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Wang M, Li D, Frey B, Gao D, Liu X, Chen C, Sui X, Li M. Land use modified impacts of global change factors on soil microbial structure and function: A global hierarchical meta-analysis. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 935:173286. [PMID: 38772492 DOI: 10.1016/j.scitotenv.2024.173286] [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: 03/17/2024] [Revised: 05/05/2024] [Accepted: 05/14/2024] [Indexed: 05/23/2024]
Abstract
Nitrogen cycling in terrestrial ecosystems is critical for biodiversity, vegetation productivity and biogeochemical cycling. However, little is known about the response of functional nitrogen cycle genes to global change factors in soils under different land uses. Here, we conducted a multiple hierarchical mixed effects meta-analyses of global change factors (GCFs) including warming (W+), mean altered precipitation (MAP+/-), elevated carbon dioxide concentrations (eCO2), and nitrogen addition (N+), using 2706 observations extracted from 200 peer-reviewed publications. The results showed that GCFs had significant and different effects on soil microbial communities under different types of land use. Under different land use types, such as Wetland, Tundra, Grassland, Forest, Desert and Agriculture, the richness and diversity of soil microbial communities will change accordingly due to differences in vegetation cover, soil management practices and environmental conditions. Notably, soil bacterial diversity is positively correlated with richness, but soil fungal diversity is negatively correlated with richness, when differences are driven by GCFs. For functional genes involved in nitrification, eCO2 in agricultural soils and the interaction of N+ with other GCFs in grassland soils stimulate an increase in the abundance of the AOA-amoA gene. In agricultural soil, MAP+ increases the abundance of nifH. W+ in agricultural soils and N+ in grassland soils decreased the abundance of nifH. The abundance of the genes nirS and nirK, involved in denitrification, was mainly negatively affected by W+ and positively affected by eCO2 in agricultural soil, but negatively affected by N+ in grassland soil. This meta-analysis was important for subsequent research related to global climate change. Considering data limitations, it is recommended to conduct multiple long-term integrated observational experiments to establish a scientific basis for addressing global changes in this context.
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Affiliation(s)
- Mingyu Wang
- Engineering Research Center of Agricultural Microbiology Technology, Ministry of Education & Heilongjiang Provincial Key Laboratory of Ecological Restoration and Resource Utilization for Cold Region & Key Laboratory of Microbiology, College of Heilongjiang Province & School of Life Sciences, Heilongjiang University, Harbin 150080, China
| | - Detian Li
- Griffith School of Environment and Science and the Australian Rivers Institute, Griffith University, Nathan, QLD, Australia
| | - Beat Frey
- Forest Dynamics, Swiss Federal Institute for Forest, Snow and Landscape Research, Birmensdorf, Switzerland
| | - Decai Gao
- Key Laboratory of Geographical Processes and Ecological Security in Changbai Mountains, Ministry of Education, School of Geographical Sciences, Northeast Normal University, Changchun, PR China
| | - Xiangyu Liu
- Griffith School of Environment and Science and the Australian Rivers Institute, Griffith University, Nathan, QLD, Australia
| | - Chengrong Chen
- Griffith School of Environment and Science and the Australian Rivers Institute, Griffith University, Nathan, QLD, Australia
| | - Xin Sui
- Engineering Research Center of Agricultural Microbiology Technology, Ministry of Education & Heilongjiang Provincial Key Laboratory of Ecological Restoration and Resource Utilization for Cold Region & Key Laboratory of Microbiology, College of Heilongjiang Province & School of Life Sciences, Heilongjiang University, Harbin 150080, China.
| | - Maihe Li
- Forest Dynamics, Swiss Federal Institute for Forest, Snow and Landscape Research, Birmensdorf, Switzerland; Key Laboratory of Geographical Processes and Ecological Security in Changbai Mountains, Ministry of Education, School of Geographical Sciences, Northeast Normal University, Changchun, PR China; School of Life Science, Hebei University, Baoding, China.
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Choi WJ, Park HJ, Baek N, In Yang H, Kwak JH, Lee SI, Park SW, Shin ES, Lim SS. Patterns of δ 15N in forest soils and tree foliage and rings between climate zones in relation to atmospheric nitrogen deposition: A review. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 900:165866. [PMID: 37516182 DOI: 10.1016/j.scitotenv.2023.165866] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Revised: 07/25/2023] [Accepted: 07/26/2023] [Indexed: 07/31/2023]
Abstract
The stable nitrogen (N) isotope ratio (δ15N) of forest samples (soils, tree foliage, and tree rings) has been used as a powerful indicator to explore the responses of forest N cycling to atmospheric N deposition. This review investigated the patterns of δ15N in forest samples between climate zones in relation to N deposition. Forest samples exhibited distinctive δ15N patterns between climate zones due to differences in site conditions (i.e., N availability and retention capacity) and the atmospheric N deposition characteristics (i.e., N deposition rate, N species, and δ15N of deposited N). For example, the δ15N of soil and foliage was higher for tropical forests than for other forests by >1.2 ‰ and 4 ‰, respectively due to the site conditions favoring N losses coupled with relatively low N deposition for tropical forests. This was further supported by the unchanged or increased δ15N of tree rings in tropical forests, which contrasts with other climate zones that exhibited a decreased wood δ15N since the 1920s. Subtropical forests under a high deposition of reduced N (NHy) had a lower δ15N by 2-5 ‰ in the organic layer compared with the other forests, reflecting high retention of 15N-depleted NHy deposition. At severely polluted sites in East Asia, the decreased δ15N in wood also reflected the consistent deposition of 15N-depleted NHy. Though our data analysis represents only a subset of global forest sites where atmospheric N deposition is of interest, the results suggest that the direction and magnitude of the changes in the δ15N of forest samples are related to both atmospheric N and site conditions particularly for tropical vs. subtropical forests. Site-specific information on the atmospheric N deposition characteristics would allow more accurate assessment of the variations in the δ15N of forest samples in relation to N deposition.
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Affiliation(s)
- Woo-Jung Choi
- Department of Rural & Biosystems Engineering (Brain Korea 21), Chonnam National University, Gwangju 61186, Republic of Korea; AgriBio Institute of Climate Change Management, Chonnam National University, Gwangju 61186, Republic of Korea.
| | - Hyun-Jin Park
- Crop Production & Physiology Division, National Institute of Crop Science, Rural Development Administration, Wanju, Jeollabukdo 55365, Republic of Korea
| | - Nuri Baek
- Department of Rural & Biosystems Engineering (Brain Korea 21), Chonnam National University, Gwangju 61186, Republic of Korea
| | - Hye In Yang
- Max Planck Institute for Biogeochemistry, Jena 07745, Germany
| | - Jin-Hyeob Kwak
- Department of Rural Construction Engineering, Jeonbuk National University, Jeonju, Jeollabukdo 57896, Republic of Korea
| | - Sun-Il Lee
- Climate Change Assessment Division, National Institute of Agricultural Science, Rural Development Administration, Wanju, Jeollabukdo 55365, Republic of Korea
| | - Seo-Woo Park
- Department of Rural & Biosystems Engineering (Brain Korea 21), Chonnam National University, Gwangju 61186, Republic of Korea
| | - Eun-Seo Shin
- Department of Rural & Biosystems Engineering (Brain Korea 21), Chonnam National University, Gwangju 61186, Republic of Korea
| | - Sang-Sun Lim
- Bio R&D Center, CJ Cheiljedang, Suwon, Gyeonggi-do 16495, Republic of Korea
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Zheng M, Xu M, Li D, Deng Q, Mo J. Negative responses of terrestrial nitrogen fixation to nitrogen addition weaken across increased soil organic carbon levels. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 877:162965. [PMID: 36948308 DOI: 10.1016/j.scitotenv.2023.162965] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2022] [Revised: 03/15/2023] [Accepted: 03/16/2023] [Indexed: 05/06/2023]
Abstract
The traditional view holds that biological nitrogen (N) fixation is energetically expensive and thus, facultative N fixers reduce N fixation rates while obligate N fixers are excluded by non-N fixers as soil N becomes rich. This view, however, contradicts the phenomenon that N fixation does not decline in many terrestrial ecosystems under N enrichment. To address this paradoxical phenomenon, we conducted a meta-analysis of N fixation and diazotroph (N-fixing microorganism) community structure in response to N addition across terrestrial ecosystems. N addition inhibited N fixation, but the inhibitory effect weakened across increased soil organic carbon (SOC) concentrations. The response ratios of N fixation (including free-living, plant-associated, and symbiotic types) to N addition were lower in the ecosystems with low SOC concentrations (<10 mg/g) than in those with medium or high SOC concentrations (10-20 and > 20 mg/g, respectively). The negative N-addition effects on diazotroph abundance and diversity also weakened across increased SOC levels. Among the climatic and soil factors, SOC was the most important predictor regarding the responses of N fixation and diazotroph community structure to N addition. Overall, our study reveals the role of SOC in affecting the responses of N fixation to N addition, which helps understand the relationships of biological N fixation and N enrichment as well as the mechanisms of terrestrial C and N coupling.
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Affiliation(s)
- Mianhai Zheng
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China; South China National Botanical Garden, Guangzhou, China.
| | - Meichen Xu
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China; South China National Botanical Garden, Guangzhou, China; College of Resource and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Dejun Li
- Key Laboratory of Agro-ecological Processes in Subtropical Region, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha, China
| | - Qi Deng
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China; South China National Botanical Garden, Guangzhou, China
| | - Jiangming Mo
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China; South China National Botanical Garden, Guangzhou, China.
