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Jiang C, Zeng H. Unique Habitat of Karst Tiankengs Changes the Taxonomy and Potential Metabolism of Soil Microbial Communities. Microbiol Spectr 2023; 11:e0231622. [PMID: 36648219 PMCID: PMC9927240 DOI: 10.1128/spectrum.02316-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023] Open
Abstract
Microbial communities in karst ecosystems have been extensively studied. However, in a class of deep-lying habitats with unique climates (karst tiankeng), the structure and ecological functions of microorganisms receive little attention, which is essential for understanding the biogeochemistry of karst tiankeng. Herein, microorganisms from inside (ITK) and outside (OTK) karst tiankengs were analyzed by high-throughput sequencing and multivariate statistical analysis. The results showed that the structure and function of soil bacterial communities inside and outside karst tiankengs were significantly different. The ITK microbial communities presented significantly higher Shannon diversity due to the abundant nutrients in karst tiankeng soil. Random molecular ecological network analysis revealed that the ITK network was simpler and more vulnerable and may be susceptible to environmental changes. More positive links within the network indicate that microorganisms adapt to the karst tiankeng through synergies. The keystones in karst tiankeng were mainly involved in the decomposition of soil organic matter and carbon/nitrogen cycles. Although soil total phosphorus and available potassium regulate microbial community structure variation, dispersal limitation is the predominant ecological process within the microbial community in karst tiankeng. In addition, the functional profiles of the microbial communities reveal that some human diseases (such as infectious diseases) exist in OTK. Collectively, these findings have enhanced our understanding of microbial interactions, ecological functions, and community composition processes in karst tiankeng ecosystems. IMPORTANCE Constrained by the trapped terrain, a unique ecosystem has formed in karst tiankeng. Soil microorganisms are essential for the formation and maintenance of ecosystems, but soil microbial ecology research in karst tiankeng is still lacking. In this study, representative habitats inside and outside karst tiankeng were selected to study the taxonomy and potential metabolism of soil microbial communities. The results show that the unique habitat of karst tiankeng reshapes the composition, structure, and function of soil microbial communities. Our results contribute to enhancing our understanding of sustainable recovery strategies in fragile ecosystems and understanding the biodiversity value of karst tiankeng under climate change.
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Affiliation(s)
- Cong Jiang
- School of Urban Planning and Design, Peking University Shenzhen Graduate School, Peking University, Shenzhen, China
| | - Hui Zeng
- School of Urban Planning and Design, Peking University Shenzhen Graduate School, Peking University, Shenzhen, China
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Nemens DG, Kidd KR, Varner JM, Wing B. Recurring wildfires provoke type conversion in dry western forests. Ecosphere 2022. [DOI: 10.1002/ecs2.4184] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022] Open
Affiliation(s)
- Deborah G. Nemens
- School of Environmental and Forest Sciences University of Washington Seattle Washington USA
- Pacific Wildland Fire Sciences Laboratory USDA Forest Service Pacific Northwest Research Station Seattle Washington USA
| | - Kathryn R. Kidd
- Arthur Temple College of Forestry and Agriculture Stephen F. Austin State University Nacogdoches Texas USA
| | | | - Brian Wing
- USDA Forest Service Pacific Southwest Research Station Redding California USA
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Luo J, Guo X, Liang J, Song Y, Liu Y, Li J, Du Y, Mu Q, Jiang Y, Zhao H, Li T. The influence of elevated CO 2 on bacterial community structure and its co-occurrence network in soils polluted with Cr 2O 3 nanoparticles. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 779:146430. [PMID: 33752002 DOI: 10.1016/j.scitotenv.2021.146430] [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: 01/06/2021] [Revised: 02/10/2021] [Accepted: 03/08/2021] [Indexed: 06/12/2023]
Abstract
Elevated CO2 (eCO2) and nanoparticles release are considered among the most noteworthy global concerns as they may impose negative effects on human health and ecosystem functioning. A mechanistic understanding of their combined impacts on soil microbiota is essential due to the profound eCO2 effect on soil biogeochemical processes. In this study, the impacts of Cr2O3 nanoparticles (nano-Cr2O3) on the activity, structure and co-occurrence networks of bacterial communities under ambient and eCO2 were compared between a clay loam and a sandy loam soil. We showed that eCO2 substantially mitigated nano-Cr2O3 toxicity, with microbial biomass, enzyme activity and bacterial alpha-diversity in clay loam soil were much higher than those in sandy loam soil. Nano-Cr2O3 addition caused an increase in alpha-diversity except for clay loam soil samples under eCO2. 16S rRNA gene profiling data found eCO2 remarkably reduced community divergences induced by nano-Cr2O3 more efficiently in clay loam soil (P < 0.05). Network analyses revealed more complex co-occurrence network architectures in clay loam soil than in sandy loam soil, however, nano-Cr2O3 decreased but eCO2 increased modularity and network complexity. Rising CO2 favoured the growth of oligotrophic (Acidobacteriaceae, Bryobacteraceae) rather than the copiotrophic bacteria (Sphingomonadaceae, Caulobacteraceae, Bacteroidaceae), which may contribute to community recovery and increase available carbon utilization efficiency. Our results suggested that the degree to which eCO2 mitigates nano-Cr2O3 toxicity is soil dependent, which could be related to the variation in clay and organic matter content, resilience of the resistant bacterial taxa, and microbial network complexity in distinct soils.
