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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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Niu B, Fu G. Response of plant diversity and soil microbial diversity to warming and increased precipitation in alpine grasslands on the Qinghai-Xizang Plateau - A review. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 912:168878. [PMID: 38029973 DOI: 10.1016/j.scitotenv.2023.168878] [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: 11/15/2023] [Accepted: 11/23/2023] [Indexed: 12/01/2023]
Abstract
Plant diversity and soil microbial diversity are closely related, and they maintain the health and stability of terrestrial ecosystems. As a hotspot region of global biodiversity research, both air temperature and precipitation of the Qinghai-Xizang Plateau tend to increase in future. Based on an overview of the responses of grassland/alpine ecosystems to seasonal asymmetric warming and increased precipitation worldwide, we elaborated the advancements and uncertainties on the responses of plant diversity and soil microbial diversity to warming and increased precipitation in alpine grasslands on the Qinghai-Xizang Plateau. The future research focus of plant diversity and soil microbial diversity in the alpine grasslands of the Qinghai-Xizang Plateau under climate warming and increased precipitation was proposed. Generally, previous studies found that the responses of plant species diversity and soil microbial species diversity to warming and increased precipitation differed between alpine meadows and alpine steppes, but few studies focused on their responses to warming and increased precipitation in alpine desert steppes. Previous studies mainly focused on species diversity, although phylogenetic and functional diversities are also important aspects of biodiversity. Previous studies mainly explained responses of plant diversity and soil microbial diversity to warming and increased precipitation based on niche theory, although neutral theory is also the other important mechanism in regulating biodiversity. Moreover, previous studies almost ignored the coupling relationship between plant diversity and soil microbial diversity. Therefore, the following four aspects need to be strengthened, including the responses of plant diversity and soil microbial diversity to warming and increased precipitation in alpine desert steppes, the responses of plant and soil microbial phylogenetic diversity and functional diversity to warming and increased precipitation, combining the niche theory and neutral theory to examining the mechanism of biodiversity, and the coupling relationships between plant diversity and soil microbial diversity under warming and increased precipitation.
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Affiliation(s)
- Ben Niu
- Lhasa Plateau Ecosystem Research Station, Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China
| | - Gang Fu
- Lhasa Plateau Ecosystem Research Station, Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China.
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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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Wang X, Huang T, Li Y, Zhao G, Zhao J. Elevational characteristics of soil bacterial community and their responses to soil translocation at a mountainside in northwest Sichuan, China. Sci Rep 2023; 13:17906. [PMID: 37863997 PMCID: PMC10589279 DOI: 10.1038/s41598-023-44811-2] [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: 05/17/2023] [Accepted: 10/12/2023] [Indexed: 10/22/2023] Open
Abstract
How the soil bacterial communities vary with elevation is context-dependent, and the effect of soil translocation between elevations on bacterial community structure and metabolic function was not fully understood yet. Here, the bacterial community composition and diversity at five elevations along a 1600-3000 m elevation gradient on a mountainside in northwest Sichuan were characterized, and the responses of soil bacterial community to simulated climate changes were further studied by soil translocation reciprocally at three elevations for 12 months. Significant differences were found in soil temperature and moisture at different elevations, but there was no observed change in bacterial alpha diversity. The relative abundance of bacterial phyla was significantly different among the five elevations except for Proteobacteria (the dominant bacterial phyla in five elevation), and most bacterial phyla correlated with soil temperature, moisture, pH and soil bulk density. The direct effect of soil properties (pH, soil nutrients and soil bulk density) on soil bacterial community was stronger than the direct effect of temperature and moisture. Soil translocation changed the relative abundance of some bacterial phyla, and taxonomic groups with significant changes were mainly non-dominant phyla rather than the dominant phyla. Metabolism was the primary function of bacterial community at all elevations, which accounted for ~ 80% of relative abundance, and soil translocation had little effect on metabolic function. These findings indicated that soil bacterial dominant taxa and soil bacterial metabolic functions are relatively stable, which contribute to the stability of the ecosystem when response to the climate change in the future.
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Affiliation(s)
- Xuemei Wang
- Ecological Security and Protection Key Laboratory of Sichuan Province, Mianyang Normal University, Mianyang, 621000, Sichuan, China
- School of Resource and Environmental Engineering, Mianyang Normal University, Mianyang, 621000, Sichuan, China
| | - Tianzhi Huang
- Ecological Security and Protection Key Laboratory of Sichuan Province, Mianyang Normal University, Mianyang, 621000, Sichuan, China
- School of Resource and Environmental Engineering, Mianyang Normal University, Mianyang, 621000, Sichuan, China
| | - Yunyun Li
- School of Resource and Environmental Engineering, Mianyang Normal University, Mianyang, 621000, Sichuan, China
| | - Guang Zhao
- Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing, 100101, China
| | - Jixia Zhao
- College of Resources and Environment, Yunnan Agricultural University, No. 95, Heijin Road, Panlong District, Kunming, 650201, China.
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Jiang M, Tian Y, Guo R, Li S, Guo J, Zhang T. Effects of warming and nitrogen addition on soil fungal and bacterial community structures in a temperate meadow. Front Microbiol 2023; 14:1231442. [PMID: 37502394 PMCID: PMC10369075 DOI: 10.3389/fmicb.2023.1231442] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2023] [Accepted: 06/26/2023] [Indexed: 07/29/2023] Open
Abstract
Soil microbial communities have been influenced by global changes, which might negatively regulate aboveground communities and affect nutrient resource cycling. However, the influence of warming and nitrogen (N) addition and their combined effects on soil microbial community composition and structure are still not well understood. To explore the effect of warming and N addition on the composition and structure of soil microbial communities, a five-year field experiment was conducted in a temperate meadow. We examined the responses of soil fungal and bacterial community compositions and structures to warming and N addition using ITS gene and 16S rRNA gene MiSeq sequencing methods, respectively. Warming and N addition not only increased the diversity of soil fungal species but also affected the soil fungal community structure. Warming and N addition caused significant declines in soil bacterial richness but had few impacts on bacterial community structure. The changes in plant species richness affected the soil fungal community structure, while the changes in plant cover also affected the bacterial community structure. The response of the soil bacterial community structure to warming and N addition was lower than that of the fungal community structure. Our results highlight that the influence of global changes on soil fungal and bacterial community structures might be different, and which also might be determined, to some extent, by plant community, soil physicochemical properties, and climate characteristics at the regional scale.