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Chen Z, Zhang C, Liu Z, Song C, Xin S. Effects of Long-Term (17 Years) Nitrogen Input on Soil Bacterial Community in Sanjiang Plain: The Largest Marsh Wetland in China. Microorganisms 2023; 11:1552. [PMID: 37375054 PMCID: PMC10300847 DOI: 10.3390/microorganisms11061552] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2023] [Revised: 06/05/2023] [Accepted: 06/07/2023] [Indexed: 06/29/2023] Open
Abstract
Increased nitrogen (N) input from natural factors and human activities may negatively impact the health of marsh wetlands. However, the understanding of how exogenous N affects the ecosystem remains limited. We selected the soil bacterial community as the index of ecosystem health and performed a long-term N input experiment, including four N levels of 0, 6, 12, and 24 gN·m-2·a-1 (denoted as CK, C1, C2, and C3, respectively). The results showed that a high-level N (24 gN·m-2·a-1) input could significantly reduce the Chao index and ACE index for the bacterial community and inhibit some dominant microorganisms. The RDA results indicated that TN and NH4+ were the critical factors influencing the soil microbial community under the long-term N input. Moreover, the long-term N input was found to significantly reduce the abundance of Azospirillum and Desulfovibrio, which were typical N-fixing microorganisms. Conversely, the long-term N input was found to significantly increase the abundance of Nitrosospira and Clostridium_sensu_stricto_1, which were typical nitrifying and denitrifying microorganisms. Increased soil N content has been suggested to inhibit the N fixation function of the wetland and exert a positive effect on the processes of nitrification and denitrification in the wetland ecosystem. Our research can be used to improve strategies to protect wetland health.
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Affiliation(s)
- Zhenbo Chen
- Faculty of Infrastructure Engineering, Dalian University of Technology, Dalian 116023, China
| | - Chi Zhang
- Faculty of Infrastructure Engineering, Dalian University of Technology, Dalian 116023, China
| | - Zhihong Liu
- Faculty of Infrastructure Engineering, Dalian University of Technology, Dalian 116023, China
| | - Changchun Song
- Faculty of Infrastructure Engineering, Dalian University of Technology, Dalian 116023, China
| | - Shuai Xin
- Faculty of Infrastructure Engineering, Dalian University of Technology, Dalian 116023, China
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Li Y, Lei S, Cheng Z, Jin L, Zhang T, Liang LM, Cheng L, Zhang Q, Xu X, Lan C, Lu C, Mo M, Zhang KQ, Xu J, Tian B. Microbiota and functional analyses of nitrogen-fixing bacteria in root-knot nematode parasitism of plants. MICROBIOME 2023; 11:48. [PMID: 36895023 PMCID: PMC9999639 DOI: 10.1186/s40168-023-01484-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/04/2022] [Accepted: 01/31/2023] [Indexed: 06/18/2023]
Abstract
BACKGROUND Root-knot nematodes (RKN) are among the most important root-damaging plant-parasitic nematodes, causing severe crop losses worldwide. The plant rhizosphere and root endosphere contain rich and diverse bacterial communities. However, little is known about how RKN and root bacteria interact to impact parasitism and plant health. Determining the keystone microbial taxa and their functional contributions to plant health and RKN development is important for understanding RKN parasitism and developing efficient biological control strategies in agriculture. RESULTS The analyses of rhizosphere and root endosphere microbiota of plants with and without RKN showed that host species, developmental stage, ecological niche, and nematode parasitism, as well as most of their interactions, contributed significantly to variations in root-associated microbiota. Compared with healthy tomato plants at different developmental stages, significant enrichments of bacteria belonging to Rhizobiales, Betaproteobacteriales, and Rhodobacterales were observed in the endophytic microbiota of nematode-parasitized root samples. Functional pathways related to bacterial pathogenesis and biological nitrogen fixation were significantly enriched in nematode-parasitized plants. In addition, we observed significant enrichments of the nifH gene and NifH protein, the key gene/enzyme involved in biological nitrogen fixation, within nematode-parasitized roots, consistent with a potential functional contribution of nitrogen-fixing bacteria to nematode parasitism. Data from a further assay showed that soil nitrogen amendment could reduce both endophytic nitrogen-fixing bacteria and RKN prevalence and galling in tomato plants. CONCLUSIONS Results demonstrated that (1) community variation and assembly of root endophytic microbiota were significantly affected by RKN parasitism; (2) a taxonomic and functional association was found for endophytic nitrogen-fixing bacteria and nematode parasitism; and (3) the change of nitrogen-fixing bacterial communities through the addition of nitrogen fertilizers could affect the occurrence of RKN. Our results provide new insights into interactions among endophytic microbiota, RKN, and plants, contributing to the potential development of novel management strategies against RKN. Video Abstract.
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Affiliation(s)
- Ye Li
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation and College of Life Sciences, Fujian Normal University, Fuzhou, Fujian, 350108, China
| | - Shaonan Lei
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation and College of Life Sciences, Fujian Normal University, Fuzhou, Fujian, 350108, China
| | - Zhiqiang Cheng
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation and College of Life Sciences, Fujian Normal University, Fuzhou, Fujian, 350108, China
| | - Lingyue Jin
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation and College of Life Sciences, Fujian Normal University, Fuzhou, Fujian, 350108, China
| | - Ting Zhang
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation and College of Life Sciences, Fujian Normal University, Fuzhou, Fujian, 350108, China
| | - Lian-Ming Liang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan and The Key Laboratory for Southwest Microbial Diversity of the Ministry of Education, Yunnan University, Kunming, Yunnan, 650091, China
| | - Linjie Cheng
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation and College of Life Sciences, Fujian Normal University, Fuzhou, Fujian, 350108, China
| | - Qinyi Zhang
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation and College of Life Sciences, Fujian Normal University, Fuzhou, Fujian, 350108, China
| | - Xiaohong Xu
- Library, Fujian Normal University, Fuzhou, 350108, Fujian, China
| | - Canhua Lan
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation and College of Life Sciences, Fujian Normal University, Fuzhou, Fujian, 350108, China
| | - Chaojun Lu
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan and The Key Laboratory for Southwest Microbial Diversity of the Ministry of Education, Yunnan University, Kunming, Yunnan, 650091, China
| | - Minghe Mo
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan and The Key Laboratory for Southwest Microbial Diversity of the Ministry of Education, Yunnan University, Kunming, Yunnan, 650091, China
| | - Ke-Qin Zhang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan and The Key Laboratory for Southwest Microbial Diversity of the Ministry of Education, Yunnan University, Kunming, Yunnan, 650091, China
| | - Jianping Xu
- Department of Biology, McMaster University, Hamilton, ON, L8S 4K1, Canada.
| | - Baoyu Tian
- Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation and College of Life Sciences, Fujian Normal University, Fuzhou, Fujian, 350108, China.
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Jha V, Bombaywala S, Purohit H, Dafale NA. Differential colonization and functioning of microbial community in response to phosphate levels. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2022; 321:115856. [PMID: 35985261 DOI: 10.1016/j.jenvman.2022.115856] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2022] [Revised: 07/19/2022] [Accepted: 07/21/2022] [Indexed: 06/15/2023]
Abstract
Microbes play a major role in phosphate cycling and regulate its availability in various environments. The metagenomic study highlights the microbial community divergence and interplay of phosphate metabolism functional genes in response to phosphate rich (100 mgL-1), limiting (25 mgL-1), and stressed (5 mgL-1) conditions at lab-scale bioreactor. Total five core phyla were found responsive toward different phosphate (Pi) levels. However, major variations were observed in Proteobacteria and Actinobacteria with 33-81% and 5-56% relative abundance, respectively. Canonical correspondence analysis reflects the colonization of Sinorhizobium (0.8-4%), Mesorhizobium (1-4%), Rhizobium (0.5-3%) in rich condition whereas, Pseudomonas (1-2%), Rhodococcus (0.2-2%), Flavobacterium (0.2-1%) and Streptomyces (0.3-4%) colonized in limiting and stress condition. The functional profiling demonstrates that Pi limiting and stress condition subjected biomass were characterized by abundant PQQ-Glucose dehydrogenase, alkaline phosphatase, 5'-nucleotidase, and phospholipases C genes. The finding implies that the major abundant genera belonging to phosphate solubilization enriched in limiting/stressed conditions decide the functional turnover by modulating the metabolic flexibility for Pi cycling. The study gives a better insight into intrinsic ecological responsiveness mediated by microbial communities in different Pi conditions that would help to design the microbiome according to the soil phosphate condition. Furthermore, this information assists in sustainably maintaining the ecological balance by omitting excessive chemical fertilizers and eutrophication.
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Affiliation(s)
- Varsha Jha
- Environmental Biotechnology and Genomics Division, CSIR-National Environmental Engineering Research Institute, Nehru Marg, Nagpur, 440020, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Sakina Bombaywala
- Environmental Biotechnology and Genomics Division, CSIR-National Environmental Engineering Research Institute, Nehru Marg, Nagpur, 440020, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Hemant Purohit
- Environmental Biotechnology and Genomics Division, CSIR-National Environmental Engineering Research Institute, Nehru Marg, Nagpur, 440020, India
| | - Nishant A Dafale
- Environmental Biotechnology and Genomics Division, CSIR-National Environmental Engineering Research Institute, Nehru Marg, Nagpur, 440020, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India.
