L, Hu N, Meng J, Wang M, Wang G. The recovery of soil eukaryotic alpha and beta diversity after wetland restoration. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 925:171814. [PMID: 38508279 DOI: 10.1016/j.scitotenv.2024.171814] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2023] [Revised: 03/16/2024] [Accepted: 03/17/2024] [Indexed: 03/22/2024]
Abstract
Soil eukaryotes play an important role in regulating the ecological processes and ecosystem functioning. However, the recovery potential of soil eukaryotic diversity during wetland restoration is largely unknown. We compared the alpha and beta diversity of soil eukaryotes of farmlands and natural and restored wetlands to explore the underlying abiotic and biotic driving forces in the Sanjiang Plain, China. We found that there was no significant difference of the alpha diversity of soil eukaryotes, while the beta diversity of soil eukaryotes differed significantly between the three land use types, with the mean values in the restored wetlands in between those in the natural wetlands and farmlands. The composition of soil eukaryotic communities were less diverse in farmlands compared to restored and natural wetlands. Network property of soil eukaryotes community (positive: negative edges) increased from farmlands to restored wetlands to natural wetlands, indicating enhanced species positive: negative interactions during restoration. The structural equation modeling indicated that species positive: negative interactions and soil nutrients directly affected soil eukaryotic beta diversity. Soil pH and soil water content indirectly affected soil eukaryotic beta diversity by directly affecting species interactions. Our findings suggest that wetland restoration could change soil environment, strengthen microbial cooperation, and increase eukaryotic beta diversity. However, it may take a very long time to reach the original level of soil eukaryotic structure and diversity.
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Affiliation(s)
- Meiling Zhao
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Ming Jiang
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China
| | - Lei Qin
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China.
| | - Nanlin Hu
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jingci Meng
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China
| | - Ming Wang
- State Environmental Protection Key Laboratory of Wetland Ecology and Vegetation Restoration, Institute for Peat and Mire Research, Northeast Normal University, Changchun 130024, China
| | - Guodong Wang
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China.
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16
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Liang K, Lin Y, Zheng T, Wang F, Cheng Y, Wang S, Liang C, Chen FS. Enhanced home-field advantage in deep soil organic carbon decomposition: Insights from soil transplantation in subtropical forests. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 924:171596. [PMID: 38461990 DOI: 10.1016/j.scitotenv.2024.171596] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/19/2023] [Revised: 02/16/2024] [Accepted: 03/07/2024] [Indexed: 03/12/2024]
Abstract
Climate change affects microbial community physiological strategies and thus regulates global soil organic carbon (SOC) decomposition. However, SOC decomposition by microorganisms, depending on home-field advantage (HFA, indicating a faster decomposition rate in 'Home' than 'Away' conditions) or environmental advantage (EA, indicating a faster decomposition rate in warmer-wetter environments than in colder-drier environments) remains unknown. Here, a soil transplantation experiment was conducted between warmer-wetter and colder-drier evergreen broadleaved forests in subtropical China. Specifically, soil samples were collected along a 60 cm soil profile, including 0-15, 15-30, 30-45, and 45-60 cm layers after one year of transplantation. SOC fractions, soil chemical properties, and microbial communities were evaluated to assess where there was an HFA of EA in SOC decomposition, along with an exploration of internal linkages. Significant HFAs were observed, particularly in the deep soils (30-60 cm) (P < 0.05), despite the lack of a significant EA along a soil profile, which was attributed to environmental changes affecting soil fungal communities and constraining SOC decomposition in 'Away' conditions. The soils transplanted from warmer-wetter to colder-drier environments changed the proportions of Mortiereltomycota or Basidiomycota fungal taxa in deep soils. Furthermore, the shift from colder-drier to warmer-wetter environments decreased fungal α-diversity and the proportion of fungal necromass carbon, ultimately inhibiting SOC decomposition in 'Away' conditions. However, neither HFAs nor EAs were significantly present in the topsoil (0-30 cm), possibly due to the broader adaptability of bacterial communities in these layers. These results suggest that the HFA of SOC decomposition in deep soils may mostly depend on the plasticity of fungal communities. Moreover, these results highlight the key roles of microbial communities in the SOC decomposition of subtropical forests, especially in deep soils that are easily ignored.
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Affiliation(s)
- Kuan Liang
- Key Laboratory of National Forestry and Grassland Administration on Forest Ecosystem Protection and Restoration of Poyang Lake Watershed, Jiangxi Agricultural University, Nanchang 330045, China; Jiangxi Provincial Key Laboratory of Subtropical Forest Resource Cultivation, Jiangxi Agricultural University, Nanchang 330045, China
| | - Yong Lin
- Key Laboratory of National Forestry and Grassland Administration on Forest Ecosystem Protection and Restoration of Poyang Lake Watershed, Jiangxi Agricultural University, Nanchang 330045, China; Jiangxi Provincial Key Laboratory of Subtropical Forest Resource Cultivation, Jiangxi Agricultural University, Nanchang 330045, China
| | - Tiantian Zheng
- Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China
| | - Fangchao Wang
- Key Laboratory of National Forestry and Grassland Administration on Forest Ecosystem Protection and Restoration of Poyang Lake Watershed, Jiangxi Agricultural University, Nanchang 330045, China; Jiangxi Provincial Key Laboratory of Subtropical Forest Resource Cultivation, Jiangxi Agricultural University, Nanchang 330045, China
| | - Yuandong Cheng
- Key Laboratory of National Forestry and Grassland Administration on Forest Ecosystem Protection and Restoration of Poyang Lake Watershed, Jiangxi Agricultural University, Nanchang 330045, China; Jiangxi Provincial Key Laboratory of Subtropical Forest Resource Cultivation, Jiangxi Agricultural University, Nanchang 330045, China
| | - Shennan Wang
- Key Laboratory of National Forestry and Grassland Administration on Forest Ecosystem Protection and Restoration of Poyang Lake Watershed, Jiangxi Agricultural University, Nanchang 330045, China; Jiangxi Provincial Key Laboratory of Subtropical Forest Resource Cultivation, Jiangxi Agricultural University, Nanchang 330045, China
| | - Chao Liang
- Key Laboratory of National Forestry and Grassland Administration on Forest Ecosystem Protection and Restoration of Poyang Lake Watershed, Jiangxi Agricultural University, Nanchang 330045, China; Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China
| | - Fu-Sheng Chen
- Key Laboratory of National Forestry and Grassland Administration on Forest Ecosystem Protection and Restoration of Poyang Lake Watershed, Jiangxi Agricultural University, Nanchang 330045, China; Jiangxi Provincial Key Laboratory of Subtropical Forest Resource Cultivation, Jiangxi Agricultural University, Nanchang 330045, China.
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Wang X, Wang Z, Chen F, Zhang Z, Fang J, Xing L, Zeng J, Zhang Q, Liu H, Liu W, Ren C, Yang G, Zhong Z, Zhang W, Han X. Deterministic assembly of grassland soil microbial communities driven by climate warming amplifies soil carbon loss. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 923:171418. [PMID: 38460701 DOI: 10.1016/j.scitotenv.2024.171418] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2023] [Revised: 02/27/2024] [Accepted: 02/29/2024] [Indexed: 03/11/2024]
Abstract
Perturbations in soil microbial communities caused by climate warming are expected to have a strong impact on biodiversity and future climate-carbon (C) feedback, especially in vulnerable habitats that are highly sensitive to environmental change. Here, we investigate the impact of four-year experimental warming on soil microbes and C cycling in the Loess Hilly Region of China. The results showed that warming led to soil C loss, mainly from labile C, and this C loss is associated with microbial response. Warming significantly decreased soil bacterial diversity and altered its community structure, especially increasing the abundance of heat-tolerant microorganisms, but had no effect on fungi. Warming also significantly increased the relative importance of homogeneous selection and decreased "drift" of bacterial and fungal communities. Moreover, warming decreased bacterial network stability but increased fungal network stability. Notably, the magnitude of soil C loss was significantly and positively correlated with differences in bacterial community characteristics under ambient and warming conditions, including diversity, composition, network stability, and community assembly. This result suggests that microbial responses to warming may amplify soil C loss. Combined, these results provide insights into soil microbial responses and C feedback in vulnerable ecosystems under climate warming scenarios.
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Affiliation(s)
- Xing Wang
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Zhengchen Wang
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Fang Chen
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Zhenjiao Zhang
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Jingbo Fang
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Liheng Xing
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Jia Zeng
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Qi Zhang
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Hanyu Liu
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Weichao Liu
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Chengjie Ren
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Gaihe Yang
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China
| | - Zekun Zhong
- Institute of Soil and Water Conservation, Northwest A&F University, Yangling 712100, Shaanxi, PR China
| | - Wei Zhang
- College of Grassland Agriculture, Northwest A&F University, Yangling 712100, Shaanxi, PR China.
| | - Xinhui Han
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, PR China; Shaanxi Engineering Research Center of Circular Agriculture, Yangling 712100, Shaanxi, PR China.
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18
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Fowler JC, Ziegler S, Whitney KD, Rudgers JA, Miller TEX. Microbial symbionts buffer hosts from the demographic costs of environmental stochasticity. Ecol Lett 2024; 27:e14438. [PMID: 38783567 DOI: 10.1111/ele.14438] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2023] [Revised: 04/15/2024] [Accepted: 04/22/2024] [Indexed: 05/25/2024]
Abstract
Species' persistence in increasingly variable climates will depend on resilience against the fitness costs of environmental stochasticity. Most organisms host microbiota that shield against stressors. Here, we test the hypothesis that, by limiting exposure to temporally variable stressors, microbial symbionts reduce hosts' demographic variance. We parameterized stochastic population models using data from a 14-year symbiont-removal experiment including seven grass species that host Epichloë fungal endophytes. Results provide novel evidence that symbiotic benefits arise not only through improved mean fitness, but also through dampened inter-annual variance. Hosts with "fast" life-history traits benefited most from symbiont-mediated demographic buffering. Under current climate conditions, contributions of demographic buffering were modest compared to benefits to mean fitness. However, simulations of increased stochasticity amplified benefits of demographic buffering and made it the more important pathway of host-symbiont mutualism. Microbial-mediated variance buffering is likely an important, yet cryptic, mechanism of resilience in an increasingly variable world.
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Affiliation(s)
- Joshua C Fowler
- Department of BioSciences, Rice University, Houston, Texas, USA
- Department of Biology, University of Miami, Coral Gables, Florida, USA
| | - Shaun Ziegler
- Department of Biology, University of New Mexico, Albuquerque, New Mexico, USA
| | - Kenneth D Whitney
- Department of Biology, University of New Mexico, Albuquerque, New Mexico, USA
| | - Jennifer A Rudgers
- Department of Biology, University of New Mexico, Albuquerque, New Mexico, USA
| | - Tom E X Miller
- Department of BioSciences, Rice University, Houston, Texas, USA
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19
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Peng Z, Qian X, Liu Y, Li X, Gao H, An Y, Qi J, Jiang L, Zhang Y, Chen S, Pan H, Chen B, Liang C, van der Heijden MGA, Wei G, Jiao S. Land conversion to agriculture induces taxonomic homogenization of soil microbial communities globally. Nat Commun 2024; 15:3624. [PMID: 38684659 PMCID: PMC11058813 DOI: 10.1038/s41467-024-47348-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2023] [Accepted: 03/28/2024] [Indexed: 05/02/2024] Open
Abstract
Agriculture contributes to a decline in local species diversity and to above- and below-ground biotic homogenization. Here, we conduct a continental survey using 1185 soil samples and compare microbial communities from natural ecosystems (forest, grassland, and wetland) with converted agricultural land. We combine our continental survey results with a global meta-analysis of available sequencing data that cover more than 2400 samples across six continents. Our combined results demonstrate that land conversion to agricultural land results in taxonomic and functional homogenization of soil bacteria, mainly driven by the increase in the geographic ranges of taxa in croplands. We find that 20% of phylotypes are decreased and 23% are increased by land conversion, with croplands enriched in Chloroflexi, Gemmatimonadota, Planctomycetota, Myxcoccota and Latescibacterota. Although there is no significant difference in functional composition between natural ecosystems and agricultural land, functional genes involved in nitrogen fixation, phosphorus mineralization and transportation are depleted in cropland. Our results provide a global insight into the consequences of land-use change on soil microbial taxonomic and functional diversity.
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Affiliation(s)
- Ziheng Peng
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Xun Qian
- College of Natural Resources and Environment, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Yu Liu
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Xiaomeng Li
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Hang Gao
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Yining An
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Jiejun Qi
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Lan Jiang
- College of Natural Resources and Environment, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Yiran Zhang
- College of Natural Resources and Environment, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Shi Chen
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Haibo Pan
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Beibei Chen
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Chunling Liang
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China
| | - Marcel G A van der Heijden
- Plant-Soil Interactions Group, Agroscope, Zurich, Switzerland
- Department of Plant and Microbial Biology, University of Zurich, Zurich, Switzerland
| | - Gehong Wei
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China.
| | - Shuo Jiao
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, 712100, Yangling, Shaanxi, P. R. China.
