Climate warming enhances microbial network complexity and stability

Nature Climate Change, Год журнала: 2021, Номер 11(4), С. 343 - 348

Опубликована: Фев. 22, 2021

Язык: Английский

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A quantitative framework reveals ecological drivers of grassland microbial community assembly in response to warming

Nature Communications, Год журнала: 2020, Номер 11(1)

Опубликована: Сен. 18, 2020

Abstract Unraveling the drivers controlling community assembly is a central issue in ecology. Although it generally accepted that selection, dispersal, diversification and drift are major processes, defining their relative importance very challenging. Here, we present framework to quantitatively infer mechanisms by phylogenetic bin-based null model analysis (iCAMP). iCAMP shows high accuracy (0.93–0.99), precision (0.80–0.94), sensitivity (0.82–0.94), specificity (0.95–0.98) on simulated communities, which 10–160% higher than those from entire community-based approach. Application of grassland microbial communities response experimental warming reveals dominant roles homogeneous selection (38%) ‘drift’ (59%). Interestingly, decreases over time, enhances primarily imposed Bacillales. In addition, has correlations with drought plant productivity under control. provides an effective robust tool quantify should also be useful for animal

Язык: Английский

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A general framework for quantitatively assessing ecological stochasticity

Proceedings of the National Academy of Sciences, Год журнала: 2019, Номер 116(34), С. 16892 - 16898

Опубликована: Авг. 7, 2019

Understanding the community assembly mechanisms controlling biodiversity patterns is a central issue in ecology. Although it generally accepted that both deterministic and stochastic processes play important roles assembly, quantifying their relative importance challenging. Here we propose general mathematical framework to quantify ecological stochasticity under different situations which factors drive communities more similar or dissimilar than null expectation. An index, normalized ratio (NST), was developed with 50% as boundary point between (<50%) (>50%) assembly. NST tested simulated by considering abiotic filtering, competition, environmental noise, spatial scales. All approaches showed limited performance at large scales very high noise. However, all of other scenarios, accuracy (0.90 1.00) precision (0.91 0.99), averages 0.37 higher (0.1 0.7) 0.33 (0.0 1.8) previous approaches. also applied estimate succession groundwater microbial response organic carbon (vegetable oil) injection. Our results shifted from (NST = 21%) 70%) right after input. As vegetable oil consumed, gradually returned be 27%). In addition, our demonstrated model algorithms similarity metrics had strong effects on stochasticity.

Язык: Английский

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Balance between community assembly processes mediates species coexistence in agricultural soil microbiomes across eastern China

The ISME Journal, Год журнала: 2019, Номер 14(1), С. 202 - 216

Опубликована: Окт. 14, 2019

Язык: Английский

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Global diversity and biogeography of bacterial communities in wastewater treatment plants

Nature Microbiology, Год журнала: 2019, Номер 4(7), С. 1183 - 1195

Опубликована: Май 13, 2019

Язык: Английский

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Stochastic processes shape microeukaryotic community assembly in a subtropical river across wet and dry seasons

Microbiome, Год журнала: 2019, Номер 7(1)

Опубликована: Окт. 22, 2019

Abstract Background The deep mechanisms (deterministic and/or stochastic processes) underlying community assembly are a central challenge in microbial ecology. However, the relative importance of these processes shaping riverine microeukaryotic biogeography is still poorly understood. Here, we compared spatiotemporal and biogeographical patterns using high-throughput sequencing 18S rRNA gene multivariate statistical analyses from subtropical river during wet dry seasons. Results Our results provide first description communities Tingjiang River, largest west Fujian province, southeastern China. showed that microeukaryotes both seasons exhibited contrasting compositions, which might be owing to planktonic having seasonal succession patterns. Further, all components (including total, dominant, always rare, conditionally rare taxa) significant distance-decay pattern seasons, had stronger relationship season, especially for taxa. Although several variables influence on communities, environmental spatial factors minor roles communities. Importantly, were strongly driven by processes, with 89.9%, 88.5%, 89.6% variation explained neutral model wet, dry, respectively. also large fraction across different taxonomic groups levels. Additionally, taxa, above below prediction, ecologically taxonomically distinct groups, interactively structured deterministic processes. Conclusions This study demonstrated sufficient substantial metacommunity hydrographic regimes, thereby providing better understanding patterns, waters.