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Zhao Z, Zhang Y, Sun P, Wang Q, Ruan Y. Effects of biochar and chemical fertilizer amendment on diazotrophic abundance and community structure in rhizosphere and bulk soils. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:62361-62370. [PMID: 35397032 DOI: 10.1007/s11356-022-20086-4] [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: 02/10/2022] [Accepted: 03/31/2022] [Indexed: 06/14/2023]
Abstract
Diazotrophs carry out biological nitrogen (N) fixation process that replenishes available soil N; it is unclear how soil diazotrophic communities respond to biochar and chemical fertilizer amendment in agricultural ecosystem. Herein, we studied the impacts of biochar and chemical fertilizer amendment on diazotrophic communities in rhizosphere and bulk soils using nifH gene. The field experiment included four treatments: control (CK), biochar (B), chemical NPK fertilizer (CF), and biochar + chemical fertilizer (B + CF). nifH gene abundance in rhizosphere soils ranged from 9.00 × 107 to 2.57 × 108 copies g-1 dry soil among the different treatments, which was 1.42-2.68 times higher compared with the bulk soils ranging from 5.83 × 107 to 1.19 × 108 copies g-1 dry soil. Single application of biochar increased the abundance of nifH gene, whereas chemical fertilizer addition significantly decreased it in the bulk and rhizosphere soils. Single biochar addition affected diazotrophic community composition in rhizosphere soil, but not in the bulk soil. However, both CF and B + CF treatments obviously changed the community structure of diazotrophs in both soils. Moreover, rhizosphere effect enhanced nifH gene abundance and significantly altered the diazotrophic community structure compared to bulk soil. Phylogenetic analysis showed that all nifH sequences were affiliated to the cyanobacteria, α-, β-, γ-, and δ- subclasses of the proteobacteria group. Soil nutrient availability rather than pH had significant impacts on diazotrophic community structure based on mantel test and redundancy analysis. Overall, biochar improves the diazotrophic abundance, while chemical fertilization negatively affects it by altering nutrient availability, and combined application of biochar and chemical fertilizer does not counteract the adverse influences of chemical fertilizer on nitrogen-fixing microorganisms.
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Affiliation(s)
- Ziting Zhao
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bio-Resources, College of Tropical Crops, Hainan University, Haikou, 570228, China
| | - Yanshu Zhang
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bio-Resources, College of Tropical Crops, Hainan University, Haikou, 570228, China
| | - Ping Sun
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bio-Resources, College of Tropical Crops, Hainan University, Haikou, 570228, China
| | - Qing Wang
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bio-Resources, College of Tropical Crops, Hainan University, Haikou, 570228, China.
| | - Yunze Ruan
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bio-Resources, College of Tropical Crops, Hainan University, Haikou, 570228, China
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Rong X, Zhou X, Li X, Yao M, Lu Y, Xu P, Yin B, Li Y, Aanderud ZT, Zhang Y. Biocrust diazotrophs and bacteria rather than fungi are sensitive to chronic low N deposition. Environ Microbiol 2022; 24:5450-5466. [PMID: 35844197 DOI: 10.1111/1462-2920.16095] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2021] [Accepted: 06/03/2022] [Indexed: 11/03/2022]
Abstract
Anthropogenic long-term nitrogen (N) deposition may dramatically impact biocrusts due to the overarching N limitation of soil biota in deserts. Even low levels of N may reach a critical loading threshold altering biocrust constituents and function. To identify the impact of chronic and continuous low levels of N deposition on biocrusts, we created a realistic gradient mirroring anthropogenic N addition rate (2:1 NH4 + : NO3 - rates: 0.3, 0.5, 1.0, 1.5, 3 g N m-2 yr-1 ) and measured the response of bacteria and fungi within cyanobacterial-dominated biocrusts over 8 years in a temperate desert, the Gurbantunggut Desert, China. We found that once N deposition reached 1.5 g N m-2 yr-1 biocrust bacterial communities, including diazotrophs, were altered while no such tipping point existed for fungi. Above the threshold, bacterial richness was enhanced, the relative abundance of Chloroflexi, FBP and Gemmatimonadetes was elevated, and diazotrophs shifted from being dominated by Nostocaceae and Scytonemataceae (Cyanobacteria) to free-living Bradyrhizobiaceae (Alphaproteobacteria). Alternatively, the relative recovery of a few fungal species within the Lecanorales, Pleosporales and Verrucariales became either enriched or diminished due to N deposition. The chronic addition of N resulted in a dense and interconnected bacterial co-occurrence network that accentuated a functional shift from networks dominated by phototrophic species within the Nostocaceae, Xenococcaceae, Phormidiaceae and Scytonemataceae (Cyanobacteria) to ammonia-oxidizing species within the Nitrosomonadaceae (Betaproteobacteria) and nitrifying bacteria [i.e. Nitrospiraceae (Nitrospirae)]. Based on structural equation models, the effects of N additions on biocrust constituents were imposed through indirect effects on pH, soil electrical conductivity and ammonium concentrations. In summary, biocrust constituents are generally insensitive to chronic low levels of N depositions until rates reach above 1.5 g N m-2 yr-1 with diazotrophs being the most sensitive biocrust constituents followed by bacteria and finally fungi. Ultimately once the threshold is reached N deposition favours biocrust constituents utilizing inorganic N and other C sources over relying on phototrophic and/or N-fixing cyanobacteria for C and N.
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Affiliation(s)
- Xiaoying Rong
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Xiaobing Zhou
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Xiangzhen 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, China
| | - Minjie Yao
- College of Resources and Environment, Fujian Agriculture and Forest University, Fuzhou, China
| | - Yongxing Lu
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China.,University of the Chinese Academy of Sciences, Beijing, China
| | - Peng Xu
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China.,University of the Chinese Academy of Sciences, Beijing, China
| | - Benfeng Yin
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Yonggang Li
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Zachary T Aanderud
- Department of Plant and Wildlife Sciences, Brigham Young University, Provo, Utah, USA
| | - Yuanming Zhang
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
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Yan J, Han X, Lu X, Chen X, Zou W. Land use indirectly affects the cycling of multiple nutrients by altering the diazotrophic community in black soil. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2022; 102:3788-3795. [PMID: 34921680 DOI: 10.1002/jsfa.11727] [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: 06/23/2021] [Revised: 12/10/2021] [Accepted: 12/18/2021] [Indexed: 06/14/2023]
Abstract
BACKGROUND Diazotrophic bacteria, as one of most important group of soil microorganisms, play critical roles in multiple ecosystem functions (i.e., multifunctionality). However, little information is available about the diazotrophic community in driving soil nutrient cycling and multifunctionality at different depths with distinct vegetation in the black soil region of northeastern China. To learn the interactions among land use, cycling of multiple nutrients and the diazotrophic community, we performed this study in grassland (GL), forested land and a cropland (CL) in soils at depths of 0-15 cm and 15-35 cm. RESULTS The highest nifH gene abundances were found in the CL treatment, while the highest diazotrophic species richness and diversity were detected in the GL in both soil layers. The nifH gene abundance was directly/positively correlated with soil bulk density and negatively correlated with land use and soil depth. The index of multiple nutrient cycling was directly/negatively affected by soil depth and indirectly/positively affected by land use. Land use directly/negatively affected soil pH and thus indirectly affected the diazotrophic community composition and the nutrient cycling index. The diversity and community composition of the diazotrophs together accounted for 95% of the differences in the multiple nutrient cycling index. CONCLUSION Soil diazotrophic communities undertake important roles in maintaining nutrient cycling and soil multifunctionality at depths of 0-15 cm and 15-35 cm layers with different land uses of the black soil region of China. © 2021 Society of Chemical Industry.
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Affiliation(s)
- Jun Yan
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China
| | - Xiaozeng Han
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China
| | - Xinchun Lu
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China
| | - Xu Chen
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China
| | - Wenxiu Zou
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China
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10
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Luo R, Kuzyakov Y, Zhu B, Qiang W, Zhang Y, Pang X. Phosphorus addition decreases plant lignin but increases microbial necromass contribution to soil organic carbon in a subalpine forest. GLOBAL CHANGE BIOLOGY 2022; 28:4194-4210. [PMID: 35445477 DOI: 10.1111/gcb.16205] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/10/2022] [Accepted: 04/15/2022] [Indexed: 06/14/2023]
Abstract
Increasing phosphorus (P) inputs induced by anthropogenic activities have increased P availability in soils considerably, with dramatic effects on carbon (C) cycling and storage. However, the underlying mechanisms via which P drives plant and microbial regulation of soil organic C (SOC) formation and stabilization remain unclear, hampering the accurate projection of soil C sequestration under future global change scenarios. Taking the advantage of an 8-year field experiment with increasing P addition levels in a subalpine forest on the eastern Tibetan Plateau, we explored plant C inputs, soil microbial communities, plant and microbial biomarkers, as well as SOC physical and chemical fractions. We found that continuous P addition reduced fine root biomass, but did not affect total SOC content. P addition decreased plant lignin contribution to SOC, primarily from declined vanillyl-type phenols, which was coincided with a reduction in methoxyl/N-alkyl C by 2.1%-5.5%. Despite a decline in lignin decomposition due to suppressed oxidase activity by P addition, the content of lignin-derived compounds decreased because of low C input from fine roots. In contrast, P addition increased microbial (mainly fungal) necromass and its contribution to SOC due to the slower necromass decomposition under reduced N-acquisition enzyme activity. The larger microbial necromass contribution to SOC corresponded with a 9.1%-12.4% increase in carbonyl C abundance. Moreover, P addition had no influence on the slow-cycing mineral-associated organic C pool, and SOC chemical stability indicated by aliphaticity and recalcitrance indices. Overall, P addition in the subalpine forest over 8 years influenced SOC composition through divergent alterations of plant- and microbial-derived C contributions, but did not shape SOC physical and chemical stability. Such findings may aid in accurately forecasting SOC dynamics and their potential feedbacks to climate change with future scenarios of increasing soil P availability in Earth system models.