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20
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Li C, Lü F, Peng W, He PJ, Zhang H. Functional Redundant Microbiome Enhanced Anaerobic Digestion Efficiency under Ammonium Inhibition Conditions. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:6659-6669. [PMID: 38557040 DOI: 10.1021/acs.est.4c01227] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/04/2024]
Abstract
Revealing the role of functional redundancy is of great importance considering its key role in maintaining the stability of microbial ecosystems in response to various disturbances. However, experimental evidence on this point is still lacking due to the difficulty in "manipulating" and depicting the degree of redundancy. In this study, manipulative experiments of functional redundancy were conducted by adopting the mixed inoculation strategy to evaluate its role in engineered anaerobic digestion systems under ammonium inhibition conditions. The results indicated that the functional redundancy gradient was successfully constructed and confirmed by evidence from pathway levels. All mixed inoculation groups exhibited higher methane production regardless of the ammonium level, indicating that functional redundancy is crucial in maintaining the system's efficiency. Further analysis of the metagenome-assembled genomes within different functional guilds revealed that the extent of redundancy decreased along the direction of the anaerobic digestion flow, and the role of functional redundancy appeared to be related to the stress level. The study also found that microbial diversity of key functional populations might play a more important role than their abundance on the system's performance under stress. The findings provide direct evidence and highlight the critical role of functional redundancy in enhancing the efficiency and stability of anaerobic digestion.
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Affiliation(s)
- Chao Li
- Institute of Waste Treatment & Reclamation, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China
| | - Fan Lü
- Institute of Waste Treatment & Reclamation, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China
- Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, China
| | - Wei Peng
- Institute of Waste Treatment & Reclamation, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China
| | - Pin-Jing He
- Institute of Waste Treatment & Reclamation, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China
- Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, China
| | - Hua Zhang
- Institute of Waste Treatment & Reclamation, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China
- Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, China
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21
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Rzymski P, Gwenzi W, Poniedziałek B, Mangul S, Fal A. Climate warming, environmental degradation and pollution as drivers of antibiotic resistance. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2024; 346:123649. [PMID: 38402936 DOI: 10.1016/j.envpol.2024.123649] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2023] [Revised: 02/17/2024] [Accepted: 02/22/2024] [Indexed: 02/27/2024]
Abstract
Antibiotic resistance is a major challenge to public health, but human-caused environmental changes have not been widely recognized as its drivers. Here, we provide a comprehensive overview of the relationships between environmental degradation and antibiotic resistance, demonstrating that the former can potentially fuel the latter with significant public health outcomes. We describe that (i) global warming favors horizontal gene transfer, bacterial infections, the spread of drug-resistant pathogens due to water scarcity, and the release of resistance genes with wastewater; (ii) pesticide and metal pollution act as co-selectors of antibiotic resistance mechanisms; (iii) microplastics create conditions promoting and spreading antibiotic resistance and resistant bacteria; (iv) changes in land use, deforestation, and environmental pollution reduce microbial diversity, a natural barrier to antibiotic resistance spread. We argue that management of antibiotic resistance must integrate environmental goals, including mitigation of further increases in the Earth's surface temperature, better qualitative and quantitative protection of water resources, strengthening of sewage infrastructure and improving wastewater treatment, counteracting the microbial diversity loss, reduction of pesticide and metal emissions, and plastic use, and improving waste recycling. These actions should be accompanied by restricting antibiotic use only to clinically justified situations, developing novel treatments, and promoting prophylaxis. It is pivotal for health authorities and the medical community to adopt the protection of environmental quality as a part of public health measures, also in the context of antibiotic resistance management.
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Affiliation(s)
- Piotr Rzymski
- Department of Environmental Medicine, Poznan University of Medical Sciences, Poznań, Poland.
| | - Willis Gwenzi
- Biosystems and Environmental Engineering Research Group, 380 New Adylin, Marlborough, Harare, Zimbabwe; Alexander von Humboldt Fellow and Guest Professor, Grassland Science and Renewable Plant Resources, Faculty of Organic Agricultural Sciences, Universität Kassel, Witzenhausen, Germany; Alexander von Humboldt Fellow and Guest Professor, Leibniz Institute for Agricultural Engineering and Bioeconomy, Potsdam, Germany
| | - Barbara Poniedziałek
- Department of Environmental Medicine, Poznan University of Medical Sciences, Poznań, Poland
| | - Serghei Mangul
- Titus Family Department of Clinical Pharmacy, USC Alfred E. Mann School of Pharmacy and Pharmaceutical Sciences, University of Southern California, Los Angeles, CA, USA
| | - Andrzej Fal
- Department of Allergy, Lung Diseases and Internal Medicine Central Clinical Hospital, Ministry of Interior, Warsaw, Poland; Collegium Medicum, Warsaw Faculty of Medicine, Cardinal Stefan Wyszyński University, Warsaw, Poland
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22
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Zhang S, Xia M, Pan Z, Wang J, Yin Y, Lv J, Hu L, Shi J, Jiang T, Wang D. Soil organic matter degradation and methylmercury dynamics in Hg-contaminated soils: Relationships and driving factors. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 356:120432. [PMID: 38479282 DOI: 10.1016/j.jenvman.2024.120432] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2023] [Revised: 02/01/2024] [Accepted: 02/17/2024] [Indexed: 04/07/2024]
Abstract
Biodegradation of soil organic matter (SOM), which involves greenhouse gas (GHG) emissions, plays an essential role in the global carbon cycle. Over the past few decades, this has become an important research focus, particularly in natural ecosystems. SOM biodegradation significantly affects contaminants in the environment, such as mercury (Hg) methylation, producing highly toxic methylmercury (MeHg). However, the potential link between GHG production from SOM turnover in contaminated soils and biogeochemical processes involving contaminants remains unclear. In this study, we investigated the dynamics of GHG, MeHg production, and the relationship between biogeochemical processes in soils from two typical Hg mining sites. The two contaminated soils have different pathways, explaining the significant variations in GHG and MeHg production. The divergence of the microbial communities in these two biogeochemical processes is essential. In addition to the microbial role, abiotic factors such as Hg species can significantly affect MeHg production. On the other hand, we found an inverse relationship between CH4 and MeHg, suggesting that carbon emission reduction policies and management could inadvertently increase the MeHg levels. This highlights the need for an eclectic approach to organic carbon sequestration and contaminant containment. These findings suggest that it is difficult to establish a general pattern to describe and explain the SOM degradation and MeHg production in contaminated soils within the specific scenarios. However, this study provides a case study and helpful insights for further understanding the links between environmental risks and carbon turnover in Hg mining areas.
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Affiliation(s)
- Siqi Zhang
- Interdisciplinary Research Centre for Agriculture Green Development in Yangtze River Basin, Department of Environmental Sciences and Engineering, College of Resources and Environment, Southwest University, Chongqing, 400716, China
| | - Meng Xia
- Interdisciplinary Research Centre for Agriculture Green Development in Yangtze River Basin, Department of Environmental Sciences and Engineering, College of Resources and Environment, Southwest University, Chongqing, 400716, China
| | - Zhaoyang Pan
- Interdisciplinary Research Centre for Agriculture Green Development in Yangtze River Basin, Department of Environmental Sciences and Engineering, College of Resources and Environment, Southwest University, Chongqing, 400716, China; State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang, 550081, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Jianxu Wang
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang, 550081, China
| | - Yongguang Yin
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China; Laboratory of Environmental Nanotechnology and Health Effect, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China; Hubei Key Laboratory of Environmental and Health Effects of Persistent Toxic Substances, School of Environment and Health, Jianghan University, Wuhan, 430056, China
| | - Jitao Lv
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
| | - Ligang Hu
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China; Hubei Key Laboratory of Environmental and Health Effects of Persistent Toxic Substances, School of Environment and Health, Jianghan University, Wuhan, 430056, China
| | - Jianbo Shi
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China; Hubei Key Laboratory of Environmental and Health Effects of Persistent Toxic Substances, School of Environment and Health, Jianghan University, Wuhan, 430056, China
| | - Tao Jiang
- Interdisciplinary Research Centre for Agriculture Green Development in Yangtze River Basin, Department of Environmental Sciences and Engineering, College of Resources and Environment, Southwest University, Chongqing, 400716, China; Hubei Key Laboratory of Environmental and Health Effects of Persistent Toxic Substances, School of Environment and Health, Jianghan University, Wuhan, 430056, China.
| | - Dingyong Wang
- Interdisciplinary Research Centre for Agriculture Green Development in Yangtze River Basin, Department of Environmental Sciences and Engineering, College of Resources and Environment, Southwest University, Chongqing, 400716, China
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23
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Pei L, Ye S, Xie L, Zhou P, He L, Yang S, Ding X, Yuan H, Dai T, Laws EA. Differential effects of warming on the complexity and stability of the microbial network in Phragmites australis and Spartina alterniflora wetlands in Yancheng, Jiangsu Province, China. Front Microbiol 2024; 15:1347821. [PMID: 38601935 PMCID: PMC11004437 DOI: 10.3389/fmicb.2024.1347821] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2023] [Accepted: 03/11/2024] [Indexed: 04/12/2024] Open
Abstract
The impact of climate warming on soil microbial communities can significantly influence the global carbon cycle. Coastal wetlands, in particular, are susceptible to changes in soil microbial community structure due to climate warming and the presence of invasive plant species. However, there is limited knowledge about how native and invasive plant wetland soil microbes differ in their response to warming. In this study, we investigated the temporal dynamics of soil microbes (prokaryotes and fungi) under experimental warming in two coastal wetlands dominated by native Phragmites australis (P. australis) and invasive Spartina alterniflora (S. alterniflora). Our research indicated that short-term warming had minimal effects on microbial abundance, diversity, and composition. However, it did accelerate the succession of soil microbial communities, with potentially greater impacts on fungi than prokaryotes. Furthermore, in the S. alterniflora wetland, experimental warming notably increased the complexity and connectivity of the microbial networks. While in the P. australis wetland, it decreased these factors. Analysis of robustness showed that experimental warming stabilized the co-occurrence network of the microbial community in the P. australis wetland, but destabilized it in the S. alterniflora wetland. Additionally, the functional prediction analysis using the Faprotax and FunGuild databases revealed that the S. alterniflora wetland had a higher proportion of saprotrophic fungi and prokaryotic OTUs involved in carbon degradation (p < 0.05). With warming treatments, there was an increasing trend in the proportion of prokaryotic OTUs involved in carbon degradation, particularly in the S. alterniflora wetland. Therefore, it is crucial to protect native P. australis wetlands from S. alterniflora invasion to mitigate carbon emissions and preserve the health of coastal wetland ecosystems under future climate warming in China.
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Affiliation(s)
- Lixin Pei
- Qingdao Institute of Marine Geology, China Geologic Survey, Qingdao, China
- Laboratory for Marine Geology, Qingdao Marine Science and Technology Center, Qingdao, China
| | - Siyuan Ye
- Qingdao Institute of Marine Geology, China Geologic Survey, Qingdao, China
- Laboratory for Marine Geology, Qingdao Marine Science and Technology Center, Qingdao, China
| | - Liujuan Xie
- Qingdao Institute of Marine Geology, China Geologic Survey, Qingdao, China
- Laboratory for Marine Geology, Qingdao Marine Science and Technology Center, Qingdao, China
| | - Pan Zhou
- Qingdao Institute of Marine Geology, China Geologic Survey, Qingdao, China
- Laboratory for Marine Geology, Qingdao Marine Science and Technology Center, Qingdao, China
| | - Lei He
- Qingdao Institute of Marine Geology, China Geologic Survey, Qingdao, China
- Laboratory for Marine Geology, Qingdao Marine Science and Technology Center, Qingdao, China
| | - Shixiong Yang
- Qingdao Institute of Marine Geology, China Geologic Survey, Qingdao, China
- Laboratory for Marine Geology, Qingdao Marine Science and Technology Center, Qingdao, China
| | - Xigui Ding
- Qingdao Institute of Marine Geology, China Geologic Survey, Qingdao, China
- Laboratory for Marine Geology, Qingdao Marine Science and Technology Center, Qingdao, China
| | - Hongming Yuan
- Qingdao Institute of Marine Geology, China Geologic Survey, Qingdao, China
- Laboratory for Marine Geology, Qingdao Marine Science and Technology Center, Qingdao, China
| | - Tianjiao Dai
- School of Water Resources and Environment, China University of Geosciences (Beijing), Beijing, China
| | - Edward A. Laws
- Department of Environmental Sciences, College of the Coast and Environment, Louisiana State University, Baton Rouge, LA, United States
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Hao H, Yue Y, Chen Q, Yang Y, Kuai B, Wang Q, Xiao T, Chen H, Zhang J. Effects of an efficient straw decomposition system mediated by Stropharia rugosoannulata on soil properties and microbial communities in forestland. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 916:170226. [PMID: 38280599 DOI: 10.1016/j.scitotenv.2024.170226] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/25/2023] [Revised: 12/20/2023] [Accepted: 01/15/2024] [Indexed: 01/29/2024]
Abstract
Cultivation of Stropharia rugosoannulata with straw in forestland is effective for straw biodegradation and can prevent the waste of straw resources and environmental pollution and generate economic benefits. However, there is a lack of systematic evaluation of spent mushroom substrate (SMS) input into forestland, such as soil properties and microbial succession. In this experiment, 0 (CK), 10 (SA), 20 (SB), 30 (SC), 40 (SD), and 50 (SE) kg/m2 straw were used to cultivate S. rugosoannulata, and two soil layers (0-10 cm, 10-20 cm) of the cultivated forestland were analyzed. The results indicated that SMS significantly promoted nutrient accumulation in forestland. The bacterial alpha diversity in the SC treatment group was greater than that in the control and gradually decreased to the control level with interannual changes, while the trend of fungal alpha diversity was opposite to that of bacterial alpha diversity. Furthermore, the SC treatment group positively affected soil nitrogen metabolism-related microorganisms for two consecutive years and significantly promoted tree growth. Habitat niche breadth and null model analysis revealed that bacterial communities were more sensitive than fungal communities after SMS input. Linear mixed model (LMM) analysis revealed that SMS supplementation significantly positively affected bacteria (Gammaproteobacteria and Bacteroidota) and significantly negatively affected fungi (Coniochaetales). The constructed fungal-bacterial co-occurrence networks exhibited modularity, and the five types of bacteria were significantly correlated with soil organic matter (SOM), soil organic carbon (SOC), available potassium (AK), available phosphorus (AAP) and available nitrogen (AN) levels. The structural equation model (SEM) showed that bacterial diversity responded more to changes in soil nutrients than did fungal diversity. Overall, 30 kg/m2 of straw decomposition and 2 years of continuous cultivation were beneficial to soil health. This study provides new insights into the rational decomposition of straw and maintenance of forestland ecological balance by S. rugosoannulata.