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Affiliation(s)
- Jipeng Luo
- Ministry of Education Key Laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Xinyu Guo
- Ministry of Education Key Laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Jiabin Liang
- Ministry of Education Key Laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Yuchao Song
- Ministry of Education Key Laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Yuankun Liu
- Ministry of Education Key Laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Jinxing Li
- Ministry of Education Key Laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Yilin Du
- Ministry of Education Key Laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Qili Mu
- Ministry of Education Key Laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Yue Jiang
- Ministry of Education Key Laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Heping Zhao
- Ministry of Education Key Laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Tingqiang Li
- Ministry of Education Key Laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Hangzhou 310058, China; National Demonstration Center for Experimental Environment and Resources Education, Zhejiang University, Hangzhou 310058, China.
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Cheng X, Yun Y, Wang H, Ma L, Tian W, Man B, Liu C. Contrasting bacterial communities and their assembly processes in karst soils under different land use. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 751:142263. [PMID: 33181984 DOI: 10.1016/j.scitotenv.2020.142263] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/17/2020] [Revised: 09/03/2020] [Accepted: 09/05/2020] [Indexed: 06/11/2023]
Abstract
Structure and assembly processes of soil bacterial communities under different land use at karst areas remained poorly understood to date. To address this issue, soil samples from arable land and pristine forest over a karst cave, located in the acid rain impacted area, Hubei province, were collected and subjected to high-throughput sequencing and multivariate statistical analysis. Bacterial communities and functions remarkably distinguished between soils under different land use. Both edaphic properties (the content of SO42-, C/N, pH, TN) and weathering processes, such as Si concentration, Mg/Al and Ca/Al, significantly impacted on soil bacterial community structures. Variable selections were predominant ecological processes, and pH and SO42- concentration were of significance in community assembly. Random molecular ecological network analysis revealed a more stable and complex microbial network in the forest ecosystem, which can quickly response to environmental change. Forest soil bacteria were mainly phototrophs, involving in C and N cycles, whereas those in arable soils were mainly chemoheterotrophs, capable of degrading organic fertilizers due to anthropogenic activities as confirmed by the analysis of keystone taxa, indicators and functional prediction. These results reveal that land use constructed soil bacterial communities in different aspects such as the structure, potential functions, microbial interactions and correlations with environmental variables. To our knowledge, this is the first report on bacterial community assembly in karst soils under different land use which enhances our understanding about how land use impact on microbial interaction and community assembly processes.
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Affiliation(s)
- Xiaoyu Cheng
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan 430074, China; School of Environmental Studies, China University of Geosciences, Wuhan 430074, China
| | - Yuan Yun
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan 430074, China; College of Life Sciences, Nankai University, Tianjin 300071, China
| | - Hongmei Wang
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan 430074, China; School of Environmental Studies, China University of Geosciences, Wuhan 430074, China; Laboratory of Basin Hydrology and Wetland Eco-restoration, China University of Geosciences, Wuhan 430074, China.
| | - Liyuan Ma
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan 430074, China; School of Environmental Studies, China University of Geosciences, Wuhan 430074, China
| | - Wen Tian
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan 430074, China; School of Environmental Studies, China University of Geosciences, Wuhan 430074, China
| | - Baiying Man
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan 430074, China; College of Life Science, Shangrao Normal University, Shangrao 334001, China
| | - Chaoyang Liu
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan 430074, China; School of Environmental Studies, China University of Geosciences, Wuhan 430074, China
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Isobe K, Bouskill NJ, Brodie EL, Sudderth EA, Martiny JBH. Phylogenetic conservation of soil bacterial responses to simulated global changes. Philos Trans R Soc Lond B Biol Sci 2020; 375:20190242. [PMID: 32200749 PMCID: PMC7133522 DOI: 10.1098/rstb.2019.0242] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/22/2020] [Indexed: 01/03/2023] Open
Abstract
Soil bacterial communities are altered by anthropogenic drivers such as climate change-related warming and fertilization. However, we lack a predictive understanding of how bacterial communities respond to such global changes. Here, we tested whether phylogenetic information might be more predictive of the response of bacterial taxa to some forms of global change than others. We analysed the composition of soil bacterial communities from perturbation experiments that simulated warming, drought, elevated CO2 concentration and phosphorus (P) addition. Bacterial responses were phylogenetically conserved to all perturbations. The phylogenetic depth of these responses varied minimally among the types of perturbations and was similar when merging data across locations, implying that the context of particular locations did not affect the phylogenetic pattern of response. We further identified taxonomic groups that responded consistently to each type of perturbation. These patterns revealed that, at the level of family and above, most groups responded consistently to only one or two types of perturbations, suggesting that traits with different patterns of phylogenetic conservation underlie the responses to different perturbations. We conclude that a phylogenetic approach may be useful in predicting how soil bacterial communities respond to a variety of global changes. This article is part of the theme issue 'Conceptual challenges in microbial community ecology'.
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Affiliation(s)
- Kazuo Isobe
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Tokyo, Japan
| | - Nicholas J. Bouskill
- Climate and Ecosystem Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Eoin L. Brodie
- Climate and Ecosystem Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
- Department of Environmental Science, Policy and Management, University of California, Berkeley, CA, USA
| | - Erika A. Sudderth
- Center for Environmental Studies, Brown University, Providence, RI, USA
| | - Jennifer B. H. Martiny
- Department of Ecology and Evolutionary Biology, University of California, Irvine, CA, USA
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