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Affiliation(s)
- Ruyi Luo
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate Ecosystems, Department of Agricultural Soil Science, University of Göttingen, Göttingen, Germany
- Peoples Friendship University of Russia (RUDN University), Moscow, Russia
- Institute of Environmental Sciences, Kazan Federal University, Kazan, Russia
| | - Biao Zhu
- Institute of Ecology, College of Urban and Environmental Sciences, and Key Laboratory for Earth Surface Processes of the Ministry of Education, Peking University, Beijing, China
| | - Wei Qiang
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Yan Zhang
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Xueyong Pang
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
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11
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Zeng Q, Ding X, Wang J, Han X, Iqbal HMN, Bilal M. Insight into soil nitrogen and phosphorus availability and agricultural sustainability by plant growth-promoting rhizobacteria. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:45089-45106. [PMID: 35474421 DOI: 10.1007/s11356-022-20399-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2021] [Accepted: 04/19/2022] [Indexed: 02/08/2023]
Abstract
Nitrogen and phosphorus are critical for the vegetation ecosystem and two of the most insufficient nutrients in the soil. In agriculture practice, many chemical fertilizers are being applied to soil to improve soil nutrients and yield. This farming procedure poses considerable environmental risks which affect agricultural sustainability. As robust soil microorganisms, plant growth-promoting rhizobacteria (PGPR) have emerged as an environmentally friendly way of maintaining and improving the soil's available nitrogen and phosphorus. As a special PGPR, rhizospheric diazotrophs can fix nitrogen in the rhizosphere and promote plant growth. However, the mechanisms and influences of rhizospheric nitrogen fixation (NF) are not well researched as symbiotic NF lacks summarizing. Phosphate-solubilizing bacteria (PSB) are important members of PGPR. They can dissolve both insoluble mineral and organic phosphate in soil and enhance the phosphorus uptake of plants. The application of PSB can significantly increase plant biomass and yield. Co-inoculating PSB with other PGPR shows better performance in plant growth promotion, and the mechanisms are more complicated. Here, we provide a comprehensive review of rhizospheric NF and phosphate solubilization by PGPR. Deeper genetic insights would provide a better understanding of the NF mechanisms of PGPR, and co-inoculation with rhizospheric diazotrophs and PSB strains would be a strategy in enhancing the sustainability of soil nutrients.
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Affiliation(s)
- Qingwei Zeng
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, 223003, China.
| | - Xiaolei Ding
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing, 210037, China
| | - Jiangchuan Wang
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, 223003, China
| | - Xuejiao Han
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, 223003, China
| | - Hafiz M N Iqbal
- Tecnologico de Monterrey, School of Engineering and Sciences, 64849, Monterrey, Mexico
| | - Muhammad Bilal
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, 223003, China
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12
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Xiao J, Dong S, Shen H, Li S, Wessell K, Liu S, Li W, Zhi Y, Mu Z, Li H. N Addition Overwhelmed the Effects of P Addition on the Soil C, N, and P Cycling Genes in Alpine Meadow of the Qinghai-Tibetan Plateau. FRONTIERS IN PLANT SCIENCE 2022; 13:860590. [PMID: 35557731 PMCID: PMC9087854 DOI: 10.3389/fpls.2022.860590] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/23/2022] [Accepted: 03/09/2022] [Indexed: 05/06/2023]
Abstract
Although human activities have greatly increased nitrogen (N) and phosphorus (P) inputs to the alpine grassland ecosystems, how soil microbial functional genes involved in nutrient cycling respond to N and P input remains unknown. Based on a fertilization experiment established in an alpine meadow of the Qinghai-Tibetan Plateau, we investigated the response of the abundance of soil carbon (C), N, and P cycling genes to N and P addition and evaluated soil and plant factors related to the observed effects. Our results indicated that the abundance of C, N, and P cycling genes were hardly affected by N addition, while P addition significantly increased most of them, suggesting that the availability of P plays a more important role for soil microorganisms than N in this alpine meadow ecosystem. Meanwhile, when N and P were added together, the abundance of C, N, and P cycling genes did not change significantly, indicating that the promoting effects of P addition on microbial functional genes abundances were overwhelmed by N addition. The Mantel analysis and the variation partitioning analysis revealed the major role of shoot P concentration in regulating the abundance of C, N, and P cycling genes. These results suggest that soil P availability and plant traits are key in governing C, N, and P cycling genes at the functional gene level in the alpine grassland ecosystem.
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Affiliation(s)
- Jiannan Xiao
- School of Environment, Beijing Normal University, Beijing, China
| | - Shikui Dong
- School of Grassland Sciences, Beijing Forestry University, Beijing, China
| | - Hao Shen
- School of Grassland Sciences, Beijing Forestry University, Beijing, China
| | - Shuai Li
- College of Resource and Environment, Shanxi Agricultural University, Taigu, China
| | - Kelly Wessell
- Tompkin Cortland Community College, Ithaca, NY, United States
| | - Shiliang Liu
- School of Environment, Beijing Normal University, Beijing, China
| | - Wei Li
- School of Environment, Beijing Normal University, Beijing, China
| | - Yangliu Zhi
- School of Environment, Beijing Normal University, Beijing, China
| | - Zhiyuan Mu
- School of Environment, Beijing Normal University, Beijing, China
| | - Hongbo Li
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing, China
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13
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Nepel M, Angel R, Borer ET, Frey B, MacDougall AS, McCulley RL, Risch AC, Schütz M, Seabloom EW, Woebken D. Global Grassland Diazotrophic Communities Are Structured by Combined Abiotic, Biotic, and Spatial Distance Factors but Resilient to Fertilization. Front Microbiol 2022; 13:821030. [PMID: 35418962 PMCID: PMC8996192 DOI: 10.3389/fmicb.2022.821030] [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: 11/23/2021] [Accepted: 02/21/2022] [Indexed: 11/25/2022] Open
Abstract
Grassland ecosystems cover around 37% of the ice-free land surface on Earth and have critical socioeconomic importance globally. As in many terrestrial ecosystems, biological dinitrogen (N2) fixation represents an essential natural source of nitrogen (N). The ability to fix atmospheric N2 is limited to diazotrophs, a diverse guild of bacteria and archaea. To elucidate the abiotic (climatic, edaphic), biotic (vegetation), and spatial factors that govern diazotrophic community composition in global grassland soils, amplicon sequencing of the dinitrogenase reductase gene—nifH—was performed on samples from a replicated standardized nutrient [N, phosphorus (P)] addition experiment in 23 grassland sites spanning four continents. Sites harbored distinct and diverse diazotrophic communities, with most of reads assigned to diazotrophic taxa within the Alphaproteobacteria (e.g., Rhizobiales), Cyanobacteria (e.g., Nostocales), and Deltaproteobacteria (e.g., Desulforomonadales) groups. Likely because of the wide range of climatic and edaphic conditions and spatial distance among sampling sites, only a few of the taxa were present at all sites. The best model describing the variation among soil diazotrophic communities at the OTU level combined climate seasonality (temperature in the wettest quarter and precipitation in the warmest quarter) with edaphic (C:N ratio, soil texture) and vegetation factors (various perennial plant covers). Additionally, spatial variables (geographic distance) correlated with diazotrophic community variation, suggesting an interplay of environmental variables and spatial distance. The diazotrophic communities appeared to be resilient to elevated nutrient levels, as 2–4 years of chronic N and P additions had little effect on the community composition. However, it remains to be seen, whether changes in the community composition occur after exposure to long-term, chronic fertilization regimes.
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Affiliation(s)
- Maximilian Nepel
- Department of Microbiology and Ecosystem Science, Centre for Microbiology and Environmental Systems Science, University of Vienna, Vienna, Austria.,Department of Botany and Biodiversity Research, University of Vienna, Vienna, Austria
| | - Roey Angel
- Department of Microbiology and Ecosystem Science, Centre for Microbiology and Environmental Systems Science, University of Vienna, Vienna, Austria
| | - Elizabeth T Borer
- Department of Ecology, Evolution, and Behavior, University of Minnesota, St. Paul, MN, United States
| | - Beat Frey
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Birmensdorf, Switzerland
| | | | - Rebecca L McCulley
- Department of Plant and Soil Sciences, University of Kentucky, Lexington, KY, United States
| | - Anita C Risch
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Birmensdorf, Switzerland
| | - Martin Schütz
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Birmensdorf, Switzerland
| | - Eric W Seabloom
- Department of Ecology, Evolution, and Behavior, University of Minnesota, St. Paul, MN, United States
| | - Dagmar Woebken
- Department of Microbiology and Ecosystem Science, Centre for Microbiology and Environmental Systems Science, University of Vienna, Vienna, Austria
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14
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Aloo BN, Mbega ER, Makumba BA, Tumuhairwe JB. Effects of agrochemicals on the beneficial plant rhizobacteria in agricultural systems. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:60406-60424. [PMID: 34535866 DOI: 10.1007/s11356-021-16191-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2021] [Accepted: 08/23/2021] [Indexed: 06/13/2023]
Abstract
Conventional agriculture relies heavily on chemical pesticides and fertilizers to control plant pests and diseases and improve production. Nevertheless, the intensive and prolonged use of agrochemicals may have undesirable consequences on the structure, diversity, and activities of soil microbiomes, including the beneficial plant rhizobacteria in agricultural systems. Although literature continues to mount regarding the effects of these chemicals on the beneficial plant rhizobacteria in agricultural systems, our understanding of them is still limited, and a proper account is required. With the renewed efforts and focus on agricultural and environmental sustainability, understanding the effects of different agrochemicals on the beneficial plant rhizobacteria in agricultural systems is both urgent and important to deduce practical solutions towards agricultural sustainability. This review critically evaluates the effects of various agrochemicals on the structure, diversity, and functions of the beneficial plant rhizobacteria in agricultural systems and propounds on the prospects and general solutions that can be considered to realize sustainable agricultural systems. This can be useful in understanding the anthropogenic effects of common and constantly applied agrochemicals on symbiotic systems in agricultural soils and shed light on the need for more environmentally friendly and sustainable agricultural practices.