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Affiliation(s)
- Ming Jiang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, China
- Key Laboratory of Vegetation Ecology, Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Changchun, China
| | - Yibo Tian
- Key Laboratory of Vegetation Ecology, Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Changchun, China
| | - Rui Guo
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Key Laboratory of Dryland Agriculture, Ministry of Agriculture, Beijing, China
| | - Shuying Li
- Forestry and Grassland Bureau of Aohan Banner, Chifeng, China
| | - Jixun Guo
- Key Laboratory of Vegetation Ecology, Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Changchun, China
| | - Tao Zhang
- Key Laboratory of Vegetation Ecology, Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Changchun, China
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Tang Y, Fan D, Guo W, Kong W. Controls on diversity of core and indicative microbial subcommunities in Tibetan Plateau grassland soils. FEMS Microbiol Ecol 2023; 99:fiad059. [PMID: 37237437 DOI: 10.1093/femsec/fiad059] [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: 11/27/2022] [Revised: 05/10/2023] [Accepted: 05/25/2023] [Indexed: 05/28/2023] Open
Abstract
Core subcommunity represents the less diversity but high abundance, while indicative subcommunity is highly diverse but low abundance in soils. The core subcommunity fundamentally maintains ecosystem stability, while the indicative plays important roles in vital ecosystem functions and is more sensitive to environmental change. However, their environmental driving factors and responses to human disturbances remain less defined. Herein, we explored the patterns of core and indicative soil microbes and their responses to animal grazing in dry grasslands across the Tibetan Plateau, using the Illumina sequencing of 16S rRNA gene. The results revealed that the core subcommunity diversity and richness were lower than the indicative in soils. The indicative subcommunity diversity exhibited substantially stronger correlations with nutrient-associated factors than the core diversity, including soil organic carbon, nitrogen, and plant biomass. The core and indicative microbial subcommunities both strongly varied with grassland ecosystems, while the latter was also significantly influenced by grazing. The variation partitioning analysis revealed that indicative microbial subcommunity was explained less by environmental factors than core subcommunity (34.5% vs 73.0%), but more influenced by grazing (2.6% vs 0.1%). Our findings demonstrated that the indicative microbes were particularly sensitive to soil nutrient-associated factors and human disturbances in alpine dry grasslands.
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Affiliation(s)
- Yazhou Tang
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Collaborative Innovation Center for Grassland Ecological Security, Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
- State Key Laboratory of Tibetan Plateau Earth System, Resources and Environment (TPESRE), Institute of Tibetan Plateau Research, Chinese Academy of Sciences (CAS), Beijing 100101, China
| | - Dandan Fan
- State Key Laboratory of Tibetan Plateau Earth System, Resources and Environment (TPESRE), Institute of Tibetan Plateau Research, Chinese Academy of Sciences (CAS), Beijing 100101, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100039, China
| | - Wei Guo
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Collaborative Innovation Center for Grassland Ecological Security, Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Weidong Kong
- State Key Laboratory of Tibetan Plateau Earth System, Resources and Environment (TPESRE), Institute of Tibetan Plateau Research, Chinese Academy of Sciences (CAS), Beijing 100101, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100039, China
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Chen S, Cao P, Li T, Wang Y, Liu X. Microbial diversity patterns in the root zone of two Meconopsis plants on the Qinghai-Tibet Plateau. PeerJ 2023; 11:e15361. [PMID: 37250704 PMCID: PMC10224674 DOI: 10.7717/peerj.15361] [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: 10/10/2022] [Accepted: 04/16/2023] [Indexed: 05/31/2023] Open
Abstract
In the extreme alpine climate of the Qinghai-Tibet Plateau (QTP), plant growth and reproduction are limited by extremely cold temperatures, low soil moisture, and scarce nutrient availability. The root-associated microbiome indirectly promotes plant growth and plays a role in the fitness of plants on the QTP, particularly in Tibetan medicinal plants. Despite the importance of the root-associated microbiome, little is known about the root zone. This study used high-throughput sequencing to investigate two medicinal Meconopsis plants, M. horridula and M. integrifolia, to determine whether habitat or plant identity had a more significant impact on the microbial composition of the roots. The fungal sequences were obtained using ITS-1 and ITS-2, and bacterial sequences were obtained using 16S rRNA. Different microbial patterns were observed in the microbial compositions of fungi and bacteria in the root zones of two Meconopsis plants. In contrast to bacteria, which were not significantly impacted by plant identity or habitat, the fungi in the root zone were significantly impacted by plant identity, but not habitat. In addition, the synergistic effect was more significant than the antagonistic effect in the correlation between fungi and bacteria in the root zone soil. The fungal structure was influenced by total nitrogen and pH, whereas the structure of bacterial communities was influenced by soil moisture and organic matter. Plant identity had a greater influence on fungal structure than habitat in two Meconopsis plants. The dissimilarity of fungal communities suggests that more attention should be paid to fungi-plant interactions.