Язык: Английский

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Ecology and Evolution of Plant Microbiomes

Annual Review of Microbiology, Год журнала: 2019, Номер 73(1), С. 69 - 88

Опубликована: Май 15, 2019

Microorganisms colonizing plant surfaces and internal tissues provide a number of life-support functions for their host. Despite increasing recognition the vast functional capabilities microbiome, our understanding ecology evolution taxonomically hyperdiverse microbial communities is limited. Here, we review current knowledge genotypic phenotypic traits as well allogenic autogenic factors that shape microbiome composition functions. We give specific emphasis to impact domestication on assembly how insights into microbiomes wild relatives native habitats can contribute reinstate or enrich microorganisms with beneficial effects growth, development, health. Finally, introduce new concepts perspectives in research, particular community theory mechanistic framework unravel interplay distinct ecological processes-i.e., selection, dispersal, drift, diversification-that structure microbiome.

Язык: Английский

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Abundant fungi adapt to broader environmental gradients than rare fungi in agricultural fields

Global Change Biology, Год журнала: 2020, Номер 26(8), С. 4506 - 4520

Опубликована: Апрель 23, 2020

Abstract Soil communities are intricately linked to ecosystem functioning, and a predictive understanding of how assemble in response environmental change is great ecological importance. Little known about the assembly processes governing abundant rare fungal across agro‐ecosystems, particularly with regard their adaptation. By considering taxa, we tested thresholds phylogenetic signals for preferences complex gradients reflect adaptation, explored factors influencing based on large‐scale soil survey agricultural fields eastern China. We found that taxa exhibited remarkably broader stronger compared taxa. Neutral played key role shaping subcommunity subcommunity. Null model analysis revealed was less clustered phylogenetically governed primarily by dispersal limitation, while homogeneous selection major process available sulfur factor mediating balance between stochastic deterministic both subcommunities, as indicated an increase stochasticity higher concentration. Based macroecological spatial scale datasets, our study potential adaptation identified distinct community fields. These results contribute mechanisms underlying generation maintenance diversity global change.

Язык: Английский

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Salinity Is a Key Determinant for Soil Microbial Communities in a Desert Ecosystem

mSystems, Год журнала: 2019, Номер 4(1)

Опубликована: Фев. 11, 2019

Soil salinization is a growing environmental problem caused by both natural and human activities. Excessive salinity in soil suppresses growth, decreases species diversity, alters the community composition of plants; however, effect on microbial communities poorly understood. Here, we characterize along gradient Gurbantunggut Desert, Northwestern China. Microbial diversity linearly decreased with increases salinity, dissimilarity significantly increased differences. showed strong dissimilarity, even after controlling for effects spatial distance other variables. phylotypes (n = 270) belonging to Halobacteria, Nitriliruptoria, [Rhodothermi], Gammaproteobacteria, Alphaproteobacteria high-salinity niche preference. Out nine potential phenotypes predicted BugBase, oxygen-related significant relationship content. To explore assembly processes, used null models within-community (nearest-taxon index [NTI]) between-community (βNTI) phylogenetic composition. NTI negative suggesting that was less phylogenetically clustered more-saline soils. βNTI, analogue NTI, deterministic processes have overtaken stochastic across all sites, importance filtering assembly. Taken together, these results suggest desert ecosystem. IMPORTANCE Belowground microorganisms are indispensable components nutrient cycling ecosystems, understanding how they respond essential managing ameliorating salinization. Our sequence-based data revealed increasing certain salt-tolerant positive salinity. Using modeling approach estimate gradient, found imposed selection pressure community, which resulted dominance processes. Studying gradients fundamental ecological ecosystems affected

Язык: Английский

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Low shifts in salinity determined assembly processes and network stability of microeukaryotic plankton communities in a subtropical urban reservoir

Microbiome, Год журнала: 2021, Номер 9(1)

Опубликована: Июнь 3, 2021

Abstract Background Freshwater salinization may result in significant changes of microbial community composition and diversity, with implications for ecosystem processes function. Earlier research has revealed the importance large shifts salinity on physiology ecology, whereas studies effects smaller or narrower microeukaryotic inland waters are scarce. Our aim was to unveil assembly mechanisms stability plankton networks at low salinity. Results Here, we analyzed a high-resolution time series data from an urban reservoir subtropical China over 13 consecutive months following one periodic change ranging 0 6.1‰. We found that (1) increase altered led decrease (2) influenced primarily by regulating deterministic-stochastic balance, deterministic becoming more important increased salinity, (3) core subnetwork robustness higher low-salinity levels, while satellite subnetworks had greater medium-/high-salinity levels. results suggest influence rather than successional time, is driving force shaping dynamics. Conclusions findings demonstrate salinities, even small increases sufficient exert selective pressure reduce diversity alter mechanism network stability. provide new insights into ecology impacts microbiotas architecture.

Язык: Английский

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