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Affiliation(s)
- Becky Nancy Aloo
- Department of Biological Sciences, University of Eldoret, P.O. Box 1125-30100, Eldoret, Kenya.
| | - Ernest Rashid Mbega
- Department of Sustainable Agriculture and Biodiversity Conservation, Nelson Mandela African Institution of Science and Technology, P.O. Box 447, Arusha, Tanzania
| | - Billy Amendi Makumba
- Department of Biological Sciences, Moi University, P.O. Box 3900-30100, Eldoret, Kenya
| | - John Baptist Tumuhairwe
- Department of Agricultural Production, College of Agricultural and Environmental Sciences, Makerere University, P.O. Box, 7062, Kampala, Uganda
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15
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Ding X, Liu K, Yan Q, Liu X, Chen N, Wang G, He S. Sugar and organic acid availability modulate soil diazotroph community assembly and species co-occurrence patterns on the Tibetan Plateau. Appl Microbiol Biotechnol 2021; 105:8545-8560. [PMID: 34661705 DOI: 10.1007/s00253-021-11629-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2021] [Revised: 09/22/2021] [Accepted: 09/28/2021] [Indexed: 01/03/2023]
Abstract
Metabolites can mediate species interactions and the assembly of microbial communities. However, how these chemicals relate to the assembly processes and co-occurrence patterns of diazotrophic assemblages in root-associated soils remains largely unknown. Here, we examined the diversity and assembly of diazotrophic communities and further deciphered their links with metabolites on Tibetan Plateau. We found that the distribution of sugars and organic acids in the root-associated soils was significantly correlated with the richness of diazotrophs. The presence of these two soil metabolites explains the variability in diazotrophic community compositions. The differential concentrations of these metabolites were significantly linked with the distinctive abundances of diazotrophic taxa in same land types dominated by different plants or dissimilar soils by same plants. The assembly of diazotrophic communities is subject to deterministic ecological processes, which are widely modulated by the variety and amount of sugars and organic acids. Organic acids, for instance, 3-(4-hydroxyphenyl)propionic acid and citric acid, were effective predictors of the characteristics of diazotrophic assemblages across desert habitats. Diazotrophic co-occurrence networks tended to be more complex and connected within different land types covered by the same plant species. The concentrations of multiple sugars and organic acids were coupled significantly with the distribution of keystone species, such as Azotobacter, Azospirillum, Bradyrhizobium, and Mesorhizobium, in the co-occurrence network. These findings provide new insights into the assembly mechanisms of root-associated diazotrophic communities across the desert ecosystems of the Tibetan Plateau.Key points• Soil metabolites were significantly linked to the diversity of diazotrophic community.• Soil metabolites determined the assembly of diazotrophic community.• Sugars and organic acids were coupled mainly with keystone species in networks.
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Affiliation(s)
- Xiaowei Ding
- School of Food and Biological Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China
| | - Kaihui Liu
- School of Food and Biological Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China.
| | - Qingyun Yan
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou, 510006, China
| | - Xingyu Liu
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou, 510006, China
| | - Ni Chen
- School of Food and Biological Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China
| | - Guoliang Wang
- School of Food and Biological Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China
| | - Shuai He
- School of Food and Biological Engineering, Shaanxi University of Science and Technology, Xi'an, 710021, China
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16
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Hu T, Wang X, Zhen L, Gu J, Song Z, Sun W, Xie J. Succession of diazotroph community and functional gene response to inoculating swine manure compost with a lignocellulose-degrading consortium. BIORESOURCE TECHNOLOGY 2021; 337:125469. [PMID: 34320749 DOI: 10.1016/j.biortech.2021.125469] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2021] [Revised: 06/21/2021] [Accepted: 06/24/2021] [Indexed: 06/13/2023]
Abstract
Diazotroph community contributes to the nitrogen mass and improves the agronomic quality of composting product, but their responses to microbial inoculation during composting are unclear. In this study, the lignocellulose-degrading consortium was inoculated at different levels (0%: CK (control) and 10%: T) to investigate their effects on the variations in the diazotroph community and functional gene during composting. In the later composting phase, the nifH gene copy number was 17.50-25.28% higher in T than CK. The nitrogenase abundance in CK and T were 0.042% and 0.046% in composting product, respectively. Network analysis indicated that inoculation affected the co-occurrence patterns of the diazotroph community and changed the keystone species composition. Partial least-squares path modeling showed that available carbon sources and the succession of the diazotroph community mainly determined the increased abundance of nifH gene. Microbial inoculation stimulated the diazotrophs activities, and was conducive to the nitrogen production in composting product.
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Affiliation(s)
- Ting Hu
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Xiaojuan Wang
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China; Shaanxi Engineering Research Center of Utilization of Agricultural Waste Resources, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Lisha Zhen
- Shaanxi Province Microbiology Institute, Xi'an, Shaanxi 710043, China
| | - Jie Gu
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China; Shaanxi Engineering Research Center of Utilization of Agricultural Waste Resources, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Zilin Song
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China; Shaanxi Engineering Research Center of Utilization of Agricultural Waste Resources, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Wei Sun
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China; Shaanxi Engineering Research Center of Utilization of Agricultural Waste Resources, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Jun Xie
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, China
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Tang S, Ma Q, Luo J, Xie Y, Hashmi MLUR, Pan W, Zheng N, Liu M, Wu L. The inhibition effect of tea polyphenols on soil nitrification is greater than denitrification in tea garden soil. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 778:146328. [PMID: 33714837 DOI: 10.1016/j.scitotenv.2021.146328] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2020] [Revised: 02/23/2021] [Accepted: 03/03/2021] [Indexed: 06/12/2023]
Abstract
Tea polyphenols are the most widely distributed class of secondary metabolites (Camellia sinensis) and account for a considerable proportion of the pruning residues of tea. A large amount of tea polyphenols have fallen down over soil with prunning residues every year. However, the effect of tea polyphenols on soil nitrogen cycle, especially the denitrification process and its related microbial communities, remains unclear. Epigallocatechin gallate (EGCG), the most abundant component of tea polyphenols, was selected to simulate the effects of tea polyphenols on soil nitrification, denitrification, related functional genes and microbial community. The results indicated that addition of EGCG can significantly (p < 0.05) inhibit soil nitrification. Copy numbers of bacterial and archaeal ammonia monooxygenase genes (amoA) decreased as EGCG concentration increased. Further, the ammonia oxidisers exhibited a significantly (p < 0.05) greater niche differentiation under the effect of EGCG compared with the control treatment (no EGCG addition). However, the inhibition effect of EGCG over soil denitrification was most significant at 34 and 36 day of incubation period, and such inhibitory effect was more apparent on nitrification compared with denitrification. EGCG addition increased the diversity of bacterial community. The composition of bacterial community was significantly altered and community variation was primary explained by EGCG, NH4+-N, NO3--N, soil organic carbon contents and potential denitrification rates. EGCG addition significantly increased relative abundance of Proteobacteria and Bacteroidetes phyla whereas decreased Actinobacteria. Overall, tea polyphenols can inhibit soil nitrification to a larger extent than denitrification by reducing the abundance of microorganisms carrying the related functional genes. Our results can serve as important basis of reducing the nitrogen pollution risk in tea orchards and could be considered as a powerful natural nitrification inhibitor to reduce the environmental risks caused by unreasonable nitrogen fertiliser adaptation.
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Affiliation(s)
- Sheng Tang
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Qingxu Ma
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China.
| | - Jipeng Luo
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Yinan Xie
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Muhammad Laeeq Ur Rehman Hashmi
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Wankun Pan
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Nan Zheng
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Mengjiao Liu
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Lianghuan Wu
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China.
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18
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Chen H, Zheng C, Qiao Y, Du S, Li W, Zhang X, Zhao Z, Cao C, Zhang W. Long-term organic and inorganic fertilization alters the diazotrophic abundance, community structure, and co-occurrence patterns in a vertisol. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 766:142441. [PMID: 33097271 DOI: 10.1016/j.scitotenv.2020.142441] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2020] [Revised: 09/10/2020] [Accepted: 09/12/2020] [Indexed: 06/11/2023]
Abstract
Diazotrophs play a critical role in converting air-inactive nitrogen to bio-available nitrogen. Assessing the influences of different fertilization regimes on diazotrophs is essential for a better understanding of their maintenance of soil fertility and agricultural sustainability. In this study, we targeted the nifH gene to investigate the effects of different long-term fertilization on the diazotrophic community in a vertisol, using real-time quantitative polymerase chain reaction (PCR) and MiSeq sequencing. Five fertilization regimes were tested: no fertilizer (CK), chemical nitrogen, phosphorus, and potassium fertilizer (NPK), organic fertilizer (O), chemical NPK plus organic fertilizer with an equivalent application rate of nitrogen (NPKO), and chemical NPK plus organic fertilizer with a high application rate of nitrogen (HNPKO). Our results showed that fertilization significantly affected the diazotrophic activity, abundance and composition. NPK tended to reduce the activity, abundance, operational taxonomic units (OTU)-richness and alpha-diversity of the diazotrophs, while O had the opposite effect. The effects of inorganic and organic fertilization on the diazotrophs depended on the N application rate, showing that the diazotrophic activity, abundance, and alpha-diversity in NPKO were higher than that of HNPKO. For the diazotrophic community structure, CK, O, and NPKO were grouped and separated from NPK and HNPKO. The diazotrophic community structure strongly correlated with the soil pH, electrical conductivity (EC), total carbon content (TC), and total nitrogen content (TN), among which pH was the major factor shaping the diazotrophic community structure. Different network patterns were observed between the long-term organic and non-organic fertilizers, suggesting that the organic amendment resulted in a more complicated diazotrophic community than the non-organic amendments. Rhizobium was the most important hub connecting members in the community. These results indicated that organic amendments are beneficial to diazotrophic activity, abundance, OTU richness, alpha-diversity, and the diazotrophic communities' potential interactions, which may enhance biological nitrogen fixation in vertisols.