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Affiliation(s)
- Haibo Hao
- National Research Center for Edible Fungi Biotechnology and Engineering, Key Laboratory of Applied Mycological Resources and Utilization, Ministry of Agriculture, Shanghai Key Laboratory of Agricultural Genetics and Breeding, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; State Key Laboratory of Genetic Engineering and Fudan Center for Genetic Diversity and Designing Agriculture, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Yihong Yue
- National Research Center for Edible Fungi Biotechnology and Engineering, Key Laboratory of Applied Mycological Resources and Utilization, Ministry of Agriculture, Shanghai Key Laboratory of Agricultural Genetics and Breeding, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China
| | - Qun Chen
- School of Biology Food and Environment, Hefei University, Hefei 23060, China
| | - Yan Yang
- National Research Center for Edible Fungi Biotechnology and Engineering, Key Laboratory of Applied Mycological Resources and Utilization, Ministry of Agriculture, Shanghai Key Laboratory of Agricultural Genetics and Breeding, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China
| | - Benke Kuai
- State Key Laboratory of Genetic Engineering and Fudan Center for Genetic Diversity and Designing Agriculture, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Qian Wang
- National Research Center for Edible Fungi Biotechnology and Engineering, Key Laboratory of Applied Mycological Resources and Utilization, Ministry of Agriculture, Shanghai Key Laboratory of Agricultural Genetics and Breeding, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China
| | - Tingting Xiao
- National Research Center for Edible Fungi Biotechnology and Engineering, Key Laboratory of Applied Mycological Resources and Utilization, Ministry of Agriculture, Shanghai Key Laboratory of Agricultural Genetics and Breeding, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China
| | - Hui Chen
- National Research Center for Edible Fungi Biotechnology and Engineering, Key Laboratory of Applied Mycological Resources and Utilization, Ministry of Agriculture, Shanghai Key Laboratory of Agricultural Genetics and Breeding, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China.
| | - Jinjing Zhang
- National Research Center for Edible Fungi Biotechnology and Engineering, Key Laboratory of Applied Mycological Resources and Utilization, Ministry of Agriculture, Shanghai Key Laboratory of Agricultural Genetics and Breeding, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China.
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25
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Li D, Wu J. Canopy nitrogen addition and understory removal destabilize the microbial community in a subtropical Chinese fir plantation. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 354:120407. [PMID: 38368803 DOI: 10.1016/j.jenvman.2024.120407] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2023] [Revised: 02/04/2024] [Accepted: 02/15/2024] [Indexed: 02/20/2024]
Abstract
Subtropical Chinese fir plantations have been experiencing increased nitrogen deposition and understory management because of human activities. Nevertheless, effect of increased nitrogen deposition and understory removal in the plantations on microbial community stability and the resulting consequences for ecosystem functioning is still unclear. We carried out a 5-year experiment of canopy nitrogen addition (2.5 g N m-2 year-1), understory removal, and their combination to assess their influences on microbial community stability and functional potentials in a subtropical Chinese fir plantation. Nitrogen addition, understory removal, and their combination reduced soil bacterial diversity (OUT richness, Inverse Simpson index, Shannon index, and phylogenetic diversity) by 11-18%, 15-24%, and 19-31%; reduced fungal diversity indexes by 3-5%, 5-6%, and 5-7%, respectively. We found that environmental filtering and interspecific interactions together determined changes in bacterial community stability, while changes in fungal community stability were mainly caused by environmental filtering. Fungi were more stable than bacteria under disturbances, possibly from having a more stable network structure. Furthermore, we found that microbial community stability was linked to changes in microbial community functional potentials. Importantly, we observed synergistic interactions between understory removal and nitrogen addition on bacterial diversity, network structure, and community stability. These findings suggest that understory plants play a significant role in promoting soil microbial community stability in subtropical Chinese fir plantations and help to mitigate the negative impacts of nitrogen addition. Hence, it is crucial to retain understory vegetation as important components of subtropical plantations.
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Affiliation(s)
- Debao Li
- Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology and Institute of Biodiversity, School of Ecology and Environmental Science, Yunnan University, Kunming, 650 500, China; Laboratory of Soil Ecology and Health in Universities of Yunnan Province, Yunnan University, Kunming, 650500, China
| | - Jianping Wu
- Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology and Institute of Biodiversity, School of Ecology and Environmental Science, Yunnan University, Kunming, 650 500, China; Laboratory of Soil Ecology and Health in Universities of Yunnan Province, Yunnan University, Kunming, 650500, China.
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26
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Yang J, Liu W, Han X, Hao X, Yao Q, Du W. Gut microbiota modulation enhances the immune capacity of lizards under climate warming. MICROBIOME 2024; 12:37. [PMID: 38388458 PMCID: PMC10882899 DOI: 10.1186/s40168-023-01736-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2023] [Accepted: 12/04/2023] [Indexed: 02/24/2024]
Abstract
BACKGROUND Host-microbial interactions are expected to affect species' adaptability to climate change but have rarely been explored in ectothermic animals. Some studies have shown that short-term warming reduced gut microbial diversity that could hamper host functional performance. RESULTS However, our longitudinal experiments in semi-natural conditions demonstrated that warming decreased gut microbiota diversity at 2 months, but increased diversity at 13 and 27 months in a desert lizard (Eremias multiocellata). Simultaneously, long-term warming significantly increased the antibacterial activity of serum, immune responses (higher expression of intestinal immune-related genes), and the concentration of short-chain fatty acids (thereby intestinal barrier and immunity) in the lizard. Fecal microbiota transplant experiments further revealed that increased diversity of gut microbiota significantly enhanced antibacterial activity and the immune response of lizards. More specifically, the enhanced immunity is likely due to the higher relative abundance of Bacteroides in warming lizards, given that the bacteria of Bacteroides fragilis regulated IFN-β expression to increase the immune response of lizards under a warming climate. CONCLUSIONS Our study suggests that gut microbiota can help ectotherms cope with climate warming by enhancing host immune response, and highlights the importance of long-term studies on host-microbial interactions and their biological impacts.
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Affiliation(s)
- Jing Yang
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Weiqiang Liu
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Xingzhi Han
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China
- College of Wildlife and Protected Areas, Northeast Forestry University, Harbin, 150040, China
| | - Xin Hao
- School of Tropical Agriculture and Forestry (School of Agricultural and Rural, School of Rural Revitalization), Hainan University, Danzhou, 571737, China
| | - Qibin Yao
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Weiguo Du
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China.
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27
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Wu Y, Zhou S, Li Y, Niu L, Wang L. Climate and local environment co-mediate the taxonomic and functional diversity of bacteria and archaea in the Qinghai-Tibet Plateau rivers. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 912:168968. [PMID: 38042190 DOI: 10.1016/j.scitotenv.2023.168968] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/08/2023] [Revised: 11/18/2023] [Accepted: 11/26/2023] [Indexed: 12/04/2023]
Abstract
Understanding the environmental response patterns of riverine microbiota is essential for predicting the potential impact of future environmental change on river ecosystems. Vulnerable plateau ecosystems are particularly sensitive to climate and local environmental changes, however, the environmental response patterns of the taxonomic and functional diversity of riverine microbiota remain unclear. Here, we conducted a systematic investigation of the taxonomic and functional diversity of bacteria and archaea from riparian soils, sediments, and water across the elevation of 1800- 4800 m in the Qinghai-Tibet Plateau rivers. We found that within the elevation range of 1800 to 3800 m, riparian soils and sediments exhibited similarities and stabilities in microbial taxonomic and functional diversity, and water microbiomes were more sensitive with great fluctuations in microbial diversity. Beyond the elevation of 3800 m, microbial diversity declined across all riverine matrixes. Local environmental conditions can influence the sensitivity of microbiomes to climate change. The combination of critical climate and local environmental factors, including total nitrogen, total organic carbon, as well as climate variables associated with temperature and precipitation, provided better explanations for microbial diversity than single-factor analyses. Under the extremely adverse scenario of high greenhouse gas emission concentrations (SSP585), we anticipate that by the end of this century, the bacterial, archaeal, and microbial functional diversity across the river network of the Yangtze and Yellow source basin would potentially change by -16.9- 5.2 %, -16.1- 5.7 %, and -9.3- 6.4 %, respectively. Overall, climate and local environments jointly shaped the microbial diversity in plateau river ecosystems, and water microbiomes would provide early signs of environmental changes. Our study provides effective theoretical foundations for the conservation of river biodiversity and functional stability under environmental changes.
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Affiliation(s)
- Yunyu Wu
- College of Hydrology and Water Resources, Hohai University, Nanjing 210024, PR China
| | - Shubu Zhou
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing 210024, PR China
| | - Yi Li
- College of Hydrology and Water Resources, Hohai University, Nanjing 210024, PR China.
| | - Lihua Niu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing 210024, PR China.
| | - Linqiong Wang
- College of Oceanography, Hohai University, Nanjing 210024, PR China
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28
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Lu N, Yang H, Zhou X, Tan Y, Cai W, Jiang Q, Lu Y, Chen Y, He H, Wang S. The loss of plant functional groups increased arthropod diversity in an alpine meadow on the Tibetan Plateau. FRONTIERS IN PLANT SCIENCE 2024; 15:1305768. [PMID: 38434435 PMCID: PMC10904612 DOI: 10.3389/fpls.2024.1305768] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/02/2023] [Accepted: 02/02/2024] [Indexed: 03/05/2024]
Abstract
Plant species loss, driven by global changes and human activities, can have cascading effects on other trophic levels, such as arthropods, and alter the multitrophic structure of ecosystems. While the relationship between plant diversity and arthropod communities has been well-documented, few studies have explored the effects of species composition variation or plant functional groups. In this study, we conducted a long-term plant removal experiment to investigate the impact of plant functional group loss (specifically targeting tall grasses and sedges, as well as tall or short forbs) on arthropod diversity and their functional groups. Our findings revealed that the removal of plant functional groups resulted in increased arthropod richness, abundance and the exponential of Shannon entropy, contrary to the commonly observed positive correlation between plant diversity and consumer diversity. Furthermore, the removal of different plant groups had varying impacts on arthropod trophic levels. The removal of forbs had a more pronounced impact on herbivores compared to graminoids, but this impact did not consistently cascade to higher-trophic arthropods. Notably, the removal of short forbs had a more significant impact on predators, as evidenced by the increased richness, abundance, the exponential of Shannon entropy, inverse Simpson index and inverse Berger-Parker index of carnivores and abundance of omnivores, likely attributable to distinct underlying mechanisms. Our results highlight the importance of plant species identity in shaping arthropod communities in alpine grasslands. This study emphasizes the crucial role of high plant species diversity in controlling arthropods in natural grasslands, particularly in the context of plant diversity loss caused by global changes and human activities.
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Affiliation(s)
- Ningna Lu
- College of Life Science, Northwest Normal University, Lanzhou, China
| | - Hainian Yang
- College of Life Science, Northwest Normal University, Lanzhou, China
| | - Xianhui Zhou
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, China
| | - Yun Tan
- College of Life Science, Northwest Normal University, Lanzhou, China
| | - Wei Cai
- College of Life Science, Northwest Normal University, Lanzhou, China
| | - Qin Jiang
- College of Life Science, Northwest Normal University, Lanzhou, China
| | - Ying Lu
- College of Life Science, Northwest Normal University, Lanzhou, China
| | - Yangyang Chen
- College of Life Science, Northwest Normal University, Lanzhou, China
| | - Haocheng He
- College of Life Science, Northwest Normal University, Lanzhou, China
| | - Sheng Wang
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, China
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29
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Zhao J, Xie X, Jiang Y, Li J, Fu Q, Qiu Y, Fu X, Yao Z, Dai Z, Qiu Y, Chen H. Effects of simulated warming on soil microbial community diversity and composition across diverse ecosystems. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 911:168793. [PMID: 37996030 DOI: 10.1016/j.scitotenv.2023.168793] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2023] [Revised: 11/20/2023] [Accepted: 11/20/2023] [Indexed: 11/25/2023]
Abstract
Soil warming can directly affect the microbial community, or indirectly affect the microbial community by affecting soil moisture, nutrient availability, vegetation growth, etc. However, the response of microorganisms to soil warming is complex, and there is no uniform conclusion on the impact and mechanism of warming on microbial diversity. As the global climate gradually warms, a comprehensive assessment of warming on soil microbial community changes is essential to understand and predict the response of microbial geochemical processes to soil warming. Here, we perform a meta-analysis of studies to investigate changes in soil microbial communities along soil warming gradients and the response of soil microbes to elevated temperature in different ecosystems. We found that the α diversity index of soil microorganisms decreased significantly with the increase in temperature, and the β diversity altered with the increase in soil temperature and the shifts in ecosystem. Most bacteria only alter when the temperature rises higher. Compared to the non-warming condition, the relative abundance of Acidobacteria, Proteobacteria, Bacteroidetes, Planctomycetes and Verrucomicrobia decreased by 19 %, 11 %, 19 %, 8 % and 6 %, respectively, and the relative abundance of Firmicutes increased by 34 %. Compared to farmland, forest, grassland and tundra ecosystems, soil microorganisms in wetland ecosystems were more sensitive to temperature increase, and the changes in bacteria were consistent with the overall alterations. This meta-analysis revealed significant changes in the composition of microbial communities on soil warming. With the decrease in biodiversity under increasing temperature conditions, these dominant microbiomes, which can grow well under high-temperature conditions, will play a stronger role in regulating nutrient and energy flow. Our analysis adds a global perspective to the temperature response of soil microbes, which is critical to improving our understanding of the mechanisms of how soil microbes change in response to climate warming.
