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Huusko K, Manninen OH, Myrsky E, Stark S. Soil fungal and bacterial communities reflect differently tundra vegetation state transitions and soil physico-chemical properties. THE NEW PHYTOLOGIST 2024; 243:407-422. [PMID: 38750646 DOI: 10.1111/nph.19808] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2023] [Accepted: 04/23/2024] [Indexed: 06/07/2024]
Abstract
Strong disturbances may induce ecosystem transitions into new alternative states that sustain through plant-soil interactions, such as the transition of dwarf shrub-dominated into graminoid-dominated vegetation by herbivory in tundra. Little evidence exists on soil microbial communities in alternative states, and along the slow process of ecosystem return into the predisturbance state. We analysed vegetation, soil microbial communities and activities as well as soil physico-chemical properties in historical reindeer enclosures in northernmost Finland in the following plot types: control heaths in the surrounding tundra; graminoid-dominated; 'shifting'; and recovered dwarf shrub-dominated vegetation inside enclosures. Soil fungal communities followed changes in vegetation, whereas bacterial communities were more affected by soil physico-chemical properties. Graminoid plots were characterized by moulds, pathotrophs and dark septate endophytes. Ericoid mycorrhizal and saprotrophic fungi were typical for control and recovered plots. Soil microbial communities inside the enclosures showed historical contingency, as their spatial variation was high in recovered plots despite the vegetation being more homogeneous. Self-maintaining feedback loops between plant functional types, soil microbial communities, and carbon and nutrient mineralization act effectively to stabilize alternative vegetation states, but once predisturbance vegetation reestablishes itself, soil microbial communities and physico-chemical properties return back towards their predisturbance state.
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Affiliation(s)
- Karoliina Huusko
- Arctic Center, University of Lapland, PO Box 122, Rovaniemi, FI-96101, Finland
- Ecology and Genetics Research Unit, University of Oulu, PO Box 3000, Oulu, FI-90014, Finland
| | - Outi H Manninen
- Arctic Center, University of Lapland, PO Box 122, Rovaniemi, FI-96101, Finland
| | - Eero Myrsky
- Arctic Center, University of Lapland, PO Box 122, Rovaniemi, FI-96101, Finland
| | - Sari Stark
- Arctic Center, University of Lapland, PO Box 122, Rovaniemi, FI-96101, Finland
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Zhang W, Liang S, Grossart HP, Christie-Oleza JA, Gadd GM, Yang Y. Convergence effect during spatiotemporal succession of lacustrine plastisphere: loss of priority effects and turnover of microbial species. ISME COMMUNICATIONS 2024; 4:ycae056. [PMID: 38711932 PMCID: PMC11073396 DOI: 10.1093/ismeco/ycae056] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/27/2023] [Revised: 04/01/2024] [Accepted: 04/16/2024] [Indexed: 05/08/2024]
Abstract
Succession is a fundamental aspect of ecological theory, but studies on temporal succession trajectories and ecological driving mechanisms of plastisphere microbial communities across diverse colonization environments remain scarce and poorly understood. To fill this knowledge gap, we assessed the primary colonizers, succession trajectories, assembly, and turnover mechanisms of plastisphere prokaryotes and eukaryotes from four freshwater lakes. Our results show that differences in microbial composition similarity, temporal turnover rate, and assembly processes in the plastisphere do not exclusively occur at the kingdom level (prokaryotes and eukaryotes), but also depend on environmental conditions and colonization time. Thereby, the time of plastisphere colonization has a stronger impact on community composition and assembly of prokaryotes than eukaryotes, whereas for environmental conditions, the opposite pattern holds true. Across all lakes, deterministic processes shaped the assembly of the prokaryotes, but stochastic processes influenced that of the eukaryotes. Yet, they share similar assembly processes throughout the temporal succession: species turnover over time causes the loss of any priority effect, which leads to a convergent succession of plastisphere microbial communities. The increase and loss of microbial diversity in different kingdoms during succession in the plastisphere potentially impact the stability of entire microbial communities and related biogeochemical cycles. Therefore, research needs to integrate temporal dynamics along with spatial turnovers of the plastisphere microbiome. Taking the heterogeneity of global lakes and the diversity of global climate patterns into account, we highlight the urgency to investigate the spatiotemporal succession mechanism of plastisphere prokaryotes and eukaryotes in more lakes around the world.