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Affiliation(s)
- Huan Chen
- Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230031, China; Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Chengyan Zheng
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Yuqiang Qiao
- Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230031, China
| | - Shizhou Du
- Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230031, China
| | - Wei Li
- Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230031, China
| | - Xiangqian Zhang
- Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230031, China
| | - Zhu Zhao
- Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230031, China
| | - Chengfu Cao
- Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230031, China.
| | - Weijian Zhang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
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19
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Nitrogen Pools in Tropical Plantations of N2-Fixing and Non-N2-Fixing Legume Trees under Different Tree Stand Densities. NITROGEN 2021. [DOI: 10.3390/nitrogen2010006] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
We investigated the nitrogen pools in monocultures of legume species widely used in reforestation in Brazil that have contrasting growth and nitrogen acquisition strategies. The plantations were established with the slow-growing and N2-fixing tree Anadenanthera peregrina var. peregrina, and the fast-growing and non-fixing tree Schizolobium parahyba var. amazonicum. The measurements of N pools in the tree biomass and the soil followed standard methods and were carried out on 54 experimental plots. The N2 fixation pools were evaluated by abundance natural of 15N and the N accretion methods. The soil N content was of similar magnitude between species and stand densities. The species showed similar amounts of N in the biomass, but divergent patterns of N accumulation, as well as the 15N signature on the leaves. S. parahyba accumulated most N in the stem, while A. peregrina accumulated N in the roots and leaves. However, the N accumulation in biomass of A. peregrina stand was less constrained by environment than in S. parahyba stands. The percentage of N derived from N2 fixation in A. peregrina stands decreased with the increase of stand density. The biological N2 fixation estimates depended on the method and the response of tree species to environment.
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20
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Wu C, Wei X, Hu Z, Liu Y, Hu Y, Qin H, Chen X, Wu J, Ge T, Zhran M, Su Y. Diazotrophic Community Variation Underlies Differences in Nitrogen Fixation Potential in Paddy Soils Across a Climatic Gradient in China. MICROBIAL ECOLOGY 2021; 81:425-436. [PMID: 32901387 DOI: 10.1007/s00248-020-01591-w] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/16/2020] [Accepted: 08/28/2020] [Indexed: 06/11/2023]
Abstract
Biological nitrogen (N2) fixation as a source of new N input into the soil by free-living diazotrophs is important for achieving sustainable rice agriculture. However, the dominant environmental drivers or factors influencing N2 fixation and the functional significance of the diazotroph community structure in paddy soil across a climatic gradient are not yet well understood. Thus, we characterized the diazotroph community and identified the ecological predictors of N2 fixation potential in four different climate zones (mid-temperate, warm-temperate, subtropical, and tropical paddy soils) in eastern China. Comprehensive nifH gene sequencing, functional activity detection, and correlation analysis with environmental factors were estimated. The potential nitrogenase activity (PNA) was highest in warm-temperate regions, where it was 6.2-, 2.9-, and 2.2-fold greater than in the tropical, subtropical, and mid-temperate regions, respectively; nifH gene abundance was significantly higher in warm-temperate and subtropical zones than in the tropical or mid-temperate zones. Diazotroph diversity was significantly higher in the tropical climate zone and significantly lower in the mid-temperate zone. Non-metric multidimensional scaling and canonical correlation analysis indicated that paddy soil diazotroph populations differed significantly among the four climate zones, mainly owing to differences in climate and soil pH. Structural equation models and automatic linear models revealed that climate and nutrients indirectly affected PNA by affecting soil pH and diazotroph community, respectively, while diazotroph community, C/P, and nifH gene abundance directly affected PNA. And C/P ratio, pH, and the diazotroph community structure were the main predictors of PNA in paddy soils. Collectively, the differences in diazotroph community structure have ecological significance, with important implications for the prediction of soil N2-fixing functions under climate change scenarios.
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Affiliation(s)
- Chuanfa Wu
- Key Laboratory of Agro-ecological Processes in Subtropical Region & Changsha Research Station for Agricultural and Environmental Monitoring, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Hunan, 410125, China
| | - Xiaomeng Wei
- Key Laboratory of Agro-ecological Processes in Subtropical Region & Changsha Research Station for Agricultural and Environmental Monitoring, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Hunan, 410125, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Ziye Hu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
| | - Yi Liu
- Key Laboratory of Agro-ecological Processes in Subtropical Region & Changsha Research Station for Agricultural and Environmental Monitoring, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Hunan, 410125, China.
- Key Laboratory of Agro-ecological Processes in Subtropical Regions, Taoyuan Agro-ecosystem Research Station, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha, 410125, China.
| | - Yajun Hu
- Key Laboratory of Agro-ecological Processes in Subtropical Region & Changsha Research Station for Agricultural and Environmental Monitoring, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Hunan, 410125, China
| | - Hongling Qin
- Key Laboratory of Agro-ecological Processes in Subtropical Region & Changsha Research Station for Agricultural and Environmental Monitoring, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Hunan, 410125, China
- Key Laboratory of Agro-ecological Processes in Subtropical Regions, Taoyuan Agro-ecosystem Research Station, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha, 410125, China
| | - Xiangbi Chen
- Key Laboratory of Agro-ecological Processes in Subtropical Region & Changsha Research Station for Agricultural and Environmental Monitoring, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Hunan, 410125, China
| | - Jinshui Wu
- Key Laboratory of Agro-ecological Processes in Subtropical Region & Changsha Research Station for Agricultural and Environmental Monitoring, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Hunan, 410125, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Tida Ge
- Key Laboratory of Agro-ecological Processes in Subtropical Region & Changsha Research Station for Agricultural and Environmental Monitoring, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Hunan, 410125, China
| | - Mostafa Zhran
- Key Laboratory of Agro-ecological Processes in Subtropical Region & Changsha Research Station for Agricultural and Environmental Monitoring, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Hunan, 410125, China
- Soil and Water Research Department, Nuclear Research Center, Atomic Energy Authority, Abou-Zaabl, 13759, Egypt
| | - Yirong Su
- Key Laboratory of Agro-ecological Processes in Subtropical Region & Changsha Research Station for Agricultural and Environmental Monitoring, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Hunan, 410125, China.
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21
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Sun K, Sun H, Qiu Z, Liu Q. Comparative Analyses of Phyllosphere Bacterial Communities and Metabolomes in Newly Developed Needles of Cunninghamia lanceolata (Lamb.) Hook. at Four Stages of Stand Growth. FRONTIERS IN PLANT SCIENCE 2021; 12:717643. [PMID: 34650578 PMCID: PMC8505725 DOI: 10.3389/fpls.2021.717643] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2021] [Accepted: 08/30/2021] [Indexed: 05/06/2023]
Abstract
Host-plant-associated bacteria affect the growth, vigor, and nutrient availability of the host plant. However, phyllosphere bacteria have received less research attention and their functions remain elusive, especially in forest ecosystems. In this study, we collected newly developed needles from sapling (age 5 years), juvenile (15 years), mature (25 years), and overmature (35 years) stands of Chinese fir [Cunninghamia lanceolata (Lamb.) Hook]. We analyzed changes in phyllosphere bacterial communities, their functional genes, and metabolic activity among different stand ages. The results showed that phyllosphere bacterial communities changed, both in relative abundance and in composition, with an increase in stand age. Community abundance predominantly changed in the orders Campylobacterales, Pseudonocardiales, Deinococcales, Gemmatimonadales, Betaproteobacteriales, Chthoniobacterales, and Propionibacteriales. Functional predictions indicated the genes of microbial communities for carbon metabolism, nitrogen metabolism, antibiotic biosynthesis, flavonoids biosynthesis, and steroid hormone biosynthesis varied; some bacteria were strongly correlated with some metabolites. A total of 112 differential metabolites, including lipids, benzenoids, and flavonoids, were identified. Trigonelline, proline, leucine, and phenylalanine concentrations increased with stand age. Flavonoids concentrations were higher in sapling stands than in other stands, but the transcript levels of genes associated with flavonoids biosynthesis in the newly developed needles of saplings were lower than those of other stands. The nutritional requirements and competition between individual trees at different growth stages shaped the phyllosphere bacterial community and host-bacteria interaction. Gene expression related to the secondary metabolism of shikimate, mevalonate, terpenoids, tocopherol, phenylpropanoids, phenols, alkaloids, carotenoids, betains, wax, and flavonoids pathways were clearly different in Chinese fir at different ages. This study provides an overview of phyllosphere bacteria, metabolism, and transcriptome in Chinese fir of different stand ages and highlights the value of an integrated approach to understand the molecular mechanisms associated with biosynthesis.