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Affiliation(s)
- Shuting Chen
- Laboratory of Adaptation and Evolution of Plateau Biota to Extreme Environments, School of Ecology and Environment, Tibet University, Lhasa, China
| | - Pengxi Cao
- Laboratory of Adaptation and Evolution of Plateau Biota to Extreme Environments, School of Ecology and Environment, Tibet University, Lhasa, China
| | - Ting Li
- Laboratory of Adaptation and Evolution of Plateau Biota to Extreme Environments, School of Ecology and Environment, Tibet University, Lhasa, China
| | - Yuyan Wang
- Laboratory of Adaptation and Evolution of Plateau Biota to Extreme Environments, School of Ecology and Environment, Tibet University, Lhasa, China
| | - Xing Liu
- Laboratory of Adaptation and Evolution of Plateau Biota to Extreme Environments, School of Ecology and Environment, Tibet University, Lhasa, China
- State Key Laboratory of Hybrid Rice, Key Laboratory of Biodiversity and Environment on the Qinghai-Tibet Plateau, Ministry of Education, College of Life Sciences, Wuhan University, Wuhan, China
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Zhou X, Chen X, Qi X, Zeng Y, Guo X, Zhuang G, Ma A. Soil bacterial communities associated with multi-nutrient cycling under long-term warming in the alpine meadow. Front Microbiol 2023; 14:1136187. [PMID: 36910214 PMCID: PMC9995882 DOI: 10.3389/fmicb.2023.1136187] [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: 01/02/2023] [Accepted: 02/06/2023] [Indexed: 02/25/2023] Open
Abstract
Introduction The functions of terrestrial ecosystems are mainly maintained by bacteria, as a key component of microorganisms, which actively participate in the nutrient cycling of ecosystems. Currently, there are few studies have been carried out on the bacteria contributing to the soil multi-nutrient cycling in responding to climate warming, which hampers our obtainment of a comprehensive understanding of the ecological function of ecosystems as a whole. Methods In this study, the main bacteria taxa contributing to the soil multi-nutrient cycling under the long-term warming in an alpine meadow was determined based onphysichemical properties measurement and high-throughput sequencing, and the potential reasons that warming altered the main bacteria contributing to the soil multi-nutrient cycling were further analyzed. Results The results confirmed that the bacterial β-diversity was crucial to the soil multi-nutrient cycling. Furthermore, Gemmatimonadetes, Actinobacteria, and Proteobacteria were the main contributors to the soil multi-nutrient cycling, and played pivotal roles as keystone nodes and biomarkers throughout the entire soil profile. This suggested that warming altered and shifted the main bacteria contributing to the soil multi-nutrient cycling toward keystone taxa. Discussion Meanwhile, their relative abundance was higher, which could make them have the advantage of seizing resources in the face of environmental pressures. In summary, the results demonstrated the crucial role of keystone bacteria in the multi-nutrient cycling under the climate warming in the alpine meadow. This has important implications for understanding and exploring the multi-nutrient cycling of alpine ecosystems under the global climate warming.
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Affiliation(s)
- Xiaorong Zhou
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Xianke Chen
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- Sino-Danish College of University of Chinese Academy of Sciences, Beijing, China
- Sino-Danish Center for Education and Research, Beijing, China
| | - Xiangning Qi
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Yiyuan Zeng
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Xiaowei Guo
- Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, China
| | - Guoqiang Zhuang
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Anzhou Ma
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
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Li Y, Fang Z, Yang F, Ji B, Li X, Wang S. Elevational changes in the bacterial community composition and potential functions in a Tibetan grassland. Front Microbiol 2022; 13:1028838. [DOI: 10.3389/fmicb.2022.1028838] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2022] [Accepted: 10/17/2022] [Indexed: 11/11/2022] Open
Abstract
In the Tibetan grasslands, the distribution patterns of the microbial community structure and function along elevation gradients have attracted considerable attention due to the wide distribution of mountain slopes, but the controlling factors of these patterns are still unclear. Here we investigated the taxonomy and potential functions of soil bacteria along an elevation gradient in a Tibetan mountainous grassland in 2 years, aiming to explore the elevation patterns of the bacterial structure and function and the underlying drivers. High-throughput sequencing and environment attribute measurements were conducted to survey the bacterial and environment characters. Furthermore, PICRUSt2 for prediction of bacterial functions, iCAMP for unraveling the drivers controlling community assembly, and HMSC for variance partitioning of bacterial community composition were used. Elevation did not significantly affect the bacterial diversity but changed their composition, driven by both deterministic and stochastic processes. In addition, elevation did not significantly affect the relative importance of deterministic and stochastic processes. Soil carbon, nitrogen, and temperature were important deterministic factors in driving bacterial community structure. The genus Solirubrobacter in Actinobacteriota was identified as most elevation discriminatory. Based on these observations, the bacterial community in the Tibetan mountainous grasslands was more controlled by edaphic factors than temperature, indicating their relative stability under climate change scenarios.
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Yasir M, Khan R, Ullah R, Bibi F, Khan I, Mustafa Karim A, Al-Ghamdi AK, Azhar EI. Bacterial diversity and the antimicrobial resistome in the southwestern highlands of Saudi Arabia. Saudi J Biol Sci 2022; 29:2138-2147. [PMID: 35531257 PMCID: PMC9072880 DOI: 10.1016/j.sjbs.2021.11.047] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2021] [Revised: 11/06/2021] [Accepted: 11/17/2021] [Indexed: 11/24/2022] Open
Abstract
Soil is a reservoir of microbial diversity and the most supportive habitat for acquiring and transmitting antimicrobial resistance. Resistance transfer usually occurs from animal to soil and vice versa, and it may ultimately appear in clinical pathogens. In this study, the southwestern highlands of Saudi Arabia were studied to assess the bacterial diversity and antimicrobial resistance that could be affected by the continuous development of tourism in the region. Such effects could have a long-lasting impact on the local environment and community. Culture-dependent, quantitative polymerase chain reaction (qPCR), and shotgun sequencing-based metagenomic approaches were used to evaluate the diversity, functional capabilities, and antimicrobial resistance of bacteria isolated from collected soil samples. Bacterial communities in the southwestern highlands were mainly composed of Proteobacteria, Bacteroidetes, and Actinobacteria. A total of 102 antimicrobial resistance genes (ARGs) and variants were identified in the soil microbiota and were mainly associated with multidrug resistance, followed by macrolide, tetracycline, glycopeptide, bacitracin, and beta-lactam antibiotic resistance. The mechanisms of resistance included efflux, antibiotic target alteration, and antibiotic inactivation. qPCR confirmed the detection of 18 clinically important ARGs. In addition, half of the 49 identified isolates were phenotypically resistant to at least one of the 15 antibiotics tested. Overall, ARGs and indicator genes of anthropogenic activities (human-mitochondrial [hmt] gene and integron-integrase [int1]) were found in relatively lower abundance. Along with a high diversity of bacterial communities, variation was observed in the relative abundance of bacterial taxa among sampling sites in the southwestern highlands of Saudi Arabia.