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Affiliation(s)
- Jiayi Zhao
- State Key Laboratory of Biocontrol, School of Ecology, Shenzhen Campus of Sun Yat-sen University, Shenzhen, Guangdong 518107, China
| | - Xuan Xie
- State Key Laboratory of Biocontrol, School of Ecology, Shenzhen Campus of Sun Yat-sen University, Shenzhen, Guangdong 518107, China
| | - Yuying Jiang
- State Key Laboratory of Biocontrol, School of Ecology, Shenzhen Campus of Sun Yat-sen University, Shenzhen, Guangdong 518107, China
| | - Jiaxin Li
- State Key Laboratory of Biocontrol, School of Ecology, Shenzhen Campus of Sun Yat-sen University, Shenzhen, Guangdong 518107, China
| | - Qi Fu
- State Key Laboratory of Biocontrol, School of Ecology, Shenzhen Campus of Sun Yat-sen University, Shenzhen, Guangdong 518107, China
| | - Yingbo Qiu
- State Key Laboratory of Biocontrol, School of Ecology, Shenzhen Campus of Sun Yat-sen University, Shenzhen, Guangdong 518107, China
| | - Xianheng Fu
- State Key Laboratory of Biocontrol, School of Ecology, Shenzhen Campus of Sun Yat-sen University, Shenzhen, Guangdong 518107, China
| | - Zhiyuan Yao
- School of Civil and Environmental Engineering, Ningbo University, Ningbo, Zhejiang 315211, China
| | - Zhongmin Dai
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, Zhejiang 310058, China
| | - Yunpeng Qiu
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
| | - Huaihai Chen
- State Key Laboratory of Biocontrol, School of Ecology, Shenzhen Campus of Sun Yat-sen University, Shenzhen, Guangdong 518107, China.
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30
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Tao X, Yang Z, Feng J, Jian S, Yang Y, Bates CT, Wang G, Guo X, Ning D, Kempher ML, Liu XJA, Ouyang Y, Han S, Wu L, Zeng Y, Kuang J, Zhang Y, Zhou X, Shi Z, Qin W, Wang J, Firestone MK, Tiedje JM, Zhou J. Experimental warming accelerates positive soil priming in a temperate grassland ecosystem. Nat Commun 2024; 15:1178. [PMID: 38331994 PMCID: PMC10853207 DOI: 10.1038/s41467-024-45277-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2023] [Accepted: 01/19/2024] [Indexed: 02/10/2024] Open
Abstract
Unravelling biosphere feedback mechanisms is crucial for predicting the impacts of global warming. Soil priming, an effect of fresh plant-derived carbon (C) on native soil organic carbon (SOC) decomposition, is a key feedback mechanism that could release large amounts of soil C into the atmosphere. However, the impacts of climate warming on soil priming remain elusive. Here, we show that experimental warming accelerates soil priming by 12.7% in a temperate grassland. Warming alters bacterial communities, with 38% of unique active phylotypes detected under warming. The functional genes essential for soil C decomposition are also stimulated, which could be linked to priming effects. We incorporate lab-derived information into an ecosystem model showing that model parameter uncertainty can be reduced by 32-37%. Model simulations from 2010 to 2016 indicate an increase in soil C decomposition under warming, with a 9.1% rise in priming-induced CO2 emissions. If our findings can be generalized to other ecosystems over an extended period of time, soil priming could play an important role in terrestrial C cycle feedbacks and climate change.
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Affiliation(s)
- Xuanyu Tao
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Zhifeng Yang
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Jiajie Feng
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Siyang Jian
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Yunfeng Yang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, 100084, Beijing, China.
| | - Colin T Bates
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Gangsheng Wang
- Institute for Water-Carbon Cycles and Carbon Neutrality, and State Key Laboratory of Water Resources Engineering and Management, Wuhan University, 430072, Wuhan, China
| | - Xue Guo
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, 100084, Beijing, China
| | - Daliang Ning
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Megan L Kempher
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Xiao Jun A Liu
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Yang Ouyang
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Shun Han
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Linwei Wu
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Yufei Zeng
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, 100084, Beijing, China
| | - Jialiang Kuang
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Ya Zhang
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Xishu Zhou
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Zheng Shi
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Wei Qin
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA
| | - Jianjun Wang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academic of Sciences, 210008, Nanjing, China
| | - Mary K Firestone
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, Berkeley, California, CA, 94720, USA
- Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - James M Tiedje
- Center for Microbial Ecology, Michigan State University, East Lansing, MI, 48824, USA
| | - Jizhong Zhou
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, 73019, USA.
- School of Biological Sciences, University of Oklahoma, Norman, OK, 73019, USA.
- Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
- School of Civil Engineering and Environmental Sciences, University of Oklahoma, Norman, OK, 73019, USA.
- School of Computer Sciences, University of Oklahoma, Norman, OK, 73019, USA.
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31
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Liu J, Xu Y, Si YJ, Li BQ, Chen P, Wu LL, Guo P, Ji RQ. The Diverse Mycorrizal Morphology of Rhododendron dauricum, the Fungal Communities Structure and Dynamics from the Mycorrhizosphere. J Fungi (Basel) 2024; 10:65. [PMID: 38248974 PMCID: PMC10817234 DOI: 10.3390/jof10010065] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2023] [Revised: 01/10/2024] [Accepted: 01/11/2024] [Indexed: 01/23/2024] Open
Abstract
It is generally believed that mycorrhiza is a microecosystem composed of mycorrhizal fungi, host plants and other microscopic organisms. The mycorrhiza of Rhododendron dauricum is more complex and the diverse morphology of our investigated results displays both typical ericoid mycorrhizal characteristics and ectomycorrhizal traits. The characteristics of ectendoomycorrhiza, where mycelial invade from the outside into the root cells, have also been observed. In order to further clarify the mycorrhizal fungi members and other fungal communities of R. dauricum mycorrhiza, and explore the effects of vegetation and soil biological factors on their community structure, we selected two woodlands in the northeast of China as samples-one is a mixed forest of R. dauricum and Quercus mongolica, and the other a mixed forest of R. dauricum, Q. mongolica, and Pinus densiflor. The sampling time was during the local growing season, from June to September. High-throughput sequencing yielded a total of 3020 fungal amplicon sequence variants (ASVs), which were based on sequencing of the internal transcribed spacer ribosomal RNA (ITS rRNA) via the Illumina NovaSeq platform. In the different habitats of R. dauricum, there are differences in the diversity of fungi obtained from mycorrhizal niches, and specifically the mycorrhizal fungal community structure in the complex vegetation of mixed forests, where R. dauricum is found, exhibits greater stability, with relatively minor changes over time. Soil fungi are identified as the primary source of fungi within the mycorrhizal niche, and the abundance of mycorrhizal fungi from mycorrhizal niches in R. dauricum is significantly influenced by soil pH, organic matter, and available nitrogen. The relationship between soil fungi and mycorrhizal fungi from mycorrhizal niches is simultaneously found to be intricate, while the genus Hydnellum emerges as a central genus among mycorrhizal fungi from mycorrhizal niches. However, there is currently a substantial gap in the foundational research of this genus, including the fact that mycorrhizal fungi from mycorrhizal niches have, compared to fungi present in the soil, proven to be more sensitive to changes in soil moisture.
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Affiliation(s)
| | | | | | | | | | | | | | - Rui-Qing Ji
- Engineering Research Center of Edible and Medicinal Fungi, Ministry of Education, Jilin Agricultural University, Changchun 130118, China; (J.L.); (Y.X.); (Y.-J.S.); (B.-Q.L.); (P.C.); (L.-L.W.); (P.G.)
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32
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Fu F, Li Y, Zhang B, Zhu S, Guo L, Li J, Zhang Y, Li J. Differences in soil microbial community structure and assembly processes under warming and cooling conditions in an alpine forest ecosystem. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 907:167809. [PMID: 37863238 DOI: 10.1016/j.scitotenv.2023.167809] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Revised: 10/09/2023] [Accepted: 10/11/2023] [Indexed: 10/22/2023]
Abstract
Global climate change affects the soil microbial community assemblages of many ecosystems. However, little is known about the effects of climate warming on the structure of soil microbial communities or the underlying mechanisms that influence microbial community composition in alpine forest ecosystems. Thus, our ability to predict the future consequences of climate change is limited. In this study, with the use of PVC pipes, the in situ soils of the rush-tip long-bud Abies georgei var. smithii forest at 3500 and 4300 m above sea level (MASL) of the Sygera Mountains were incubated in pairs for 1 year to simulate climate cooling and warming. This shift corresponds to a change in soil temperature of ±4.7 °C. Findings showed that climate warming increased the complexity of bacterial networks but decreased the complexity of fungal networks. Climate cooling also increased the complexity of bacterial networks. However, in fungal communities, climate cooling increased the number of nodes but decreased the total number of edges. Stochastic processes acted as the drivers of bacterial community composition, with climate warming leading the shift from deterministic to stochastic drivers. Fungal communities were more sensitive to climate change than bacterial communities, with soil temperature (ST) and soil water content (SWC) acting as the main drivers of change. By contrast, soil bacterial communities were more closely related to soil conditions than fungal communities and remained stable after a year of soil transplantation. In conclusion, fungi and bacteria had different response patterns, and their responses to climate cooling and warming were asymmetric. This work is expected to contribute to our understanding of the response to climate change of soil microbial communities in alpine forests and our prediction of the functions of soil microbial ecosystems in alpine forests.
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Affiliation(s)
- Fangwei Fu
- Research Institute of Tibet Plateau Ecology, Tibet Agricultureal & Animal Husbandry University, Nyingchi, Tibet 860000, China; Key Laboratory of Forest Ecology in Tibet Plateau, Ministry of Education, Nyingchi, Tibet 860000, China; National Key Station of Field Scientific Observation & Experiment, Nyingchi, Tibet 860000, China; Key Laboratory of Alpine Vegetation Ecological Security in Tibet, Nyingchi, Tibet 860000, China
| | - Yueyao Li
- Research Institute of Tibet Plateau Ecology, Tibet Agricultureal & Animal Husbandry University, Nyingchi, Tibet 860000, China; Key Laboratory of Forest Ecology in Tibet Plateau, Ministry of Education, Nyingchi, Tibet 860000, China; National Key Station of Field Scientific Observation & Experiment, Nyingchi, Tibet 860000, China; Key Laboratory of Alpine Vegetation Ecological Security in Tibet, Nyingchi, Tibet 860000, China
| | - Bo Zhang
- Research Institute of Tibet Plateau Ecology, Tibet Agricultureal & Animal Husbandry University, Nyingchi, Tibet 860000, China; Key Laboratory of Forest Ecology in Tibet Plateau, Ministry of Education, Nyingchi, Tibet 860000, China; National Key Station of Field Scientific Observation & Experiment, Nyingchi, Tibet 860000, China; Key Laboratory of Alpine Vegetation Ecological Security in Tibet, Nyingchi, Tibet 860000, China
| | - Sijie Zhu
- Research Institute of Tibet Plateau Ecology, Tibet Agricultureal & Animal Husbandry University, Nyingchi, Tibet 860000, China; Key Laboratory of Forest Ecology in Tibet Plateau, Ministry of Education, Nyingchi, Tibet 860000, China; National Key Station of Field Scientific Observation & Experiment, Nyingchi, Tibet 860000, China; Key Laboratory of Alpine Vegetation Ecological Security in Tibet, Nyingchi, Tibet 860000, China
| | - Liangna Guo
- Research Institute of Tibet Plateau Ecology, Tibet Agricultureal & Animal Husbandry University, Nyingchi, Tibet 860000, China; Key Laboratory of Forest Ecology in Tibet Plateau, Ministry of Education, Nyingchi, Tibet 860000, China; National Key Station of Field Scientific Observation & Experiment, Nyingchi, Tibet 860000, China; Key Laboratory of Alpine Vegetation Ecological Security in Tibet, Nyingchi, Tibet 860000, China
| | - Jieting Li
- Research Institute of Tibet Plateau Ecology, Tibet Agricultureal & Animal Husbandry University, Nyingchi, Tibet 860000, China; Key Laboratory of Forest Ecology in Tibet Plateau, Ministry of Education, Nyingchi, Tibet 860000, China; National Key Station of Field Scientific Observation & Experiment, Nyingchi, Tibet 860000, China; Key Laboratory of Alpine Vegetation Ecological Security in Tibet, Nyingchi, Tibet 860000, China
| | - Yibo Zhang
- Research Institute of Tibet Plateau Ecology, Tibet Agricultureal & Animal Husbandry University, Nyingchi, Tibet 860000, China; Key Laboratory of Forest Ecology in Tibet Plateau, Ministry of Education, Nyingchi, Tibet 860000, China; National Key Station of Field Scientific Observation & Experiment, Nyingchi, Tibet 860000, China; Key Laboratory of Alpine Vegetation Ecological Security in Tibet, Nyingchi, Tibet 860000, China
| | - Jiangrong Li
- Research Institute of Tibet Plateau Ecology, Tibet Agricultureal & Animal Husbandry University, Nyingchi, Tibet 860000, China; Key Laboratory of Forest Ecology in Tibet Plateau, Ministry of Education, Nyingchi, Tibet 860000, China; National Key Station of Field Scientific Observation & Experiment, Nyingchi, Tibet 860000, China; Key Laboratory of Alpine Vegetation Ecological Security in Tibet, Nyingchi, Tibet 860000, China; State Key Laboratory of Tibetan Plateau Earth System, Resources and Environment (TPESRE), Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100101, China.