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Affiliation(s)
- Kun Sun
- Key Laboratory of Subtropical Siviculture of State Forestry and Grassland Administration, Research Institute of Subtropical Forestry of Chinese Academy of Forestry, Hangzhou, China
- Department of Tree Genetics, College of Forestry, Beihua University, Jilin, China
| | - Honggang Sun
- Key Laboratory of Subtropical Siviculture of State Forestry and Grassland Administration, Research Institute of Subtropical Forestry of Chinese Academy of Forestry, Hangzhou, China
- *Correspondence: Honggang Sun
| | - Zonghao Qiu
- Laboratory of Molecular Biology, Institute of Biochemistry and Molecular Biology, Albert-Ludwigs-Universität Freiburg, Freiburg im Breisgau, Germany
| | - Qiang Liu
- Department of Plant Sciences, School of Life Sciences, Jilin Normal University, Siping, China
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22
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Li J, Wang G, Yan B, Liu G. The responses of soil nitrogen transformation to nitrogen addition are mainly related to the changes in functional gene relative abundance in artificial Pinus tabulaeformis forests. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 723:137679. [PMID: 32213396 DOI: 10.1016/j.scitotenv.2020.137679] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2019] [Revised: 02/23/2020] [Accepted: 03/01/2020] [Indexed: 06/10/2023]
Abstract
The increase of soil nitrogen (N) availability may alter soil microbial community composition and the natural N cycle in forest ecosystems. However, the responses of soil microbial nitrogen functional genes (NFGs) to N addition and their consequent effect on the N-cycle processes are poorly understood. In this study, soil samples were collected from an artificial Pinus tabulaeformis forest located in Loess Plateau (China) to which N at four different concentrations was added (0 [N0], 3 [N3], 6 [N6], and 9 [N9] g N m-2 y-1) for 4 years. We quantified the relative abundance of NFGs using functional gene microarray GeoChip 5.0 and determined net N transformation and N2O emission rates in a 14-day incubation experiment. The results showed that N3 and N6 treatments did not significantly affect the total relative abundance and diversity of NFGs assemblage but significantly increased the relative abundance of specific genes for the NH3 cycle (ureC, nirA, and nrfA), and nitrification (amoA) and denitrification (norB). These positive effects were related to the increase in soil organic C, NO3--N, and microbial biomass C (MBC). N9 treatment significantly decreased the relative abundance of all NFGs, and this negative impact was correlated with reduced dissolved organic C and MBC. Moreover, N addition significantly changed net N nitrification, mineralization, and N2O emission rates, and NFGs explained the higher variances in the N transformation processes than soil properties. Specifically, ammonia-oxidizing archaea (amoA-AOB) and MBC were the key factors related to net N nitrification; ureC, nirK, and MBC were the key factors related to net N mineralization; and narG and nirS were the key factors related to N2O emission. Our results show that global N deposition may mainly influence N transformation processes by regulating the corresponding NFG relative abundance, thereby affecting the N cycle in forest soils.
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Affiliation(s)
- Jingjing Li
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, Northwest A&F University, Yangling 712100, Shaanxi Province, China
| | - Guoliang Wang
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, Northwest A&F University, Yangling 712100, Shaanxi Province, China; Institute of Soil and Water Conservation, Chinese Academy of Science and Ministry of Water Resources, Yangling 712100, Shaanxi, China.
| | - Benshuai Yan
- Institute of Soil and Water Conservation, Chinese Academy of Science and Ministry of Water Resources, Yangling 712100, Shaanxi, China
| | - Guobin Liu
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, Northwest A&F University, Yangling 712100, Shaanxi Province, China; Institute of Soil and Water Conservation, Chinese Academy of Science and Ministry of Water Resources, Yangling 712100, Shaanxi, China.
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23
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Jia R, Wang K, Li L, Qu Z, Shen W, Qu D. Abundance and community succession of nitrogen-fixing bacteria in ferrihydrite enriched cultures of paddy soils is closely related to Fe(III)-reduction. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 720:137633. [PMID: 32146407 DOI: 10.1016/j.scitotenv.2020.137633] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2019] [Revised: 02/24/2020] [Accepted: 02/28/2020] [Indexed: 06/10/2023]
Abstract
In flooded paddy soils, some metal reducers are also capable of nitrogen (N) fixation, which is essential in ensuring a reliable N-supply for rice growth. Microbial iron [Fe(III)] reduction is an important biogeochemical process that can be stimulated by ferrihydrite amendment to paddy soil. Therefore, this study aimed to investigate the abundance and succession of the N2-fixing bacterial community in ferrihydrite enriched paddy soils collected from Hunan (HN) and Sichuan (SC) provinces, China. The relationship between the N2-fixing bacterial community and Fe(III) reduction was also assessed. When compared with the control treatment, ferrihydrite enrichment significantly enhanced nitrogenase (nifH) gene abundance by 8.05 × 105 to 4.45 × 106 copies g-1 soil during the 40-day flooding of HN soil, while nifH gene abundance in SC soil was remarkably increased by 5.90 × 107 to 9.56 × 107 copies g-1 soil during day 1 to 5 in response to ferrihydrite amendment. The relative abundance of N2-fixing bacteria peaked on day 5 (21.5% in HN soil and 5.4% in SC soil) and gradually decreased to a stable abundance after day 20. Remarkable increases in relative abundance of N2-fixing bacteria during the first 10 days of flooding were detected in both soils with ferrihydrite enrichment, whereas little difference was found after day 10 of flooding. During the early stage of flooding, the Shannon and Simpson indexes of N2-fixing bacteria with ferrihydrite enrichment were significantly decreased, and the community structure changed greatly. Most N2-fixing bacteria in ferrihydrite enriched paddy soils were phylogenetically related to the order Clostridiales, with some of those potentially capable of Fe(III) reduction. The community succession of N2-fixing bacteria closely correlated with Fe(III) reduction. Thus, improving N2-fixation via stimulation of Fe(III) reduction might aid in the reduction of N-fertilizer application to paddy field.
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Affiliation(s)
- Rong Jia
- Key Laboratory of Land Resources Evaluation and Monitoring in Southwest China, Ministry of Education, Sichuan Normal University, Chengdu, Sichuan Province 610066, PR China; College of Natural Resources and Environment, Northwest A & F University, Yangling, Shaanxi Province 712100, PR China
| | - Kun Wang
- College of Natural Resources and Environment, Northwest A & F University, Yangling, Shaanxi Province 712100, PR China
| | - Lina Li
- College of Resources and Environment, Shanxi Agricultural University, Jinzhong, Shanxi Province 030801, PR China
| | - Zhi Qu
- State Key Laboratory of Eco-hydraulics in Northwest Arid Region of China, Xi'an University of Technology, Xi'an, Shaanxi Province 710048, PR China
| | - Weishou Shen
- Jiangsu Key Laboratory of Atmospheric Environment Monitoring and Pollution Control, Collaborative Innovation Center of Atmospheric Environment and Equipment Technology, School of Environmental Science and Engineering, Nanjing University of Information Science and Technology, Nanjing 210044, PR China
| | - Dong Qu
- State Key Laboratory of Soil Erosion and Dryland Farming on Loess Plateau, Northwest A&F University, Yangling, Shaanxi Province, PR China.
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24
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Ding Y, Jin Y, He K, Yi Z, Tan L, Liu L, Tang M, Du A, Fang Y, Zhao H. Low Nitrogen Fertilization Alter Rhizosphere Microorganism Community and Improve Sweetpotato Yield in a Nitrogen-Deficient Rocky Soil. Front Microbiol 2020; 11:678. [PMID: 32351491 PMCID: PMC7174733 DOI: 10.3389/fmicb.2020.00678] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2019] [Accepted: 03/24/2020] [Indexed: 12/22/2022] Open
Abstract
Sweetpotato can be cultivated in the reclaimed rocky soil in Sichuan Basin, China, which benefits from the release of mineral nutrients in the rocky soil by microorganisms. Shortage of nitrogen (N) in the rocky soil limits sweetpotato yield, which can be compensated through N fertilization. Whereas high N fertilization inhibits biological N fixation and induces unintended environmental consequences. However, the effect of low N fertilization on microorganism community and sweetpotato yield in the N-deficient rocky soil is still unclear. We added a low level of 1.5 g urea/m2 to a rocky soil cultivated with sweetpotato, and measured rocky soil physiological and biochemical properties, rhizosphere microbial diversity, sweetpotato physiological properties and transcriptome. When cultivating sweetpotato in the rocky soil, low N fertilization (1.5 g urea/m2) not only improved total N (TN) and available N (AN) in the rocky soil, but also increased available phosphorus (AP), available potassium (AK), and nitrogenase and urease activity. Interestingly, although low N fertilization could reduce bacterial diversity through affecting sweetpotato root exudates and rocky soil properties, the relative abundance of P and K-solubilizing bacteria, N-fixing and urease-producing bacteria increased under low N fertilization, and the relative abundance of plant pathogens decreased. Furthermore, low N fertilization increased the phytohormones, such as zeatin riboside, abscisic acid, and methyl jasmonate contents in sweetpotato root. Those increases were consistent with our transcriptome findings: the inhibition of the lignin synthesis, the promotion of the starch synthesis, and the upregulated expression of Expansin, thus resulting in promoting the formation of tuberous roots and further increasing the sweetpotato yield by half, up to 3.3 kg/m2. This study indicated that low N fertilization in the N-deficient rocky soil improved this soil quality through affecting microorganism community, and further increased sweetpotato yield under regulation of phytohormones pathway.