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Affiliation(s)
- Muhammad Yasir
- Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah 21589, Saudi Arabia.,Medical Laboratory Technology Department, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Raees Khan
- Department of Biological Sciences, National University of Medical Sciences, Rawalpindi, Pakistan
| | - Riaz Ullah
- Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Fehmida Bibi
- Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah 21589, Saudi Arabia.,Medical Laboratory Technology Department, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Imran Khan
- Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah 21589, Saudi Arabia.,State Key Laboratory of Quality Research in Chinese Medicine, Macau University of Science and Technology, Macau S.A.R
| | - Asad Mustafa Karim
- Department of Bioscience and Biotechnology, The University of Suwon, Hwaseong City, Gyeonggi-do, Republic of Korea
| | - Ahmed K Al-Ghamdi
- Medical Laboratory Technology Department, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Esam I Azhar
- Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah 21589, Saudi Arabia.,Medical Laboratory Technology Department, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah 21589, Saudi Arabia
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11
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Fu G, Shen ZX. Asymmetrical warming of growing/non-growing season increases soil respiration during growing season in an alpine meadow. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 812:152591. [PMID: 34954180 DOI: 10.1016/j.scitotenv.2021.152591] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/23/2021] [Revised: 12/06/2021] [Accepted: 12/17/2021] [Indexed: 06/14/2023]
Abstract
Soil respiration (Rs) is an important carbon flux in the global carbon cycle, and understanding the influence of global warming on Rs is critical for precise prediction future climate change. Actually, global warming is expected to be seasonally asymmetric, however, it is still unclear on the response of Rs to asymmetrical warming of growing/non-growing season in alpine regions. In this study, an experiment with asymmetrical warming of growing/non-growing season (including three treatments, CK: control; GLNG: warming magnitude of growing season lower than non-growing season; GHNG: warming magnitude of growing season higher than non-growing season) was performed in an alpine meadow of the Northern Tibet since June 2015. The 'GLNG' and 'GHNG' treatments increased mean Rs by 71.22% (1.89 μmol CO2 m-2 s-1) and 34.32% (0.91 μmol CO2 m-2 s-1) during growing season in 2019, respectively. However, the 'GLNG' and 'GHNG' treatments did not significantly affect mean Rs during growing season in 2015, 2016, 2017 and 2018, respectively. The variation coefficient of growing season mean Rs was 32.95% under the CK treatment in 2015-2019. Therefore, warming may have a lagging effect on Rs. The warming scene with a greater warming during non-growing season may have a stronger effect on Rs than the warming scene with a greater warming during growing season. Inter-annual variation of Rs may be greater than the warming effect on Rs in alpine meadows.
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Affiliation(s)
- Gang Fu
- Lhasa Plateau Ecosystem Research Station, Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China.
| | - Zhen-Xi Shen
- Lhasa Plateau Ecosystem Research Station, Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China
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12
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Wang Z, Feng K, Lu G, Yu H, Wang S, Wei Z, Dang N, Wang Y, Deng Y. Homogeneous Selection and Dispersal Limitation Dominate the Effect of Soil Strata Under Warming Condition. Front Microbiol 2022; 13:801083. [PMID: 35283849 PMCID: PMC8908236 DOI: 10.3389/fmicb.2022.801083] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2021] [Accepted: 01/26/2022] [Indexed: 11/13/2022] Open
Abstract
Global warming is likely to affect the underground microbial communities in various ecosystems, but the response of soil microbial communities along a vertical depth profile to global warming has been elusive. Herein, we leveraged a warming field experiment in Qinghai-Tibet Plateau grassland and investigated the community structure of prokaryotes and fungi from the upper (0-15 cm) and lower (15-30 cm) strata under ambient and elevated temperature treatments. Three-years continual warming only significantly shifted the prokaryotic community within the upper strata and there was no significant effect observed for the fungal community. Additionally, under ambient temperature, there were significant differences between the two strata in both the prokaryotic and fungal communities, but under warming, this effect was alleviated. Next, the prokaryotic and fungal community assembly processes were measured by a phylogenetic-bin-based null approach (iCAMP). Though deterministic and stochastic processes dominated the assembly of prokaryotic and fungal communities, respectively, the deterministic processes were strengthened under warming for both communities. Specifically, the increased portion of homogeneous selection, contributing to a homogenous state, led to a smaller difference between prokaryotic communities of the two soil strata under warming. The smaller difference in the stochastic process component, i.e., dispersal limitation, contributed to the similar fungal community structures between the two strata under warming. This study deepens our understanding of warming effects on grassland microbial communities and gives greater insights on the underlying mechanisms for microbial assembly between upper and lower soil strata under warming scenarios.
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Affiliation(s)
- Zhujun Wang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Kai Feng
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
| | - Guangxin Lu
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, China
| | - Hao Yu
- College of Environmental Science and Engineering, Liaoning Technical University, Fuxin, China
| | - Shang Wang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
| | - Ziyan Wei
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - Ning Dang
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, China
| | - Yingcheng Wang
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, China
| | - Ye Deng
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
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13
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Kong X, Bai Z, Jin T, Jin D, Pan J, Yu X, Cernava T. Arthrobacter is a universal responder to di-n-butyl phthalate (DBP) contamination in soils from various geographical locations. JOURNAL OF HAZARDOUS MATERIALS 2022; 422:126914. [PMID: 34419851 DOI: 10.1016/j.jhazmat.2021.126914] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2021] [Revised: 08/12/2021] [Accepted: 08/13/2021] [Indexed: 06/13/2023]
Abstract
Plasticizer phthalic acid esters (PAEs) are commonly found as contaminants in various soils. Previous studies indicated that their natural degradation can substantially differ among soil types; however, potential implications of the soil microbiome remained largely unexplored. Here, we have collected ten soil types from nine different geographical regions of China to investigate the degradation of DBP therein and role of bacteria in this process. Results showed that the degradation rate of DBP was lowest in nutrient-poor red soils from Jiangxi Province, while it was highest in fluvo-aquatic soil from Hebei Province. Bacterial community responses to DBP substantially differed in each of the analyzed soils. Arthrobacter is known for its broad-spectrum activity in terms of DBP degradation in soil and was therefore implemented as bioremediating inoculant in many polluted environments. In the present study, network analyses indicated that synergism between soil bacteria increased following exposure to DBP. Arthrobacter and Sphingomonas were found to expand their positive interactions with other members of the microbiome in DBP-contaminated soils. The overall findings of our study provide a basis for biomarker development for detection of DBP contaminations and an extended basis for future bioremediation approaches based on beneficial bacteria.