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Lei J, Su Y, Jian S, Guo X, Yuan M, Bates CT, Shi ZJ, Li J, Su Y, Ning D, Wu L, Zhou J, Yang Y. Warming effects on grassland soil microbial communities are amplified in cool months. THE ISME JOURNAL 2024; 18:wrae088. [PMID: 38747385 PMCID: PMC11170927 DOI: 10.1093/ismejo/wrae088] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/10/2024] [Revised: 03/25/2024] [Accepted: 05/14/2024] [Indexed: 06/14/2024]
Abstract
Global warming modulates soil respiration (RS) via microbial decomposition, which is seasonally dependent. Yet, the magnitude and direction of this modulation remain unclear, partly owing to the lack of knowledge on how microorganisms respond to seasonal changes. Here, we investigated the temporal dynamics of soil microbial communities over 12 consecutive months under experimental warming in a tallgrass prairie ecosystem. The interplay between warming and time altered (P < 0.05) the taxonomic and functional compositions of microbial communities. During the cool months (January to February and October to December), warming induced a soil microbiome with a higher genomic potential for carbon decomposition, community-level ribosomal RNA operon (rrn) copy numbers, and microbial metabolic quotients, suggesting that warming stimulated fast-growing microorganisms that enhanced carbon decomposition. Modeling analyses further showed that warming reduced the temperature sensitivity of microbial carbon use efficiency (CUE) by 28.7% when monthly average temperature was low, resulting in lower microbial CUE and higher heterotrophic respiration (Rh) potentials. Structural equation modeling showed that warming modulated both Rh and RS directly by altering soil temperature and indirectly by influencing microbial community traits, soil moisture, nitrate content, soil pH, and gross primary productivity. The modulation of Rh by warming was more pronounced in cooler months compared to warmer ones. Together, our findings reveal distinct warming-induced effects on microbial functional traits in cool months, challenging the norm of soil sampling only in the peak growing season, and advancing our mechanistic understanding of the seasonal pattern of RS and Rh sensitivity to warming.
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Affiliation(s)
- Jiesi Lei
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
| | - Yuanlong Su
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
| | - Siyang Jian
- Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, United States
| | - Xue Guo
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Mengting Yuan
- Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, United States
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, CA 94704, United States
| | - Colin T Bates
- Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, United States
| | - Zhou Jason Shi
- Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, United States
| | - Jiabao Li
- Key Laboratory of Environmental and Applied Microbiology, Chinese Academy of Sciences and Environmental Microbiology & Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610213, China
| | - Yifan Su
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
| | - Daliang Ning
- Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, United States
| | - Liyou Wu
- Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, United States
| | - Jizhong Zhou
- Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019, United States
- School of Civil Engineering and Environmental Sciences, University of Oklahoma, Norman, OK 73019, United States
- Earth and Environmental Sciences Area, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, United States
| | - Yunfeng Yang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
- Institute of Environment and Ecology, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China
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Tian J, Dungait JAJ, Hou R, Deng Y, Hartley IP, Yang Y, Kuzyakov Y, Zhang F, Cotrufo MF, Zhou J. Microbially mediated mechanisms underlie soil carbon accrual by conservation agriculture under decade-long warming. Nat Commun 2024; 15:377. [PMID: 38191568 PMCID: PMC10774409 DOI: 10.1038/s41467-023-44647-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2023] [Accepted: 12/20/2023] [Indexed: 01/10/2024] Open
Abstract
Increasing soil organic carbon (SOC) in croplands by switching from conventional to conservation management may be hampered by stimulated microbial decomposition under warming. Here, we test the interactive effects of agricultural management and warming on SOC persistence and underlying microbial mechanisms in a decade-long controlled experiment on a wheat-maize cropping system. Warming increased SOC content and accelerated fungal community temporal turnover under conservation agriculture (no tillage, chopped crop residue), but not under conventional agriculture (annual tillage, crop residue removed). Microbial carbon use efficiency (CUE) and growth increased linearly over time, with stronger positive warming effects after 5 years under conservation agriculture. According to structural equation models, these increases arose from greater carbon inputs from the crops, which indirectly controlled microbial CUE via changes in fungal communities. As a result, fungal necromass increased from 28 to 53%, emerging as the strongest predictor of SOC content. Collectively, our results demonstrate how management and climatic factors can interact to alter microbial community composition, physiology and functions and, in turn, SOC formation and accrual in croplands.
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Affiliation(s)
- Jing Tian
- State Key Laboratory of Nutrient Use and Management, College of Resources and Environmental Sciences, China Agricultural University, 100193, Beijing, PR China.
| | - Jennifer A J Dungait
- Geography, Faculty of Environment, Science and Economy, University of Exeter, Rennes Drive, Exeter, EX4 4RJ, UK
- Carbon Management Centre, SRUC-Scotland's Rural College, Edinburgh, EH9 3JG, UK
| | - Ruixing Hou
- Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences (CAS), 100101, Beijing, PR China
| | - Ye Deng
- CAS Key Laboratory for Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 100085, Beijing, PR China
| | - Iain P Hartley
- Geography, Faculty of Environment, Science and Economy, University of Exeter, Rennes Drive, Exeter, EX4 4RJ, UK
| | - Yunfeng Yang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing, PR China
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate Ecosystems, University of Göttingen, 37077, Göttingen, Germany
| | - Fusuo Zhang
- State Key Laboratory of Nutrient Use and Management, College of Resources and Environmental Sciences, China Agricultural University, 100193, Beijing, PR China.
| | - M Francesca Cotrufo
- Department of Soil and Crop Science, Colorado State University, Fort Collins, CO, USA.
| | - Jizhong Zhou
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA.
- School of Biological Sciences, University of Oklahoma, Norman, OK, USA.
- School of Civil Engineering and Environmental Sciences, University of Oklahoma, Norman, OK, USA.
- School of Computer Science, University of Oklahoma, Norman, OK, USA.
- Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
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Wang C, Kuzyakov Y. Mechanisms and implications of bacterial-fungal competition for soil resources. THE ISME JOURNAL 2024; 18:wrae073. [PMID: 38691428 PMCID: PMC11104273 DOI: 10.1093/ismejo/wrae073] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2024] [Revised: 03/24/2024] [Accepted: 04/24/2024] [Indexed: 05/03/2024]
Abstract
Elucidating complex interactions between bacteria and fungi that determine microbial community structure, composition, and functions in soil, as well as regulate carbon (C) and nutrient fluxes, is crucial to understand biogeochemical cycles. Among the various interactions, competition for resources is the main factor determining the adaptation and niche differentiation between these two big microbial groups in soil. This is because C and energy limitations for microbial growth are a rule rather than an exception. Here, we review the C and energy demands of bacteria and fungi-the two major kingdoms in soil-the mechanisms of their competition for these and other resources, leading to niche differentiation, and the global change impacts on this competition. The normalized microbial utilization preference showed that bacteria are 1.4-5 times more efficient in the uptake of simple organic compounds as substrates, whereas fungi are 1.1-4.1 times more effective in utilizing complex compounds. Accordingly, bacteria strongly outcompete fungi for simple substrates, while fungi take advantage of complex compounds. Bacteria also compete with fungi for the products released during the degradation of complex substrates. Based on these specifics, we differentiated spatial, temporal, and chemical niches for these two groups in soil. The competition will increase under the main five global changes including elevated CO2, N deposition, soil acidification, global warming, and drought. Elevated CO2, N deposition, and warming increase bacterial dominance, whereas soil acidification and drought increase fungal competitiveness.
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Affiliation(s)
- Chaoqun Wang
- National Key Laboratory of Wheat Improvement, College of Agronomy, Shandong Agricultural University, Tai'an 271018, Shandong, China
- Biogeochemistry of Agroecosystems, University of Göttingen, Göttingen 37077, Germany
- Faculty of Land and Food Systems, The University of British Columbia, Vancouver V6T1Z4, Canada
| | - Yakov Kuzyakov
- National Key Laboratory of Wheat Improvement, College of Agronomy, Shandong Agricultural University, Tai'an 271018, Shandong, China
- Department of Soil Science of Temperate Ecosystems, University of Göttingen, Göttingen 37077, Germany
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Liu B, Qi L, Zheng Y, Zhang C, Zhou J, An Z, Wang B, Lin Z, Yao C, Wang Y, Yin G, Dong H, Li X, Liang X, Han P, Liu M, Zhang G, Cui Y, Hou L. Four years of climate warming reduced dark carbon fixation in coastal wetlands. THE ISME JOURNAL 2024; 18:wrae138. [PMID: 39052319 PMCID: PMC11308615 DOI: 10.1093/ismejo/wrae138] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2024] [Revised: 06/24/2024] [Accepted: 07/24/2024] [Indexed: 07/27/2024]
Abstract
Dark carbon fixation (DCF), conducted mainly by chemoautotrophs, contributes greatly to primary production and the global carbon budget. Understanding the response of DCF process to climate warming in coastal wetlands is of great significance for model optimization and climate change prediction. Here, based on a 4-yr field warming experiment (average annual temperature increase of 1.5°C), DCF rates were observed to be significantly inhibited by warming in coastal wetlands (average annual DCF decline of 21.6%, and estimated annual loss of 0.08-1.5 Tg C yr-1 in global coastal marshes), thus causing a positive climate feedback. Under climate warming, chemoautotrophic microbial abundance and biodiversity, which were jointly affected by environmental changes such as soil organic carbon and water content, were recognized as significant drivers directly affecting DCF rates. Metagenomic analysis further revealed that climate warming may alter the pattern of DCF carbon sequestration pathways in coastal wetlands, increasing the relative importance of the 3-hydroxypropionate/4-hydroxybutyrate cycle, whereas the relative importance of the dominant chemoautotrophic carbon fixation pathways (Calvin-Benson-Bassham cycle and W-L pathway) may decrease due to warming stress. Collectively, our work uncovers the feedback mechanism of microbially mediated DCF to climate warming in coastal wetlands, and emphasizes a decrease in carbon sequestration through DCF activities in this globally important ecosystem under a warming climate.
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Affiliation(s)
- Bolin Liu
- Key Laboratory of Geographic Information Science of the Ministry of Education, School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
- State Key Laboratory of Estuarine and Coastal Research, Yangtze Delta Estuarine Wetland Ecosystem Observation and Research Station, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Lin Qi
- Key Laboratory of Geographic Information Science of the Ministry of Education, School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Yanling Zheng
- Key Laboratory of Geographic Information Science of the Ministry of Education, School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
- State Key Laboratory of Estuarine and Coastal Research, Yangtze Delta Estuarine Wetland Ecosystem Observation and Research Station, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Chao Zhang
- Key Laboratory of Geographic Information Science of the Ministry of Education, School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Jie Zhou
- State Key Laboratory of Estuarine and Coastal Research, Yangtze Delta Estuarine Wetland Ecosystem Observation and Research Station, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Zhirui An
- State Key Laboratory of Estuarine and Coastal Research, Yangtze Delta Estuarine Wetland Ecosystem Observation and Research Station, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Bin Wang
- State Key Laboratory of Estuarine and Coastal Research, Yangtze Delta Estuarine Wetland Ecosystem Observation and Research Station, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Zhuke Lin
- Key Laboratory of Geographic Information Science of the Ministry of Education, School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Cheng Yao
- Key Laboratory of Geographic Information Science of the Ministry of Education, School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Yixuan Wang
- Key Laboratory of Geographic Information Science of the Ministry of Education, School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Guoyu Yin
- Key Laboratory of Geographic Information Science of the Ministry of Education, School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Hongpo Dong
- State Key Laboratory of Estuarine and Coastal Research, Yangtze Delta Estuarine Wetland Ecosystem Observation and Research Station, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Xiaofei Li
- State Key Laboratory of Estuarine and Coastal Research, Yangtze Delta Estuarine Wetland Ecosystem Observation and Research Station, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Xia Liang
- State Key Laboratory of Estuarine and Coastal Research, Yangtze Delta Estuarine Wetland Ecosystem Observation and Research Station, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Ping Han
- Key Laboratory of Geographic Information Science of the Ministry of Education, School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Min Liu
- Key Laboratory of Geographic Information Science of the Ministry of Education, School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Guosen Zhang
- State Key Laboratory of Estuarine and Coastal Research, Yangtze Delta Estuarine Wetland Ecosystem Observation and Research Station, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Ying Cui
- State Key Laboratory of Estuarine and Coastal Research, Yangtze Delta Estuarine Wetland Ecosystem Observation and Research Station, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
| | - Lijun Hou
- State Key Laboratory of Estuarine and Coastal Research, Yangtze Delta Estuarine Wetland Ecosystem Observation and Research Station, East China Normal University, 500 Dongchuan Road, Shanghai 200241, China
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Liu XJA, Han S, Frey SD, Melillo JM, Zhou J, DeAngelis KM. Microbial responses to long-term warming differ across soil microenvironments. ISME COMMUNICATIONS 2024; 4:ycae051. [PMID: 38699060 PMCID: PMC11065356 DOI: 10.1093/ismeco/ycae051] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Revised: 03/26/2024] [Accepted: 04/02/2024] [Indexed: 05/05/2024]
Abstract
Soil carbon loss is likely to increase due to climate warming, but microbiomes and microenvironments may dampen this effect. In a 30-year warming experiment, physical protection within soil aggregates affected the thermal responses of soil microbiomes and carbon dynamics. In this study, we combined metagenomic analysis with physical characterization of soil aggregates to explore mechanisms by which microbial communities respond to climate warming across different soil microenvironments. Long-term warming decreased the relative abundances of genes involved in degrading labile compounds (e.g. cellulose), but increased those genes involved in degrading recalcitrant compounds (e.g. lignin) across aggregate sizes. These changes were observed in most phyla of bacteria, especially for Acidobacteria, Actinobacteria, Bacteroidetes, Chloroflexi, and Planctomycetes. Microbial community composition was considerably altered by warming, leading to declined diversity for bacteria and fungi but not for archaea. Microbial functional genes, diversity, and community composition differed between macroaggregates and microaggregates, indicating the essential role of physical protection in controlling microbial community dynamics. Our findings suggest that microbes have the capacity to employ various strategies to acclimate or adapt to climate change (e.g. warming, heat stress) by shifting functional gene abundances and community structures in varying microenvironments, as regulated by soil physical protection.