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Affiliation(s)
- Yanqiang Ding
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China.,Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Yanling Jin
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Kaize He
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Zhuolin Yi
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Li Tan
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Lisha Liu
- Sweetpotato Institute, Nanchong Academy of Agricultural Sciences, Nanchong, China
| | - Mingshuang Tang
- Sweetpotato Institute, Nanchong Academy of Agricultural Sciences, Nanchong, China
| | - Anping Du
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Yang Fang
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Hai Zhao
- CAS Key Laboratory of Environmental and Applied Microbiology, Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
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Xiao D, Liu X, Yang R, Tan Y, Zhang W, He X, Xu Z, Wang K. Nitrogen fertilizer and Amorpha fruticosa leguminous shrub diversely affect the diazotroph communities in an artificial forage grassland. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 711:134967. [PMID: 32000331 DOI: 10.1016/j.scitotenv.2019.134967] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2019] [Revised: 09/24/2019] [Accepted: 10/11/2019] [Indexed: 06/10/2023]
Abstract
Soil diazotrophs have been known to be essential in biological nitrogen (N) fixation, which contributes to the sustainability of agricultural ecosystems. However, there remains an inadequacy of research on the effects of different N inputs from N fertilization and from symbiotic N fixation associated with legumes on the diazotroph communities in agricultural ecosystems. Hence, we investigated the variations in diazotroph abundance and community composition as well as the soil properties with different N inputs in the Guimu-1 hybrid elephant grass cultivation on karst soils in China. We conducted six different N treatments: control, Amorpha fruticosa planting at a spacing of 1.5 × 2 m (AFD1), A. fruticosa planting at a spacing of 1 × 2 m (AFD2), N fertilization (N), A. fruticosa planting at a spacing of 1.5 × 2 m with N fertilization (AFD1N), and A. fruticosa planting at a spacing of 1 × 2 m with N fertilization (AFD2N). Our results showed that the interaction between sampling time and N fertilization significantly affected the diazotroph abundance. In July, the diazotroph abundance significantly decreased in the N fertilization treatments: N, AFD1N, and AFD2N, compared to that in the control. The richness and Chao1 estimator of diazotrophs significantly increased in AFD2N and AFD1 correspondingly in December and July, relative to those in the control. Co-occurrence networks showed species-species interactions with high negative correlations that occurred more in the control than in the N input plots. The N input from N fertilization and legume planting directly increased the ammonium N and nitrate N and consequently affected the dissolved organic N and pH of the soil, thereby altering the diazotroph abundance and richness. Our findings demonstrated that both N fertilization and legumes could reduce the interspecific competition among diazotroph species by providing greater N availability in the forage grass.
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Affiliation(s)
- Dan Xiao
- Key Laboratory of Agro-ecological Processes in Subtropical Region, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha 410125, China; Huanjiang Observation and Research Station for Karst Ecosystems, Chinese Academy of Sciences, Huanjiang 547100, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xin Liu
- Key Laboratory of Agro-ecological Processes in Subtropical Region, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha 410125, China; Huanjiang Observation and Research Station for Karst Ecosystems, Chinese Academy of Sciences, Huanjiang 547100, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Rong Yang
- Key Laboratory of Agro-ecological Processes in Subtropical Region, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha 410125, China; Huanjiang Observation and Research Station for Karst Ecosystems, Chinese Academy of Sciences, Huanjiang 547100, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yongjun Tan
- Key Laboratory of Agro-ecological Processes in Subtropical Region, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha 410125, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Wei Zhang
- Key Laboratory of Agro-ecological Processes in Subtropical Region, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha 410125, China; Huanjiang Observation and Research Station for Karst Ecosystems, Chinese Academy of Sciences, Huanjiang 547100, China.
| | - Xunyang He
- Key Laboratory of Agro-ecological Processes in Subtropical Region, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha 410125, China; Huanjiang Observation and Research Station for Karst Ecosystems, Chinese Academy of Sciences, Huanjiang 547100, China
| | - Zhihong Xu
- Environmental Futures Research Institute, School of Environment and Science, Griffith University, Brisbane 4111, Australia
| | - Kelin Wang
- Key Laboratory of Agro-ecological Processes in Subtropical Region, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha 410125, China; Huanjiang Observation and Research Station for Karst Ecosystems, Chinese Academy of Sciences, Huanjiang 547100, China.
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26
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Zhou TC, Sun J, Liu M, Shi PL, Zhang XB, Sun W, Yang G, Tsunekawa A. Coupling between plant nitrogen and phosphorus along water and heat gradients in alpine grassland. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 701:134660. [PMID: 31704401 DOI: 10.1016/j.scitotenv.2019.134660] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2019] [Revised: 09/24/2019] [Accepted: 09/24/2019] [Indexed: 06/10/2023]
Abstract
The biogeochemical cycles of plant nitrogen (N) and phosphorus (P) are interlinked by ecological processes, and the N and P cycles become uncoupled in response to global change experiments. However, the complex natural hydrothermal conditions in arid, semiarid and humid grassland ecosystems may have different effects on the availability of soil nutrients and moisture and may induce different balances between the N and P cycles. Here, we evaluated how the aridity index (AI) affects the balance between N and P of alpine grassland by the collected 115 sites along water and heat availability gradients on the Tibetan Plateau. We found that AI was negatively related to the variation in the coefficients of soil total dissolved N (TDN) and soil availability of P (SAP), and positive effects of AI, TDN and SAP on the coupling of plant N and P were detected. Thus, AI was positively correlated with soil nutrients and moisture, which may favor the co-uptake of soil nutrients by plants, resulting in a small variation in plant N and P in humid environments. Conversely, in arid environments with temporally variable soil nutrients, the plants tend to be more flexible in their N:P stoichiometry. Generally, our findings suggest that plant N and P could be more strongly coupled in humid conditions than in arid environments across alpine grasslands, with potential decoupling of the N biogeochemical cycle from P in an arid environment with an asynchronous dynamic of temperature and precipitation.
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Affiliation(s)
- Tian-Cai Zhou
- Synthesis Research Centre of Chinese Ecosystem Research Network, Key Laboratory of Ecosystem Network Observation and Modelling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China; 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.
| | - Jian Sun
- Synthesis Research Centre of Chinese Ecosystem Research Network, Key Laboratory of Ecosystem Network Observation and Modelling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Miao Liu
- Synthesis Research Centre of Chinese Ecosystem Research Network, Key Laboratory of Ecosystem Network Observation and Modelling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China; Arid Land Research Center, Tottori University, Tottori 6800001, Japan.
| | - Pei-Li Shi
- Synthesis Research Centre of Chinese Ecosystem Research Network, Key Laboratory of Ecosystem Network Observation and Modelling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Xu-Bo Zhang
- Synthesis Research Centre of Chinese Ecosystem Research Network, Key Laboratory of Ecosystem Network Observation and Modelling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China.
| | - Wei Sun
- Synthesis Research Centre of Chinese Ecosystem Research Network, Key Laboratory of Ecosystem Network Observation and Modelling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China.
| | - Gang Yang
- School of Life Science and Engineering, Southwest University of Science and Technology, Mianyang 621010, China.
| | - Atsushi Tsunekawa
- Arid Land Research Center, Tottori University, Tottori 6800001, Japan.
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Song Z, Wang J, Liu G, Zhang C. Changes in nitrogen functional genes in soil profiles of grassland under long-term grazing prohibition in a semiarid area. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 673:92-101. [PMID: 30986685 DOI: 10.1016/j.scitotenv.2019.04.026] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/05/2018] [Revised: 04/01/2019] [Accepted: 04/02/2019] [Indexed: 06/09/2023]
Abstract
Grazing prohibition has been used to restore degraded grassland ecosystems in semiarid areas; however, the impact of this measure on soil nitrogen (N) cycling is poorly understood. Furthermore, recent studies have tended to focus on the topsoil and ignored a steep gradient of nutrient accumulation with soil depth. Here, we investigated changes in N functional genes (NFGs) involved in organic N decomposition (chiA), archaeal and bacterial ammonia oxidation (amoA-AOA and amoA-AOB), respectively, denitrification (nirK and nirS), and N fixation (nifH) in soil profiles from a chronosequence of grazing prohibition (0, 10, 15, 25, and 35 years) in the semiarid grasslands of the Loess Plateau, China. The abundance of all the investigated NFGs in grassland soils after 35 years' grazing prohibition was higher than in grazed grassland. This result suggests that microbial N turnover potential is facilitated by grazing prohibition, probably through enhanced biomass production via increases in nutrient input into the soil. The higher ratio of (chiA + nifH)/(amoA-AOA + amoA-AOB) and values of (nirK + nirS) in grazing-prohibited grasslands than in grazed grassland suggest that prohibition of grazing not only improved microbial N storage potential but also increased N gas emission potential. The abundances of NFGs varied along the soil profiles and responded differently to environmental factors. The chiA and nifH abundances decreased with soil depth and were associated with variation in aboveground biomass, NH4+-N, and organic carbon, while amoA-AOA, nirK, and nirS genes increased with depth and were more affected by soil organic carbon, moisture, and bulk density. Multivariate regression tree analysis demonstrated that aboveground biomass was the best explanatory variable for the changes in NFGs in grazed grassland, while soil organic carbon was the best in the grazing-prohibited grasslands. Our results provide new insight into the soil N cycling potential of degraded and restored semiarid grassland ecosystems.
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Affiliation(s)
- Zilin Song
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling 712100, PR China; College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, PR China
| | - Jie Wang
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling 712100, PR China
| | - Guobin Liu
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling 712100, PR China; Institute of Soil and Water Conservation, Chinese Academy of Sciences and Ministry of Water Resources, Yangling 712100, PR China
| | - Chao Zhang
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling 712100, PR China.
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28
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Zheng M, Zhang W, Luo Y, Wan S, Fu S, Wang S, Liu N, Ye Q, Yan J, Zou B, Fang C, Ju Y, Ha D, Zhu L, Mo J. The Inhibitory Effects of Nitrogen Deposition on Asymbiotic Nitrogen Fixation are Divergent Between a Tropical and a Temperate Forest. Ecosystems 2018. [DOI: 10.1007/s10021-018-0313-6] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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