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Affiliation(s)
- Xiao Kong
- School of Public Health, Qingdao University, Qingdao 266021, China; Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Zhanbing Bai
- Hunan Vegetable Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China
| | - Tuo Jin
- Rural Energy and Environment Agency, Ministry of Agriculture and Rural Affairs, Beijing 100125, China
| | - Decai Jin
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Jiangang Pan
- School of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou 014010, China
| | - Xiangyang Yu
- Jiangsu Key Laboratory for Food Quality and Safety-State Key Laboratory Cultivation Base, Ministry of Science and Technology, Nanjing 210014, China
| | - Tomislav Cernava
- Institute of Environmental Biotechnology, Graz University of Technology, Petersgasse 12, Graz 8010, Austria
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14
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Zhou Y, Sun B, Xie B, Feng K, Zhang Z, Zhang Z, Li S, Du X, Zhang Q, Gu S, Song W, Wang L, Xia J, Han G, Deng Y. Warming reshaped the microbial hierarchical interactions. GLOBAL CHANGE BIOLOGY 2021; 27:6331-6347. [PMID: 34544207 DOI: 10.1111/gcb.15891] [Citation(s) in RCA: 61] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/05/2021] [Revised: 09/05/2021] [Accepted: 09/09/2021] [Indexed: 06/13/2023]
Abstract
Global warming may alter microbially mediated ecosystem functions through reshaping of microbial diversity and modified microbial interactions. Here, we examined the effects of 5-year experimental warming on different microbial hierarchical groups in a coastal nontidal soil ecosystem, including prokaryotes (i.e., bacteria and archaea), fungi, and Cercozoa, which is a widespread phylum of protists. Warming significantly altered the diversity and structure of prokaryotic and fungal communities in soil and additionally decreased the complexity of the prokaryotic network and fragmented the cercozoan network. By using the Inter-Domain Ecological Network approach, the cross-trophic interactions among prokaryotes, fungi, and Cercozoa were further investigated. Under warming, cercozoan-prokaryotic and fungal-prokaryotic bipartite networks were simplified, whereas the cercozoan-fungal network became slightly more complex. Despite simplification of the fungal-prokaryotic network, the strengthened synergistic interactions between saprotrophic fungi and certain prokaryotic groups, such as the Bacteroidetes, retained these phyla within the network under warming. In addition, the interactions within the fungal community were quite stable under warming conditions, which stabilized the interactions between fungi and prokaryotes or protists. Additionally, we found the microbial hierarchical interactions were affected by environmental stress (i.e., salinity and pH) and soil nutrients. Interestingly, the relevant microbial groups could respond to different soil properties under ambient conditions, whereas under warming these two groups tended to respond to similar soil properties, suggesting network hub species responded to certain environmental changes related to warming, and then transferred this response to their partners through trophic interactions. Finally, warming strengthened the network modules' negative association with soil organic matters through some fungal hub species, which might trigger soil carbon loss in this ecosystem. Our study provides new insights into the response and feedback of microbial hierarchical interactions under warming scenario.
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Affiliation(s)
- Yuqi Zhou
- Institute of Marine Science and Technology, Shandong University, Qingdao, China
| | - Baoyu Sun
- Key Laboratory of Coastal Zone Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, China
- State Key Laboratory of Estuarine and Coastal Research, Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, Shanghai, China
- Yellow River Delta Field Observation and Research Station of Coastal Wetland Ecosystem, Chinese Academy of Sciences, Yantai, China
| | - Baohua Xie
- Key Laboratory of Coastal Zone Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, China
- Yellow River Delta Field Observation and Research Station of Coastal Wetland Ecosystem, Chinese Academy of Sciences, Yantai, China
| | - Kai Feng
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
| | - Zhaojing Zhang
- Institute of Marine Science and Technology, Shandong University, Qingdao, China
| | - Zheng Zhang
- Institute of Marine Science and Technology, Shandong University, Qingdao, China
| | - Shuzhen Li
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE) and Dalian POCT Laboratory, School of Environmental Science and Technology, Dalian University of Technology, Dalian, China
| | - Xiongfeng Du
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Qi Zhang
- Institute of Marine Science and Technology, Shandong University, Qingdao, China
| | - Songsong Gu
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
| | - Wen Song
- Institute of Marine Science and Technology, Shandong University, Qingdao, China
| | - Linlin Wang
- Institute of Marine Science and Technology, Shandong University, Qingdao, China
| | - Jianyang Xia
- State Key Laboratory of Estuarine and Coastal Research, Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, School of Ecological and Environmental Sciences, East China Normal University, Shanghai, China
| | - Guangxuan Han
- Key Laboratory of Coastal Zone Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, China
- Yellow River Delta Field Observation and Research Station of Coastal Wetland Ecosystem, Chinese Academy of Sciences, Yantai, China
| | - Ye Deng
- Institute of Marine Science and Technology, Shandong University, Qingdao, China
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
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15
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Xie L, Bi Y, Li X, Wang K, Christie P. Soil Fungal Community in Grazed Inner Mongolian Grassland Adjacent to Coal-Mining Activity. Front Microbiol 2021; 12:718727. [PMID: 34603245 PMCID: PMC8484957 DOI: 10.3389/fmicb.2021.718727] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2021] [Accepted: 08/17/2021] [Indexed: 11/13/2022] Open
Abstract
Coal mining results in reduced soil quality and makes environments less stable. Soil fungi are suitable indicators of soil quality for monitoring purposes. Here, the objective was therefore to investigate the effects of grazing and mining on the composition of the soil fungal community at the periphery of an opencast coal-mine dump in the Shengli mining area, Xilingol League, Inner Mongolia. A total of 2,110 fungal operational taxonomic units were identified and subdivided into 81 orders and nine categories, based on trophic modes. The sensitive factor to mining was soil pH, and that to grazing were soil nitrate-nitrogen and alkaline phosphatase activity. According to the Pearson correlation and Mantel test, we propose interactions between grazing and coal-mining exist a co-effect and could regulate edaphic variables to alter the behavior of soil fungal community. Moreover, compared with coal-mining, grazing has a greater impact on it. The results provide a basis to further clarify soil fungal ecological functions, and may also contribute to the practice of soil remediation and environmental management in coal-mining areas.