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Affiliation(s)
- Weihong Zhang
- Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430074, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- Danjiangkou Wetland Ecosystem Field Scientific Observation and Research Station, Chinese Academy of Sciences & Hubei Province, Wuhan 430074, China
| | - Shuxin Liang
- Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430074, China
- School of Ecology and Environment, Tibet University, Lhasa 850000, China
| | - Hans-Peter Grossart
- Leibniz-Institute for Freshwater Ecology and Inland Fisheries (IGB), Neuglobsow 16775, Germany
- Institute for Biochemistry and Biology, Potsdam University, Potsdam 14469, Germany
| | | | - Geoffrey Michael Gadd
- Geomicrobiology Group, School of Life Sciences, University of Dundee, Dundee DD1 5EH, Scotland, United Kingdom
- State Key Laboratory of Heavy Oil Processing, State Key Laboratory of Petroleum Pollution Control, China University of Petroleum, Beijing 102249, China
| | - Yuyi Yang
- Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430074, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- Danjiangkou Wetland Ecosystem Field Scientific Observation and Research Station, Chinese Academy of Sciences & Hubei Province, Wuhan 430074, China
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Ortiz-Rivero J, Garrido-Benavent I, Heiðmarsson S, de los Ríos A. Moss and Liverwort Covers Structure Soil Bacterial and Fungal Communities Differently in the Icelandic Highlands. MICROBIAL ECOLOGY 2023; 86:1893-1908. [PMID: 36802019 PMCID: PMC10497656 DOI: 10.1007/s00248-023-02194-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2022] [Accepted: 02/09/2023] [Indexed: 06/18/2023]
Abstract
Cryptogamic covers extend over vast polar tundra regions and their main components, e.g., bryophytes and lichens, are frequently the first visible colonizers of deglaciated areas. To understand their role in polar soil development, we analyzed how cryptogamic covers dominated by different bryophyte lineages (mosses and liverworts) influence the diversity and composition of edaphic bacterial and fungal communities as well as the abiotic attributes of underlying soils in the southern part of the Highlands of Iceland. For comparison, the same traits were examined in soils devoid of bryophyte covers. We measured an increase in soil C, N, and organic matter contents coupled with a lower pH in association with bryophyte cover establishment. However, liverwort covers showed noticeably higher C and N contents than moss covers. Significant changes in diversity and composition of bacterial and fungal communities were revealed between (a) bare and bryophyte-covered soils, (b) bryophyte covers and the underlying soils, and (c) moss and liverworts covers. These differences were more obvious for fungi than bacteria, and involved different lineages of saprotrophic and symbiotic fungi, which suggests a certain specificity of microbial taxa to particular bryophyte groups. In addition, differences observed in the spatial structure of the two bryophyte covers may be also responsible for the detected differences in microbial community diversity and composition. Altogether, our findings indicate that soil microbial communities and abiotic attributes are ultimately affected by the composition of the most conspicuous elements of cryptogamic covers in polar regions, which is of great value to predict the biotic responses of these ecosystems to future climate change.
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Affiliation(s)
- Javier Ortiz-Rivero
- Department of Biogeochemistry and Microbial Ecology, National Museum of Natural Sciences (MNCN-CSIC), C/ Serrano 115 dpdo, E-28045 Madrid, Spain
| | - Isaac Garrido-Benavent
- Departament de Botànica i Geologia, Fac. CC. Biològiques, Universitat de València, C/ Doctor Moliner 50, E-46100 Burjassot, Valencia Spain
| | - Starri Heiðmarsson
- Icelandic Institute of Natural History, Akureyri Division, Borgir Nordurslod, 600 Akureyri, Iceland
- Present address: Northwest Iceland Nature Research Centre, Aðalgötu 2, 550 Sauðárkrókur, Iceland
| | - Asunción de los Ríos
- Department of Biogeochemistry and Microbial Ecology, National Museum of Natural Sciences (MNCN-CSIC), C/ Serrano 115 dpdo, E-28045 Madrid, Spain
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Wong SK, Cui Y, Chun SJ, Kaneko R, Masumoto S, Kitagawa R, Mori AS, Lim AS, Uchida M. Vegetation as a key driver of the distribution of microbial generalists that in turn shapes the overall microbial community structure in the low Arctic tundra. ENVIRONMENTAL MICROBIOME 2023; 18:41. [PMID: 37165459 PMCID: PMC10173506 DOI: 10.1186/s40793-023-00498-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2023] [Accepted: 04/27/2023] [Indexed: 05/12/2023]
Abstract
Understanding the variability of microbial niches and their interaction with abiotic and biotic factors in the Arctic can provide valuable insights into microbial adaptations to extreme environments. This study investigates the structure and diversity of soil bacterial communities obtained from sites with varying vegetation coverage and soil biogeochemical properties in the low Arctic tundra and explores how bacteria interact under different environmental parameters. Our findings reveal differences in bacterial composition and abundance among three bacterial niche breadths (specialists, common taxa, and generalists). Co-occurrence network analysis revealed Rhizobiales and Ktedonobacterales as keystone taxa that connect and support other microbes in the habitat. Low-elevation indicators, such as vascular plants and moisture content, were correlated with two out of three generalist modular hubs and were linked to a large proportion of generalists' distribution (18%). Structural equation modeling revealed that generalists' distribution, which influenced the remaining microbial communities, was mainly regulated by vegetation coverage as well as other abiotic and biotic factors. These results suggest that elevation-dependent environmental factors directly influence microbial community structure and module formation through the regulation of generalists' distribution. Furthermore, the distribution of generalists was mainly affected by macroenvironment filtering, whereas the distribution of specialists was mainly affected by microenvironment filtering (species-engineered microbial niche construction). In summary, our findings highlight the strong top-down control exerted by vegetation on generalists' distribution, which in turn shapes the overall microbial community structure in the low Arctic tundra.