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Affiliation(s)
- Xiao Jun A Liu
- Department of Microbiology, University of Massachusetts, Amherst, MA 01003, United States
- Institute for Environmental Genomics and School of Biological Sciences, University of Oklahoma , Norman, OK 73019, United States
| | - Shun Han
- Institute for Environmental Genomics and School of Biological Sciences, University of Oklahoma , Norman, OK 73019, United States
| | - Serita D Frey
- Department of Natural Resources and the Environment, University of New Hampshire, Durham, NH 03824, United States
| | - Jerry M Melillo
- The Ecosystems Center, Marine Biological Laboratory, Woods Hole, MA 02543, United States
| | - Jizhong Zhou
- Institute for Environmental Genomics and School of Biological Sciences, University of Oklahoma , Norman, OK 73019, United States
- Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, United States
- School of Civil Engineering and Environmental Sciences and School of Computer Science, University of Oklahoma, Norman, OK 73019, United States
| | - Kristen M DeAngelis
- Department of Microbiology, University of Massachusetts, Amherst, MA 01003, United States
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Yang Y, Qiu K, Xie Y, Li X, Zhang S, Liu W, Huang Y, Cui L, Wang S, Bao P. Geographical, climatic, and soil factors control the altitudinal pattern of rhizosphere microbial diversity and its driving effect on root zone soil multifunctionality in mountain ecosystems. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 904:166932. [PMID: 37690759 DOI: 10.1016/j.scitotenv.2023.166932] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2023] [Revised: 09/05/2023] [Accepted: 09/06/2023] [Indexed: 09/12/2023]
Abstract
Shifts in rhizosphere soil microorganisms of dominant plants' response to climate change profoundly impact mountain soil ecosystem multifunctionality; relatively little is known about the relationship between them and how they depend on long-term environmental drivers. Here, we conducted analyses of rhizosphere microbial altitudinal pattern, community assembly, and co-occurrence network of 6 dominant plants in six typical vegetation zones ranging from 1350 to 2900 m (a.s.l.) in Helan Mountains by absolute quantitative sequencing technology, and finally related the microbiomes to root zone soil multifunctionality ('soil multifunctionality' hereafter), the environmental dependence of the relationship was explored. It was found that the altitudinal pattern of rhizosphere soil bacterial and fungal diversities differed significantly. Higher co-occurrence and more potential interactions of Stipa breviflora and Carex coninux were found at the lowest and highest altitudes. Bacterial α diversity, the identity of some dominant bacterial and fungal taxa, had significant positive or negative effects on soil multifunctionality. The effect sizes of positive effects of microbial diversity on soil multifunctionality were greater than those of negative effects. These results indicated that the balance of positive and negative effects of microbes determines the impact of microbial diversity on soil multifunctionality. As the number of microbes at the phylum level increases, there will be a net gain in soil multifunctionality. Our study reveals that geographical and climatic factors can directly or modulate the effects of soil properties on rhizosphere microbial diversity, thereby affecting the driving effect of microbial diversity on soil multifunctionality, and points to the rhizosphere bacterial diversity rather than the fungi being strongly associated with soil multifunctionality. This work has important ecological implications for predicting how multiple environment-plant-soil-microorganisms interactions in mountain ecosystems will respond to future climate change.
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Affiliation(s)
- Yi Yang
- College of Forestry and Prataculture, Ningxia University, Yinchuan, China; Ningxia Grassland and Animal Husbandry Engineering Technology Research Center, Yinchuan, China; Breeding Base for State Key Laboratory of Land Degradation and Ecological Restoration of Northwest China, Yinchuan, China; Key Laboratory for Model Innovation in Forage Production Efficiency, Ministry of Agriculture and Rural Affairs, Ningxia University, Yinchuan, China
| | - Kaiyang Qiu
- College of Forestry and Prataculture, Ningxia University, Yinchuan, China; Ningxia Grassland and Animal Husbandry Engineering Technology Research Center, Yinchuan, China; Breeding Base for State Key Laboratory of Land Degradation and Ecological Restoration of Northwest China, Yinchuan, China; Key Laboratory for Model Innovation in Forage Production Efficiency, Ministry of Agriculture and Rural Affairs, Ningxia University, Yinchuan, China.
| | - Yingzhong Xie
- College of Forestry and Prataculture, Ningxia University, Yinchuan, China; Ningxia Grassland and Animal Husbandry Engineering Technology Research Center, Yinchuan, China; Breeding Base for State Key Laboratory of Land Degradation and Ecological Restoration of Northwest China, Yinchuan, China; Key Laboratory for Model Innovation in Forage Production Efficiency, Ministry of Agriculture and Rural Affairs, Ningxia University, Yinchuan, China
| | - Xiaocong Li
- College of Forestry and Prataculture, Ningxia University, Yinchuan, China; Ningxia Grassland and Animal Husbandry Engineering Technology Research Center, Yinchuan, China; Breeding Base for State Key Laboratory of Land Degradation and Ecological Restoration of Northwest China, Yinchuan, China; Key Laboratory for Model Innovation in Forage Production Efficiency, Ministry of Agriculture and Rural Affairs, Ningxia University, Yinchuan, China
| | - Shuo Zhang
- College of Forestry and Prataculture, Ningxia University, Yinchuan, China; Ningxia Grassland and Animal Husbandry Engineering Technology Research Center, Yinchuan, China; Breeding Base for State Key Laboratory of Land Degradation and Ecological Restoration of Northwest China, Yinchuan, China; Key Laboratory for Model Innovation in Forage Production Efficiency, Ministry of Agriculture and Rural Affairs, Ningxia University, Yinchuan, China
| | - Wangsuo Liu
- College of Forestry and Prataculture, Ningxia University, Yinchuan, China; Ningxia Grassland and Animal Husbandry Engineering Technology Research Center, Yinchuan, China; Breeding Base for State Key Laboratory of Land Degradation and Ecological Restoration of Northwest China, Yinchuan, China; Key Laboratory for Model Innovation in Forage Production Efficiency, Ministry of Agriculture and Rural Affairs, Ningxia University, Yinchuan, China
| | - Yeyun Huang
- College of Forestry and Prataculture, Ningxia University, Yinchuan, China; Ningxia Grassland and Animal Husbandry Engineering Technology Research Center, Yinchuan, China; Breeding Base for State Key Laboratory of Land Degradation and Ecological Restoration of Northwest China, Yinchuan, China; Key Laboratory for Model Innovation in Forage Production Efficiency, Ministry of Agriculture and Rural Affairs, Ningxia University, Yinchuan, China
| | - Luyao Cui
- College of Forestry and Prataculture, Ningxia University, Yinchuan, China; Ningxia Grassland and Animal Husbandry Engineering Technology Research Center, Yinchuan, China; Breeding Base for State Key Laboratory of Land Degradation and Ecological Restoration of Northwest China, Yinchuan, China; Key Laboratory for Model Innovation in Forage Production Efficiency, Ministry of Agriculture and Rural Affairs, Ningxia University, Yinchuan, China
| | - Siyao Wang
- College of Forestry and Prataculture, Ningxia University, Yinchuan, China; Ningxia Grassland and Animal Husbandry Engineering Technology Research Center, Yinchuan, China; Breeding Base for State Key Laboratory of Land Degradation and Ecological Restoration of Northwest China, Yinchuan, China; Key Laboratory for Model Innovation in Forage Production Efficiency, Ministry of Agriculture and Rural Affairs, Ningxia University, Yinchuan, China
| | - Pingan Bao
- College of Forestry and Prataculture, Ningxia University, Yinchuan, China; Ningxia Grassland and Animal Husbandry Engineering Technology Research Center, Yinchuan, China; Breeding Base for State Key Laboratory of Land Degradation and Ecological Restoration of Northwest China, Yinchuan, China; Key Laboratory for Model Innovation in Forage Production Efficiency, Ministry of Agriculture and Rural Affairs, Ningxia University, Yinchuan, China
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Guo J, Wang X, Cao X, Qi W, Peng J, Liu H, Qu J. The influence of wet-to-dry season shifts on the microbial community stability and nitrogen cycle in the Poyang Lake sediment. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 903:166036. [PMID: 37544457 DOI: 10.1016/j.scitotenv.2023.166036] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2023] [Revised: 07/10/2023] [Accepted: 08/02/2023] [Indexed: 08/08/2023]
Abstract
In lake environments, seasonal changes can cause exposure of the lake sediment, leading to soil formation. Although previous studies have explored how environmental changes influence microbial functioning in the water-level-fluctuating zone, few studies have investigated how wholescale habitat changes affect microbial composition, community stability and ecological functions in lake environments. To address this issue, our study investigated the effects of sediment-to-soil conversion on microbial composition, community stability and subsequent ecological functioning in Poyang Lake, China. Our results revealed that, during sediment-to-soil conversion, the number of total and unique operational taxonomic units (OTUs) decreased by 40 % and 55 %, respectively. Moreover, sediment-to-soil conversion decreased the microbial community connectivity and complexity while significantly increasing its stability, as evidenced by increased absolute values of negative/positive cohesion. In sediment and soil, the abundance of dominant bacteria, and bacterial diversity strongly affected microbial community stability, although this phenomenon was not true in water. Furthermore, the specific microbial phyla and genes involved in the nitrogen cycle changed significantly following sediment-to-soil conversion, with the major nitrogen cycling processes altering from denitrification and dissimilatory nitrate reduction to ammonium to nitrification and assimilatory nitrate reduction to ammonia. Moreover, a compensation mechanism was observed in the functional genes related to the nitrogen cycle, such that all the processes in the nitrogen cycle were maintained following sediment-to-soil conversion. The oxidation-reduction potential strongly affected network complexity, microbial stability, and nitrogen cycling in the sediment and soil. These results aid in the understanding of responses of microorganisms to climate change and extreme drought. Our findings have considerable implications for predicting the ecological consequences of habitat conversion and for ecosystem management.
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Affiliation(s)
- Jiaxun Guo
- Center for Water and Ecology, State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
| | - Xu Wang
- Center for Water and Ecology, State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
| | - Xiaofeng Cao
- Center for Water and Ecology, State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
| | - Weixiao Qi
- Center for Water and Ecology, State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China.
| | - Jianfeng Peng
- Center for Water and Ecology, State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
| | - Huijuan Liu
- Center for Water and Ecology, State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
| | - Jiuhui Qu
- Center for Water and Ecology, State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China
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Thapa S, Zhou S, O'Hair J, Al Nasr K, Ropelewski A, Li H. Exploring the microbial diversity and characterization of cellulase and hemicellulase genes in goat rumen: a metagenomic approach. BMC Biotechnol 2023; 23:51. [PMID: 38049781 PMCID: PMC10696843 DOI: 10.1186/s12896-023-00821-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2023] [Accepted: 11/20/2023] [Indexed: 12/06/2023] Open
Abstract
BACKGROUND Goat rumen microbial communities are perceived as one of the most potential biochemical reservoirs of multi-functional enzymes, which are applicable to enhance wide array of bioprocesses such as the hydrolysis of cellulose and hemi-cellulose into fermentable sugar for biofuel and other value-added biochemical production. Even though, the limited understanding of rumen microbial genetic diversity and the absence of effective screening culture methods have impeded the full utilization of these potential enzymes. In this study, we applied culture independent metagenomics sequencing approach to isolate, and identify microbial communities in goat rumen, meanwhile, clone and functionally characterize novel cellulase and xylanase genes in goat rumen bacterial communities. RESULTS Bacterial DNA samples were extracted from goat rumen fluid. Three genomic libraries were sequenced using Illumina HiSeq 2000 for paired-end 100-bp (PE100) and Illumina HiSeq 2500 for paired-end 125-bp (PE125). A total of 435gb raw reads were generated. Taxonomic analysis using Graphlan revealed that Fibrobacter, Prevotella, and Ruminococcus are the most abundant genera of bacteria in goat rumen. SPAdes assembly and prodigal annotation were performed. The contigs were also annotated using the DOE-JGI pipeline. In total, 117,502 CAZymes, comprising endoglucanases, exoglucanases, beta-glucosidases, xylosidases, and xylanases, were detected in all three samples. Two genes with predicted cellulolytic/xylanolytic activities were cloned and expressed in E. coli BL21(DE3). The endoglucanases and xylanase enzymatic activities of the recombinant proteins were confirmed using substrate plate assay and dinitrosalicylic acid (DNS) analysis. The 3D structures of endoglucanase A and endo-1,4-beta xylanase was predicted using the Swiss Model. Based on the 3D structure analysis, the two enzymes isolated from goat's rumen metagenome are unique with only 56-59% similarities to those homologous proteins in protein data bank (PDB) meanwhile, the structures of the enzymes also displayed greater stability, and higher catalytic activity. CONCLUSIONS In summary, this study provided the database resources of bacterial metagenomes from goat's rumen fluid, including gene sequences with annotated functions and methods for gene isolation and over-expression of cellulolytic enzymes; and a wealth of genes in the metabolic pathways affecting food and nutrition of ruminant animals.