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Affiliation(s)
- Linlin Xie
- State Key Laboratory of Coal Resources and Safe Mining, China University of Mining and Technology (Beijing), Beijing, China
| | - Yinli Bi
- State Key Laboratory of Coal Resources and Safe Mining, China University of Mining and Technology (Beijing), Beijing, China.,Institute of Ecological and Environmental Restoration in Mining Areas of West China, Xi'an University of Science and Technology, Xi'an, China
| | - Xianglei Li
- State Key Laboratory of Coal Resources and Safe Mining, China University of Mining and Technology (Beijing), Beijing, China
| | - Kun Wang
- State Key Laboratory of Coal Resources and Safe Mining, China University of Mining and Technology (Beijing), Beijing, China
| | - Peter Christie
- Institute of Ecological and Environmental Restoration in Mining Areas of West China, Xi'an University of Science and Technology, Xi'an, China
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16
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Bacterial community changes and their responses to nitrogen addition among different alpine grassland types at the eastern edge of Qinghai-Tibetan Plateau. Arch Microbiol 2021; 203:5963-5974. [PMID: 34557954 DOI: 10.1007/s00203-021-02535-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2020] [Revised: 07/23/2021] [Accepted: 08/18/2021] [Indexed: 01/10/2023]
Abstract
Soil microbes play a fundamental role in maintaining nutrient biogeochemical cycles. To understand the distribution of soil bacterial communities on grassland plateaus, high-throughput sequencing was used to compare bacterial communities in soils from swamp meadows (SM), alpine meadows (AM), alpine steppes (AS), and desert steppes (DS) at the eastern edge of the Qinghai-Tibetan Plateau (QTP) in China. We then compared response to nitrogen addition between SM and DS soils in microcosms. Bacterial α-diversity decreased from SM > AM > AS > DS. Variations in soil properties across grassland types was associated with different soil bacterial communities corresponding to bacterial species associated with nutrient cycles to those associated with degradation. Soil moisture, pH, and total phosphorus were the main drivers of these differences. Nitrogen addition decreased bacterial diversity but had inconsistent effects on soil bacterial communities in SM and DS, which may also indicate that different alpine grassland soil types have unique bacterial communities. Alpine grassland degradation significantly affects bacterial communities, and the response to nitrogen addition depends on the alpine grassland type. These results allow for better predictions of soil bacteria community-level responses to geochemical and environmental change in alpine areas.
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17
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Mu Z, Dong S, Li Y, Li S, Shen H, Zhang J, Han Y, Xu Y, Zhao Z. Soil Bacterial Community Responses to N Application and Warming in a Qinghai-Tibetan Plateau Alpine Steppe. Front Ecol Evol 2021. [DOI: 10.3389/fevo.2021.709518] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Nitrogen deposition and climate warming can alter soil bacterial communities. However, the response of soil bacteria in an alpine steppe to these changes is largely unknown. In this study, a field experiment was performed on the northeastern Qinghai-Tibetan Plateau to determine the changes in soil bacterial communities of alpine steppes in response to nitrogen application and warming. The experiment consisted of four treatments, namely no-N application with no-warming (CK), N application (8 kg N ha−1 year−1) with no-warming (N), warming with no-N application (W), and N application (8 kg N ha−1 year−1) with warming (W&N). This study aimed to investigate (1) the changes in soil bacterial diversity and community structure under simulated nitrogen deposition and warming conditions, and (2) the key environmental factors responsible for these changes. Based on the results, soil bacterial diversity and community composition did not change significantly in the short term. Warming had a significant effect on overall bacterial composition, rare species composition, and individual bacterial taxa. Besides, the interaction between nitrogen application and warming had a significant effect on community β-diversity. Above-ground plant variables were highly correlated with bacterial community characteristics. Nitrogen application and warming did not significantly alter the distribution range of the bacterial community. Overall, this study suggests that soil bacterial communities can remain relatively stable at the level of simulated nitrogen application and warming and that short-term climatic changes may have no significant impacts on soil bacterial communities.
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18
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Donhauser J, Qi W, Bergk-Pinto B, Frey B. High temperatures enhance the microbial genetic potential to recycle C and N from necromass in high-mountain soils. GLOBAL CHANGE BIOLOGY 2021; 27:1365-1386. [PMID: 33336444 DOI: 10.1111/gcb.15492] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/26/2020] [Revised: 11/28/2020] [Accepted: 12/08/2020] [Indexed: 06/12/2023]
Abstract
Climate change is strongly affecting high-mountain soils and warming in particular is associated with pronounced changes in microbe-mediated C and N cycling, affecting plant-soil interactions and greenhouse gas balances and therefore feedbacks to global warming. We used shotgun metagenomics to assess changes in microbial community structures, as well as changes in microbial C- and N-cycling potential and stress response genes and we linked these data with changes in soil C and N pools and temperature-dependent measurements of bacterial growth rates. We did so by incubating high-elevation soil from the Swiss Alps at 4°C, 15°C, 25°C, or 35°C for 1 month. We found no shift with increasing temperature in the C-substrate-degrader community towards taxa more capable of degrading recalcitrant organic matter. Conversely, at 35°C, we found an increase in genes associated with the degradation and modification of microbial cell walls, together with high bacterial growth rates. Together, these findings suggest that the rapidly growing high-temperature community is fueled by necromass from heat-sensitive taxa. This interpretation was further supported by a shift in the microbial N-cycling potential towards N mineralization and assimilation under higher temperatures, along with reduced potential for conversions among inorganic N forms. Microbial stress-response genes reacted inconsistently to increasing temperature, suggesting that the high-temperature community was not severely stressed by these conditions. Rather, soil microbes were able to acclimate by changing the thermal properties of membranes and cell walls as indicated by an increase in genes involved in membrane and cell wall modifications as well as a shift in the optimum temperature for bacterial growth towards the treatment temperature. Overall, our results suggest that high temperatures, as they may occur with heat waves under global warming, promote a highly active microbial community capable of rapid mineralization of microbial necromass, which may transiently amplify warming effects.