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Affiliation(s)
- Shu-Kuan Wong
- Research Organization of Information and Systems, National Institute of Polar Research, 10-3, Midori-cho, Tachikawa, Tokyo, Japan
| | - Yingshun Cui
- Division of Life Science and Plant Molecular Biology and Biotechnology Research Center, Gyeongsang National University, Jinju, 52828, Korea
| | - Seong-Jun Chun
- LMO Team, National Institute of Ecology, 1210 Geumgang-ro, Maseo-myeon, Seocheon, Republic of Korea.
| | - Ryo Kaneko
- Research Organization of Information and Systems, National Institute of Polar Research, 10-3, Midori-cho, Tachikawa, Tokyo, Japan
| | - Shota Masumoto
- Graduate School of Environment and Information Sciences, Yokohama National University, 79-7, Tokiwadai, Hodogaya, Yokohama, Japan
| | - Ryo Kitagawa
- Kansai Research Center, Forestry and Forest Products Research Institute, 68, Nagaikyutaroh, Momoyama, Fushimi, Kyoto, Japan
| | - Akira S Mori
- Graduate School of Environment and Information Sciences, Yokohama National University, 79-7, Tokiwadai, Hodogaya, Yokohama, Japan
| | - An Suk Lim
- Division of Life Science and Plant Molecular Biology and Biotechnology Research Center, Gyeongsang National University, Jinju, 52828, Korea
| | - Masaki Uchida
- Research Organization of Information and Systems, National Institute of Polar Research, 10-3, Midori-cho, Tachikawa, Tokyo, Japan.
- Department of Polar Science, School of Multidisciplinary Sciences, The Graduate University for Advanced Studies, SOKENDAI, 10-3, Midori-cho, Tachikawa, Tokyo, Japan.
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Glaser K, Albrecht M, Baumann K, Overmann J, Sikorski J. Biological Soil Crust From Mesic Forests Promote a Specific Bacteria Community. Front Microbiol 2022; 13:769767. [PMID: 35369523 PMCID: PMC8966483 DOI: 10.3389/fmicb.2022.769767] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2021] [Accepted: 01/19/2022] [Indexed: 12/03/2022] Open
Abstract
Biological soil crusts (biocrusts) harbor a diverse community of various microorganisms with microalgae as primary producers and bacteria living in close association. In mesic regions, biocrusts emerge rapidly on disturbed surface soil in forest, typically after clear-cut or windfall. It is unclear whether the bacterial community in biocrusts is similar to the community of the surrounding soil or if biocrust formation promotes a specific bacterial community. Also, many of the interactions between bacteria and algae in biocrusts are largely unknown. Through high-throughput-sequencing analysis of the bacterial community composition, correlated drivers, and the interpretation of biological interactions in a biocrust of a forest ecosystem, we show that the bacterial community in the biocrust represents a subset of the community of the neighboring soil. Bacterial families connected with degradation of large carbon molecules, like cellulose and chitin, and the bacterivore Bdellovibrio were more abundant in the biocrust compared to bulk soil. This points to a closer interaction and nutrient recycling in the biocrust compared to bulk soil. Furthermore, the bacterial richness was positively correlated with the content of mucilage producing algae. The bacteria likely profit from the mucilage sheaths of the algae, either as a carbon source or protectant from grazing or desiccation. Comparative sequence analyses revealed pronounced differences between the biocrust bacterial microbiome. It seems that the bacterial community of the biocrust is recruited from the local soil, resulting in specific bacterial communities in different geographic regions.
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Affiliation(s)
- Karin Glaser
- Applied Ecology and Phycology, Institute for Biological Sciences, University of Rostock, Rostock, Germany
| | - Martin Albrecht
- Applied Ecology and Phycology, Institute for Biological Sciences, University of Rostock, Rostock, Germany
| | - Karen Baumann
- Department of Soil Science, Faculty of Agricultural and Environmental Science, University of Rostock, Rostock, Germany
| | - Jörg Overmann
- Department of Microbiology, Faculty of Life Sciences, Technische Universität Braunschweig, Braunschweig, Germany
| | - Johannes Sikorski
- Leibniz-Institute DSMZ, German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany
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