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Affiliation(s)
- Santosh Thapa
- Department of Agricultural and Environmental Sciences, College of Agriculture, Tennessee State University, 3500 John A. Merritt Blvd, Nashville, TN, 37209, USA
- Vanderbilt University Medical Center, 2215 Garland Ave, Nashville, TN, 37232, USA
| | - Suping Zhou
- Department of Agricultural and Environmental Sciences, College of Agriculture, Tennessee State University, 3500 John A. Merritt Blvd, Nashville, TN, 37209, USA
| | - Joshua O'Hair
- Department of Biological Sciences, College of Life & Physical Sciences, Tennessee State University, 3500 John A. Merritt Blvd, Nashville, TN, 37209, USA
| | - Kamal Al Nasr
- Department of Computer Sciences, College of Engineering, Tennessee State University, 3500 John A. Merritt Blvd, Nashville, TN, 37209, USA
| | - Alexander Ropelewski
- Pittsburgh Supercomputing Center, 300 S. Craig Street, Pittsburgh, PA, 15213, USA
| | - Hui Li
- Department of Agricultural and Environmental Sciences, College of Agriculture, Tennessee State University, 3500 John A. Merritt Blvd, Nashville, TN, 37209, USA.
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Shen Z, Yu B, Shao K, Gao G, Tang X. Warming reduces microeukaryotic diversity, network complexity and stability. ENVIRONMENTAL RESEARCH 2023; 238:117235. [PMID: 37775010 DOI: 10.1016/j.envres.2023.117235] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2023] [Revised: 09/22/2023] [Accepted: 09/25/2023] [Indexed: 10/01/2023]
Abstract
Unraveling how climate warming affects microorganisms and the underlying mechanisms has been a hot topic in climate change and microbial ecology. To date, many studies have reported microbial responses to climate warming, especially in soil ecosystems, however, knowledge of how warming influences microeukaryotic diversity, network complexity and stability in lake ecosystems, in particular the possible underlying mechanisms, is largely unknown. To address this gap, we conducted 20 mesocosms spanning five temperature scenarios (26 °C, 27.5 °C, 29 °C, 30.5 °C, and 32 °C) in Lake Bosten, a hotspot for studying climate change, and investigated microeukaryotic communities using 18S rRNA gene sequencing. Our results demonstrated that warming, time, and their interactions significantly reduced microeukaryotic α-diversity (two-way ANOVA: P<0.01). Although warming did not significantly affect microeukaryotic community structure (ANOSIM: P>0.05), it enhanced species turnover. Microeukaryotic networks exhibited distinct co-occurrence patterns and topological properties across temperature scenarios. Warming reduced network complexity and stability, as well as altered species interactions. Collectively, these findings are likely to have implications for ecological management of lake ecosystems, in particular semi-arid and arid regions, and for predicting ecological consequences of climate change.
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Affiliation(s)
- Zhen Shen
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Bobing Yu
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Keqiang Shao
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Guang Gao
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Xiangming Tang
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 100049, China.
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Robinson JM, Hodgson R, Krauss SL, Liddicoat C, Malik AA, Martin BC, Mohr JJ, Moreno-Mateos D, Muñoz-Rojas M, Peddle SD, Breed MF. Opportunities and challenges for microbiomics in ecosystem restoration. Trends Ecol Evol 2023; 38:1189-1202. [PMID: 37648570 DOI: 10.1016/j.tree.2023.07.009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2022] [Revised: 07/21/2023] [Accepted: 07/31/2023] [Indexed: 09/01/2023]
Abstract
Microbiomics is the science of characterizing microbial community structure, function, and dynamics. It has great potential to advance our understanding of plant-soil-microbe processes and interaction networks which can be applied to improve ecosystem restoration. However, microbiomics may be perceived as complex and the technology is not accessible to all. The opportunities of microbiomics in restoration ecology are considerable, but so are the practical challenges. Applying microbiomics in restoration must move beyond compositional assessments to incorporate tools to study the complexity of ecosystem recovery. Advances in metaomic tools provide unprecedented possibilities to aid restoration interventions. Moreover, complementary non-omic applications, such as microbial inoculants and biopriming, have the potential to improve restoration objectives by enhancing the establishment and health of vegetation communities.
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Affiliation(s)
- Jake M Robinson
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia; The Aerobiome Innovation & Research Hub, Flinders University, Bedford Park, SA 5042, Australia.
| | - Riley Hodgson
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia
| | - Siegfried L Krauss
- Kings Park Science, Department of Biodiversity, Conservation, and Attractions, Fraser Avenue, Kings Park, WA 6005, Australia; Environmental and Conservation Sciences, Murdoch University, 90 South Street, Murdoch, WA 6150, Australia; Biological Sciences, University of Western Australia, 35 Stirling Highway, Perth, WA 6009, Australia
| | - Craig Liddicoat
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia; School of Public Health, The University of Adelaide, Adelaide, SA 5005, Australia
| | - Ashish A Malik
- School of Biological Sciences, University of Aberdeen, Aberdeen AB24 3UU, UK
| | - Belinda C Martin
- School of Biological Sciences, University of Western Australia, 35 Stirling Highway, Perth, WA 6009, Australia; Ooid Scientific, North Lake, WA 6162, Australia
| | - Jakki J Mohr
- College of Business, University of Montana, Missoula, MT, USA
| | - David Moreno-Mateos
- School of Geography and the Environment, University of Oxford, South Parks Road. Oxford OX1 3QY, UK; Department of Landscape Architecture, Graduate School of Design, Harvard University, Quincy Street. Cambridge, MA 02138, USA; Basque Center for Climate Change - BC3, Ikerbasque Foundation for Science. Edificio Sede 1, Parque Cientifico UPV, 04940 Leioa, Spain
| | - Miriam Muñoz-Rojas
- Departamento de Biologia Vegetal y Ecologia. Universidad de Sevilla, 41004 Sevilla, Spain; Centre for Ecosystem Science, School of Biological, Earth, and Environmental Sciences, University of New South Wales (UNSW) Sydney, Sydney, NSW 2052, Australia
| | - Shawn D Peddle
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia
| | - Martin F Breed
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia
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Seastedt H, Nadeau K. Factors by which global warming worsens allergic disease. Ann Allergy Asthma Immunol 2023; 131:694-702. [PMID: 37689112 PMCID: PMC10873081 DOI: 10.1016/j.anai.2023.08.610] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2023] [Revised: 08/16/2023] [Accepted: 08/20/2023] [Indexed: 09/11/2023]
Abstract
Increased use of fossil fuels has led to global warming with concomitant increases in the severity and frequency of extreme weather events such as wildfires and sand and dust storms. These changes have led to increases in air pollutants such as particulate matter and greenhouse gases. Global warming is also associated with increases in pollen season length and pollen concentration. Particulate matter, greenhouse gases, and pollen synergistically increase the incidence and severity of allergic diseases. Other indirect factors such as droughts, flooding, thunderstorms, heat waves, water pollution, human migration, deforestation, loss of green space, and decreasing biodiversity (including microbial diversity) also affect the incidence and severity of allergic disease. Global warming and extreme weather events are expected to increase in the coming decades, and further increases in allergic diseases are expected, exacerbating the already high health care burden associated with these diseases. There is an urgent need to mitigate and adapt to the effects of climate change to improve human health. Human health and planetary health are connected and the concept of One Health, which is an integrated, unifying approach to balance and optimize the health of people, animals, and the environment needs to be emphasized. Clinicians are trusted members of the community, and they need to take a strong leadership role in educating patients on climate change and its adverse effects on human health. They also need to advocate for policy changes that decrease the use of fossil fuels and increase biodiversity and green space to enable a healthier and more sustainable future.
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Affiliation(s)
- Hana Seastedt
- Sean N. Parker Center for Allergy and Asthma Research, Stanford University, Palo Alto, California
| | - Kari Nadeau
- Department of Environmental Health, Harvard T. H. Chan School of Public Health, Boston, Massachusetts.
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Zhang M, Wang S, Zhang L, Li W, Cao M, Huang S, Xu X, He P, Zhou W, Philippot L, Ai C. Microbial ecological clusters structured by environments drive maize residue decomposition at the continental scale. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 902:166092. [PMID: 37558068 DOI: 10.1016/j.scitotenv.2023.166092] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/03/2023] [Revised: 07/16/2023] [Accepted: 08/04/2023] [Indexed: 08/11/2023]
Abstract
Environmental factors (e.g., climate and edaphic factors) indirectly regulate residue decomposition via microbial communities. Microbial ecological clusters (eco-clusters) structured by specific environmental factors have consequences for ecosystem functions. However, less is known about how microbial eco-clusters affect residue decomposition, especially over broad geographic scales. We collected agricultural soils from adjacent pairs of upland and paddy fields along a latitudinal gradient from the cold-temperature zone to the tropical zone, and conducted a microcosm experiment with 13C-labelled maize residue to explore the continental pattern of maize residue-derived 13CO2 (RDC), and whether and how microbial eco-clusters drive and predict RDC. Results showed that RDC decreased with latitude in both upland and paddy fields. Further, we identified 21 well-defined eco-clusters according to microbial environmental preferences, which explained 51.15 % of the spatial variations in RDC. The eco-clusters of high-total annual precipitation (TAP), high-mean annual temperature (MAT), low-pH, and some low-nutrient-associated exerted a positive effect on RDC. These eco-clusters contained many taxa belonging to the Actinobacteriota, Firmicutes, and Sordariomycetes, and their relative abundance decreased with latitude. Upland soils displayed 2.40-fold of RDC over paddy soils. Low-pH and high-organic matter (OM) eco-clusters were found to be the most prominent predictors of RDC in upland and paddy fields, respectively. Finally, we constructed a continental atlas of RDC in both upland and paddy fields based on eco-clusters and high-resolution climate and soil data. Overall, our study provides important evidence that historical environment-shaped microbial eco-clusters can drive and predict residue decomposition, providing new insights into how environmental factors indirectly regulate residue decomposition.
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Affiliation(s)
- Meiling Zhang
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, the Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Beijing 100081, China
| | - Shiyu Wang
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, the Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Beijing 100081, China
| | - Liyu Zhang
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, the Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Beijing 100081, China
| | - Wentao Li
- Jiangsu Coastal Area Institute of Agricultural Sciences, Yancheng 224002, China
| | - Mengmeng Cao
- Key Laboratory of Agricultural Remote Sensing, Ministry of Agriculture and Rural Affairs/Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Shuyu Huang
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, the Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Beijing 100081, China
| | - Xinpeng Xu
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, the Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Beijing 100081, China
| | - Ping He
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, the Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Beijing 100081, China
| | - Wei Zhou
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, the Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Beijing 100081, China
| | - Laurent Philippot
- Université Bourgogne Franche-Comté, INRAE, AgroSup Dijon, Agroécologie, 21000 Dijon, France
| | - Chao Ai
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, the Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Beijing 100081, China.
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Hu JP, Zhang MX, Lü ZL, He YY, Yang XX, Khan A, Xiong YC, Fang XL, Dong QM, Zhang JL. Grazing practices affect phyllosphere and rhizosphere bacterial communities of Kobresia humilis by altering their network stability. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 900:165814. [PMID: 37517723 DOI: 10.1016/j.scitotenv.2023.165814] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2023] [Revised: 07/22/2023] [Accepted: 07/24/2023] [Indexed: 08/01/2023]
Abstract
The primary utilization strategy for meadow grasslands on the Qinghai-Tibet Plateau (QTP) is livestock grazing. This practice is considered as one of the major drivers of plant-associated bacterial community construction and changes in soil properties. The species of Kobresia humilis is considered as the most dominant one in grasslands. However, how different grazing practices affect the phyllosphere and rhizosphere bacterial communities of K. humilis is unknown. To address this issue, the effects of the grazing enclosure (GE), single-species grazing (YG and SG, representing yak only and sheep only, respectively), and different ratios of grazing (ratio of yak to sheep is 1:2, 1:4, and 1:6, represented by MG1:2, MG1:4, and MG1:6, respectively) on the dominant plant of K. humilis, it's phyllosphere and rhizosphere bacteria, and soil properties were investigated using artificially controlled grazing and grazing enclosure. Our data showed that grazing enclosure enhanced vegetation coverage, and rhizosphere bacterial richness and diversity, while reduced plant number and bacterial network stability of K. humilis. The NO3--N, K+, and Cl- concentrations were lower under grazing compared to GE. SG reduced the concentration of NH4+-N, TN, K+, and Na+ compared to YG. Moderate grazing intensity had a lower relative abundance of the r-strategists (Bacteroidota and Gammaproteobacteria) with higher bacterial network stability. Yak and sheep grazing showed reversed impacts on the bacterial network stability between the phyllosphere and rhizosphere of K. humilis. Proteobacteria and Actinobacteriota were identified in the molecular ecological network analysis as keystone taxa in the phyllosphere and rhizosphere networks, respectively, under all treatments. This study explained why sheep grazing has more adverse effects on grazing-tolerant grass species, K. humilis, than yak grazing, and will contribute to a better understanding of the impacts of different grazing practices and grazing enclosure on alpine grassland ecosystems on the QTP.