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Affiliation(s)
- Jonathan Donhauser
- Rhizosphere Processes Group, Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Birmensdorf, Switzerland
| | - Weihong Qi
- Functional Genomics Center Zurich, ETH Zurich/University of Zurich, Zurich, Switzerland
| | - Benoît Bergk-Pinto
- Environmental Microbial Genomics, Laboratoire Ampère, École Centrale de Lyon, Université de Lyon, Ecully, France
| | - Beat Frey
- Rhizosphere Processes Group, Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Birmensdorf, Switzerland
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Gao J, Liu M, Shi S, Liu Y, Duan Y, Lv X, Bohu T, Li Y, Hu Y, Wang N, Wang Q, Zhuang G, Zhuang X. Disentangling Responses of the Subsurface Microbiome to Wetland Status and Implications for Indicating Ecosystem Functions. Microorganisms 2021; 9:microorganisms9020211. [PMID: 33498486 PMCID: PMC7909544 DOI: 10.3390/microorganisms9020211] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2020] [Revised: 12/31/2020] [Accepted: 01/14/2021] [Indexed: 11/16/2022] Open
Abstract
In this study, we analyzed microbial community composition and the functional capacities of degraded sites and restored/natural sites in two typical wetlands of Northeast China-the Phragmites marsh and the Carex marsh, respectively. The degradation of these wetlands, caused by grazing or land drainage for irrigation, alters microbial community components and functional structures, in addition to changing the aboveground vegetation and soil geochemical properties. Bacterial and fungal diversity at the degraded sites were significantly lower than those at restored/natural sites, indicating that soil microbial groups were sensitive to disturbances in wetland ecosystems. Further, a combined analysis using high-throughput sequencing and GeoChip arrays showed that the abundance of carbon fixation and degradation, and ~95% genes involved in nitrogen cycling were increased in abundance at grazed Phragmites sites, likely due to the stimulating impact of urine and dung deposition. In contrast, the abundance of genes involved in methane cycling was significantly increased in restored wetlands. Particularly, we found that microbial composition and activity gradually shifts according to the hierarchical marsh sites. Altogether, this study demonstrated that microbial communities as a whole could respond to wetland changes and revealed the functional potential of microbes in regulating biogeochemical cycles.
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Affiliation(s)
- Jie Gao
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Y.L.); (N.W.); (Q.W.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China;
| | - Miao Liu
- CAS Key Laboratory of Forest Ecology and Management, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China; (M.L.); (Y.L.); (Y.H.)
| | - Sixue Shi
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China;
- CAS Key Laboratory of Forest Ecology and Management, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China; (M.L.); (Y.L.); (Y.H.)
| | - Ying Liu
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Y.L.); (N.W.); (Q.W.)
| | - Yu Duan
- Beijing Business Department, Beijing Enterprises Water Group Limited, Beijing 100124, China;
| | - Xianguo Lv
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China;
| | - Tsing Bohu
- CSIRO Mineral Resources, 26 Dick Perry Avenue, Kensington, WA 6151, Australia;
| | - Yuehui Li
- CAS Key Laboratory of Forest Ecology and Management, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China; (M.L.); (Y.L.); (Y.H.)
| | - Yuanman Hu
- CAS Key Laboratory of Forest Ecology and Management, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, China; (M.L.); (Y.L.); (Y.H.)
| | - Na Wang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Y.L.); (N.W.); (Q.W.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China;
| | - Qiuying Wang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Y.L.); (N.W.); (Q.W.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China;
| | - Guoqiang Zhuang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Y.L.); (N.W.); (Q.W.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China;
- Correspondence: (G.Z.); (X.Z.); Tel.: +86-10-62849613 (G.Z.); +86-10-62849193 (X.Z.)
| | - Xuliang Zhuang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Y.L.); (N.W.); (Q.W.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China;
- Correspondence: (G.Z.); (X.Z.); Tel.: +86-10-62849613 (G.Z.); +86-10-62849193 (X.Z.)
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20
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Liu F, Mo X, Kong W, Song Y. Soil bacterial diversity, structure, and function of Suaeda salsa in rhizosphere and non-rhizosphere soils in various habitats in the Yellow River Delta, China. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 740:140144. [PMID: 32562999 DOI: 10.1016/j.scitotenv.2020.140144] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2020] [Revised: 06/09/2020] [Accepted: 06/10/2020] [Indexed: 06/11/2023]
Abstract
Soil microorganisms play a key role in regulating the biogeochemical cycles of ecosystems. However, studies that quantitatively examine bacterial metabolic groups to predict the environmental and biological impacts are limited. In this research, we employed 16S rRNA gene sequencing on an Illumina MiSeq platform to analyze bacterial diversity, structure, function, and driving factors of Suaeda salsa in rhizosphere and non-rhizosphere soils in intertidal and supratidal habitats in the Yellow River Delta, China. Results showed that bacterial richness and Shannon diversity index of the rhizosphere soil were greater in the intertidal than in the supratidal habitat. Although the bacteria of the two habitats changed extremely in community structure, the bacterial groups related to carbohydrate metabolism (CM) and amino acid metabolism (AAM) had higher abundance than the other groups in both habitats. Furthermore, they were higher in the supratidal than the intertidal habitats, and bacterial groups associated with energy metabolism (EM) are opposite. Furthermore, bacterial diversity showed no significant difference between the rhizosphere and non-rhizosphere soils. In the intertidal habitat, the rhizosphere soil had higher EM but lower AAM and CM than the non-rhizosphere soil, which indicated that bacterial structure and function were obviously influenced by the root exudates of S. salsa under flooding and salt stresses. Redundancy analysis showed that the dominant phyla were significantly affected by available phosphorus (51.0%), total potassium (32.2%), moisture content (28.1%), available potassium (25.3%), electrical conductivity (24.2%), total nitrogen (22.8%), total carbon (21.9%), and soil organic matter (21.0%). Overall, the findings provide important insights into the roles of bacterial groups in coastal wetland under climate changes.
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Affiliation(s)
- Fude Liu
- Tianjin Key Laboratory of Hazardous Waste Safety Disposal and Recycling Technology, School of Environmental Science and Safety Engineering, Tianjin University of Technology, Tianjin 300384, China
| | - Xue Mo
- Tianjin Key Laboratory of Hazardous Waste Safety Disposal and Recycling Technology, School of Environmental Science and Safety Engineering, Tianjin University of Technology, Tianjin 300384, China
| | - Weijing Kong
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Ye Song
- College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, China; Jinan Fruit Research Institute, All China Federation of Supply & Marketing Co-operatives, Jinan 250014, China.
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Effects of Warming and Nitrogen Addition on the Soil Bacterial Community in a Subtropical Chinese Fir Plantation. FORESTS 2019. [DOI: 10.3390/f10100861] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Soil warming has the potential to alter bacterial communities, affecting carbon (C) storage and nitrogen (N) cycling in forest ecosystems. We studied bacterial community changes by warming soil and adding two N-levels (40 and 80 kg N ha−1 year−1) for two years in a subtropical plantation of Chinese fir (Cunninghamia lanceolate (Lamb.) Hook) in southern China. Soil warming significantly changed the bacterial community structure, causing decreases in Proteobacteria and Acidobacteria, while increasing Actinobacteria and Chloroflexi. The high N addition had a greater impact on the bacterial community structure than the low N addition. Warming shifted the bacterial community towards oligotrophic taxa, while N addition could dilute this tendency. Results of the ecological networks indicated that warming resulted in a more complicated co-occurrence network and an increased interaction between different phylum communities, while N addition enhanced the cooperation within communities pertaining to the same phylum. The changes to the soil properties, typical catabolism enzymes, and plant growth also showed that soil warming and N addition accelerated the C and N cycles in the soil, and lead to an increased upward flow of N (from underground to aboveground) and decomposition rate of soil organic carbon (SOC). Overall, the results provided insights into the bacterial community and soil C and N cycling change at a subtropical plantation.
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Yu C, Han F, Fu G. Effects of 7 years experimental warming on soil bacterial and fungal community structure in the Northern Tibet alpine meadow at three elevations. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 655:814-822. [PMID: 30481708 DOI: 10.1016/j.scitotenv.2018.11.309] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2018] [Revised: 11/16/2018] [Accepted: 11/20/2018] [Indexed: 05/15/2023]
Abstract
A warming experiment was established along an altitudinal gradient (low elevation: 4313 m, mid-elevation: 4513 m and high elevation: 4693 m) in alpine meadows of the Northern Tibet to investigate the effects of warming on soil bacterial and fungal community structure. Elevation had significant effects on vegetation community coverage (CC), soil temperature (Ts) and pH, but not soil fungal diversity. Soil bacterial diversity at the high elevation was significantly lower than that at the low and mid-elevations, whereas there was no significant difference of soil bacterial diversity between the low and mid-elevations. After seven years of warming, soil fungal diversity was significantly increased at the mid-elevation but not the low and high elevations, and soil bacterial diversity was not significantly altered at the low, mid- and high elevations. Soil bacterial community structure was significantly altered at the low and mid-elevations but not the high elevation. Soil fungal community structure was significantly altered at all the three elevations. CC, Ts and pH significantly explained 20.55%, 5.30% and 12.61% of the variation of bacterial community structure, respectively. CC and Ts significantly explained 17.40% and 5.86% of the variation of fungal community structure, respectively. Therefore, responses of soil microbial community structure to warming may vary with elevation, which was mainly attributed to different vegetation coverage, soil temperature and/or pH conditions among the three elevations in this study alpine meadows.
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Affiliation(s)
- Chengqun Yu
- Lhasa Plateau Ecosystem Research Station, Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China
| | - Fusong Han
- Lhasa Plateau Ecosystem Research Station, Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Gang Fu
- Lhasa Plateau Ecosystem Research Station, Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China.
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Donhauser J, Frey B. Alpine soil microbial ecology in a changing world. FEMS Microbiol Ecol 2018; 94:5017441. [PMID: 30032189 DOI: 10.1093/femsec/fiy099] [Citation(s) in RCA: 53] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2017] [Accepted: 05/25/2018] [Indexed: 01/22/2023] Open
Abstract
Climate change has a disproportionally large impact on alpine soil ecosystems, leading to pronounced changes in soil microbial diversity and function associated with effects on biogeochemical processes at the local and supraregional scales. However, due to restricted accessibility, high-altitude soils remain largely understudied and a considerable heterogeneity hampers the comparability of different alpine studies. Here, we highlight differences and similarities between alpine and arctic ecosystems, and we discuss the impact of climatic variables and associated vegetation and soil properties on microbial ecology. We consider how microbial alpha-diversity, community structures and function change along altitudinal gradients and with other topographic features such as slope aspect. In addition, we focus on alpine permafrost soils, harboring a surprisingly large unknown microbial diversity and on microbial succession along glacier forefield chronosequences constituting the most thoroughly studied alpine habitat. Finally, highlighting experimental approaches, we present climate change studies showing shifts in microbial community structures and function in response to warming and altered moisture, interestingly with some contradiction. Collectively, despite harsh environmental conditions, many specially adapted microorganisms are able to thrive in alpine environments. Their community structures strongly correlate with climatic, vegetation and soil properties and thus closely mirror the complexity and small-scale heterogeneity of alpine soils.
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Affiliation(s)
| | - Beat Frey
- Swiss Federal Research Institute WSL, Birmensdorf, Switzerland
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Elster J, Margesin R, Wagner D, Häggblom M. Editorial: Polar and Alpine Microbiology—Earth's cryobiosphere. FEMS Microbiol Ecol 2016; 93:fiw221. [DOI: 10.1093/femsec/fiw221] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 10/18/2016] [Indexed: 11/12/2022] Open
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