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Affiliation(s)
- Jin-Peng Hu
- Center for Grassland Microbiome; State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems; Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs; Engineering Research Center of Grassland Industry, Ministry of Education; College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, People's Republic of China
| | - Ming-Xu Zhang
- Center for Grassland Microbiome; State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems; Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs; Engineering Research Center of Grassland Industry, Ministry of Education; College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, People's Republic of China
| | - Zhao-Long Lü
- Center for Grassland Microbiome; State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems; Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs; Engineering Research Center of Grassland Industry, Ministry of Education; College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, People's Republic of China
| | - Yuan-Yuan He
- Center for Grassland Microbiome; State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems; Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs; Engineering Research Center of Grassland Industry, Ministry of Education; College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, People's Republic of China
| | - Xiao-Xia Yang
- Qinghai Provincial Key Laboratory of Adaptive Management on Alpine Grassland, Qinghai Academy of Animal Science and Veterinary Medicine, Qinghai University, Xining 810016, People's Republic of China
| | - Aziz Khan
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems; College of Ecology, Lanzhou University, Lanzhou 730000, People's Republic of China
| | - You-Cai Xiong
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems; College of Ecology, Lanzhou University, Lanzhou 730000, People's Republic of China
| | - Xiang-Ling Fang
- Center for Grassland Microbiome; State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems; Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs; Engineering Research Center of Grassland Industry, Ministry of Education; College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, People's Republic of China
| | - Quan-Min Dong
- Qinghai Provincial Key Laboratory of Adaptive Management on Alpine Grassland, Qinghai Academy of Animal Science and Veterinary Medicine, Qinghai University, Xining 810016, People's Republic of China.
| | - Jin-Lin Zhang
- Center for Grassland Microbiome; State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems; Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs; Engineering Research Center of Grassland Industry, Ministry of Education; College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, People's Republic of China.
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Sun X, Sanchez A. Synthesizing microbial biodiversity. Curr Opin Microbiol 2023; 75:102348. [PMID: 37352679 DOI: 10.1016/j.mib.2023.102348] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2023] [Revised: 04/20/2023] [Accepted: 05/25/2023] [Indexed: 06/25/2023]
Abstract
The diversity of microbial ecosystems is linked to crucial ecological processes and functions. Despite its significance, the ecological mechanisms responsible for the initiation and maintenance of microbiome diversity are still not fully understood. The primary challenge lies in the difficulty of isolating, monitoring, and manipulating the complex and interrelated ecological processes that modulate the diversity of microbial communities in their natural habitats. Synthetic ecology experiments provide a suitable alternative for investigating the mechanisms behind microbial biodiversity in controlled laboratory settings, as the environment can be systematically and modularly manipulated by adding and removing components. This enables the testing of hypotheses and the advancement of predictive theories. In this review, we present an overview of recent progress toward achieving this goal.
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Affiliation(s)
- Xin Sun
- Department of Global Ecology, Carnegie Institution for Science, Stanford, CA 94305, USA
| | - Alvaro Sanchez
- Department of Microbial Biotechnology, National Center for Biotechnology CNB-CSIC, Madrid, Spain.
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Zainab R, Hasnain M, Ali F, Dias DA, El-Keblawy A, Abideen Z. Exploring the bioremediation capability of petroleum-contaminated soils for enhanced environmental sustainability and minimization of ecotoxicological concerns. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:104933-104957. [PMID: 37718363 DOI: 10.1007/s11356-023-29801-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2023] [Accepted: 09/06/2023] [Indexed: 09/19/2023]
Abstract
The bioremediation of soils contaminated with petroleum hydrocarbons (PHCs) has emerged as a promising approach, with its effectiveness contingent upon various types of PHCs, i.e., crude oil, diesel, gasoline, and other petroleum products. Strategies like genetically modified microorganisms, nanotechnology, and bioaugmentation hold potential for enhancing remediation of polycyclic aromatic hydrocarbon (PAH) contamination. The effectiveness of bioremediation relies on factors such as metabolite toxicity, microbial competition, and environmental conditions. Aerobic degradation involves enzymatic oxidative reactions, while bacterial anaerobic degradation employs reductive reactions with alternative electron acceptors. Algae employ monooxygenase and dioxygenase enzymes, breaking down PAHs through biodegradation and bioaccumulation, yielding hydroxylated and dihydroxylated intermediates. Fungi contribute via mycoremediation, using co-metabolism and monooxygenase enzymes to produce CO2 and oxidized products. Ligninolytic fungi transform PAHs into water-soluble compounds, while non-ligninolytic fungi oxidize PAHs into arene oxides and phenols. Certain fungi produce biosurfactants enhancing degradation of less soluble, high molecular-weight PAHs. Successful bioremediation offers sustainable solutions to mitigate petroleum spills and environmental impacts. Monitoring and assessing strategy effectiveness are vital for optimizing biodegradation in petroleum-contaminated soils. This review presents insights and challenges in bioremediation, focusing on arable land safety and ecotoxicological concerns.
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Affiliation(s)
- Rida Zainab
- Department of Biotechnology, Lahore College for Women University, Lahore, Pakistan
| | - Maria Hasnain
- Department of Biotechnology, Lahore College for Women University, Lahore, Pakistan
| | - Faraz Ali
- School of Engineering and Technology, Central Queensland University, Sydney, Australia
| | - Daniel Anthony Dias
- CASS Food Research Centre, School of Exercise and Nutrition Sciences Deakin University, Melbourne, VIC, 3125, Australia
| | - Ali El-Keblawy
- Department of Applied Biology, College of Sciences, University of Sharjah, PO Box 27272, Sharjah, UAE
| | - Zainul Abideen
- Department of Applied Biology, College of Sciences, University of Sharjah, PO Box 27272, Sharjah, UAE.
- Dr. Muhammad Ajmal Khan Institute of Sustainable Halophyte Utilization, University of Karachi, Karachi, 75270, Pakistan.
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O'Brien S, Culbert CT, Barraclough TG. Community composition drives siderophore dynamics in multispecies bacterial communities. BMC Ecol Evol 2023; 23:45. [PMID: 37658316 PMCID: PMC10472669 DOI: 10.1186/s12862-023-02152-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Accepted: 08/17/2023] [Indexed: 09/03/2023] Open
Abstract
BACKGROUND Intraspecific public goods are commonly shared within microbial populations, where the benefits of public goods are largely limited to closely related conspecifics. One example is the production of iron-scavenging siderophores that deliver iron to cells via specific cell envelope receptor and transport systems. Intraspecific social exploitation of siderophore producers is common, since non-producers avoid the costs of production but retain the cell envelope machinery for siderophore uptake. However, little is known about how interactions between species (i.e., interspecific interactions) can shape intraspecific public goods exploitation. Here, we predicted that strong competition for iron between species in diverse communities will increase costs of siderophore cooperation, and hence drive intraspecific exploitation. We examined how increasing microbial community species diversity shapes intraspecific social dynamics by monitoring the growth of siderophore producers and non-producers of the plant-growth promoting bacterium Pseudomonas fluorescens, embedded within tree-hole microbial communities ranging from 2 to 15 species. RESULTS We find, contrary to our prediction, that siderophore production is favoured at higher levels of community species richness, driven by increased likelihood of encountering key species that reduce the growth of siderophore non-producing (but not producing) strains of P. fluorescens. CONCLUSIONS Our results suggest that maintaining a diverse soil microbiota could partly contribute to the maintenance of siderophore production in natural communities.
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Affiliation(s)
- Siobhán O'Brien
- Department of Microbiology, School of Genetics and Microbiology, Moyne Institute of Preventive Medicine, Trinity College Dublin, Dublin 2, Ireland.
| | - Christopher T Culbert
- Department of Life Sciences, Imperial College London, Silwood Park Campus, Ascot, Berkshire, SL5 7PY, UK
| | - Timothy G Barraclough
- Department of Biology, University of Oxford, 11a Mansfield Road, Oxford, OX1 3SZ, UK
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Wei X, Han B, Wu B, Shao X, Qian Y. Stronger effects of simultaneous warming and precipitation increase than the individual factor on soil bacterial community composition and assembly processes in an alpine grassland. Front Microbiol 2023; 14:1237850. [PMID: 37720152 PMCID: PMC10502225 DOI: 10.3389/fmicb.2023.1237850] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2023] [Accepted: 08/15/2023] [Indexed: 09/19/2023] Open
Abstract
Composition and traits of soil microbial communities that closely related to their ecological functions received extensive attention in the context of climate changes. We investigated the responses of soil bacterial community structure, traits, and functional genes to the individual warming, precipitation increases, and the combination of warming and precipitation increases in an alpine grassland in the Qinghai-Tibet Plateau that is experiencing warming and wetting climate change. Soil properties, plant diversity and biomass were measured, and the ecological processes and environmental factors driving bacterial community changes were further explored. Results indicated that the Shannon diversity of soil bacterial communities decreased significantly only under the combination treatment, which might due to the decreased plant diversity. Soil bacterial community composition was significantly correlated with soil pH, and was affected obviously by the combination treatment. At the taxonomic classification, the relative abundance of Xanthobacteraceae and Beijerinckiaceae increased 127.67 and 107.62%, while the relative abundance of Rubrobacteriaceae and Micromonosporaceae decreased 78.29 and 54.72% under the combination treatment. Functional genes related to nitrogen and phosphorus transformation were enhanced in the combination treatment. Furthermore, weighted mean ribosomal operon copy numbers that positively correlated with plant aboveground biomass increased remarkably in the combination treatment, indicating a trend of life-history strategies shift from oligotrophic to copiotrophic. Stochastic processes dominated soil bacterial community, and the proportion of stochasticity increased under the combination treatment. Our study highlights the significant effects of simultaneous warming and precipitation increase on soil bacterial community.
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Affiliation(s)
- Xiaoting Wei
- Institute of Ecological Conservation and Restoration, Chinese Academy of Forestry, Beijing, China
| | - Bing Han
- College of Grassland Science and Technology, China Agricultural University, Beijing, China
| | - Bo Wu
- Institute of Ecological Conservation and Restoration, Chinese Academy of Forestry, Beijing, China
| | - Xinqing Shao
- College of Grassland Science and Technology, China Agricultural University, Beijing, China
| | - Yongqiang Qian
- Institute of Ecological Conservation and Restoration, Chinese Academy of Forestry, Beijing, China
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Chen JY, Liu S, Deng WK, Niu SH, Liao XD, Xiang L, Xing SC. The effect of manure-borne doxycycline combined with different types of oversized microplastic contamination layers on carbon and nitrogen metabolism in sandy loam. JOURNAL OF HAZARDOUS MATERIALS 2023; 456:131612. [PMID: 37245359 DOI: 10.1016/j.jhazmat.2023.131612] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2023] [Revised: 04/28/2023] [Accepted: 05/09/2023] [Indexed: 05/30/2023]
Abstract
The different forms and properties of microplastics (MPs) have different effects on the elemental cycles in soil ecosystems, and this is further complicated when the soil contains antibiotics; meanwhile, oversized microplastic (OMP) in soil is always ignored in studies of environmental behavior. In the context of antibiotic action, the effects of OMP on soil carbon (C) and nitrogen (N) cycling have rarely been explored. In this study, we created four types of oversized microplastic (thick fibers, thin fibers, large debris, and small debris) composite doxycycline (DOX) contamination layers (5-10 cm) in sandy loam, hoping to reveal the effects on soil C and N cycling and potential microbial mechanisms when exposed to the combination of manure-borne DOX and different types of OMP from the perspective of metagenomics in the longitudinal soil layer (0-30 cm). The results showed that all different forms of OMP, when combined with DOX, reduced the soil C content in each layer, but only reduced the soil N content in the upper layer of the OMP contamination layer. The microbial structure of the surface soil (0-10 cm) was more noteworthy than that of the deeper soil (10-30 cm). The genera Chryseolinea and Ohtaekwangia were key microbes involved in C and N cycling in the surface layer and regulated carbon fixation in photosynthetic organisms (K00134), carbon fixation pathways in prokaryotes (K00031), methane metabolism (K11212 and K14941), assimilatory nitrate reduction (K00367), and denitrification (K00376 and K04561). The present study is the first to reveal the potential microbial mechanism of C and N cycling under OMP combined with DOX in different layers, mainly the OMP contamination layer and its upper layer, and the OMP shape plays an important role in this process.
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Affiliation(s)
- Jing-Yuan Chen
- College of Animal Science, South China Agricultural University, Guangzhou 510642, Guangdong, China
| | - Shuo Liu
- College of Animal Science, South China Agricultural University, Guangzhou 510642, Guangdong, China
| | - Wei-Kang Deng
- College of Animal Science, South China Agricultural University, Guangzhou 510642, Guangdong, China
| | - Shi-Hua Niu
- College of Animal Science, South China Agricultural University, Guangzhou 510642, Guangdong, China
| | - Xin-Di Liao
- College of Animal Science, South China Agricultural University, Guangzhou 510642, Guangdong, China; Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, and Key Laboratory of Chicken Genetics, Breeding and Reproduction, Ministry Agriculture, Guangzhou 510642, Guangdong, China; National-Local Joint Engineering Research Center for Livestock Breeding, Guangzhou 510642, Guangdong, China
| | - Lei Xiang
- Engineering Research Center of Tropical and Subtropical Aquatic Ecological Engineering, Ministry of Education, Guangzhou 510632, Guangdong, China
| | - Si-Cheng Xing
- Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China; Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, and Key Laboratory of Chicken Genetics, Breeding and Reproduction, Ministry Agriculture, Guangzhou 510642, Guangdong, China; National-Local Joint Engineering Research Center for Livestock Breeding, Guangzhou 510642, Guangdong, China.
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