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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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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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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Protist communities are more sensitive to nitrogen fertilization than other microorganisms in diverse agricultural soils

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

Опубликована: Фев. 27, 2019

Agricultural food production is at the base of and fodder, with fertilization having fundamentally continuously increased crop yield over last decades. The performance crops intimately tied to their microbiome as they together form holobionts. importance for plant is, however, notoriously ignored in agricultural systems disconnects dependency plants often plant-beneficial microbial processes. Moreover, we lack a holistic understanding how regimes affect soil microbiome. Here, examined effect 2-year regime (no nitrogen control, fertilization, plus straw amendment) on entire microbiomes (bacteria, fungi, protist) three common types cropped maize two seasons.We found that application fertilizers more strongly affected protist than bacterial fungal communities. Nitrogen indirectly reduced diversity through changing abiotic properties communities which differed between sampling seasons. fertilizer amendment had greater effects physicochemical addition alone. even straw, network complexity, suggesting tightened interactions.Together, our results suggest protists are most susceptible component fertilizers. As also exhibit strongest seasonal dynamics, serve sensitive bioindicators changes. Changes might have long-term if some key hubs govern complexities top predators altered. This study serves stepping stone promote promising agents targeted engineering help reducing exogenous unsustainably high pesticide applications.

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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The ecology of the plastisphere: Microbial composition, function, assembly, and network in the freshwater and seawater ecosystems

Water Research, Год журнала: 2021, Номер 202, С. 117428 - 117428

Опубликована: Июль 15, 2021

Язык: Английский

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Spatiotemporal dynamics of the archaeal community in coastal sediments: assembly process and co-occurrence relationship

The ISME Journal, Год журнала: 2020, Номер 14(6), С. 1463 - 1478

Опубликована: Март 4, 2020

Studies of marine benthic archaeal communities are updating our view their taxonomic composition and metabolic versatility. However, large knowledge gaps remain with regard to community assembly processes inter taxa associations. Here, using 16S rRNA gene amplicon sequencing qPCR, we investigated the spatiotemporal dynamics, processes, co-occurrence relationships in 58 surface sediment samples collected both summer winter from across ~1500 km eastern Chinese marginal seas. Clear patterns dynamics structure were observed, a more pronounced spatial rather than seasonal variation. Accompanying geographic variation was significant distance-decay pattern varying contributions different clades, determined by relative abundance. In seasons, dispersal limitation most important process, explaining ~40% variation, followed homogeneous selection ecological drift, that made an approximately equal contribution (~30%). This meant stochasticity determinism had greater impact on assembly. Furthermore, observed seasonality patterns: closer inter-taxa connections summer, unmatched between relationship. These results demonstrate assembled under seasonal-consistent mechanism but changed over indicating complex dynamic coastal sediments

Язык: Английский

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Disentangling the mechanisms shaping the surface ocean microbiota

Microbiome, Год журнала: 2020, Номер 8(1)

Опубликована: Апрель 20, 2020

Abstract Background The ocean microbiota modulates global biogeochemical cycles and changes in its configuration may have large-scale consequences. Yet, the underlying ecological mechanisms structuring it are unclear. Here, we investigate how fundamental ( selection , dispersal drift ) shape smallest members of tropical subtropical surface-ocean microbiota: prokaryotes minute eukaryotes (picoeukaryotes). Furthermore, agents exerting abiotic on this assemblage as well spatial patterns emerging from action mechanisms. To explore this, analysed composition prokaryotic picoeukaryotic communities using DNA-sequence data (16S- 18S-rRNA genes) collected during circumglobal expeditions Malaspina - 2010 TARA Oceans . Results We found that two main components microbiota, picoeukaryotes, appear to be structured by different Picoeukaryotic were predominantly dispersal-limitation, while counterparts appeared shaped combined drift. Temperature-driven a major factor, out few selected factors, influencing species co-occurrence networks but not indicating association contribute understand structure response selection. Other measured variables seemed limited selective effects community ocean. Picoeukaryotes displayed higher differentiation between distance decay when compared prokaryotes, consistent with scenario limitation former after considering environmental heterogeneity. Lastly, random dynamics or more important role than counterparts. Conclusions differential seems cause contrasting biogeography, ocean, among surface plankton, picoeukaryotes. This suggests idiosyncrasy constituents should considered order current future configuration, which is especially relevant context change, where reaction plankton temperature increase still

Язык: Английский

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Contrasting prevalence of selection and drift in the community structuring of bacteria and microbial eukaryotes

Environmental Microbiology, Год журнала: 2018, Номер 20(6), С. 2231 - 2240

Опубликована: Май 4, 2018

Whether or not communities of microbial eukaryotes are structured in the same way as bacteria is a general and poorly explored question ecology. Here, we investigated this set planktonic lake microbiotas Eastern Antarctica that represent natural community ecology experiment. Most analysed lakes emerged from sea during last 6000 years, giving rise to waterbodies originally contained marine subsequently evolved into habitats ranging freshwater hypersaline. We show habitat diversification has promoted selection driven by salinity gradient bacterial (explaining ∼ 72% taxa turnover), while microeukaryotic counterparts were predominantly ecological drift (∼72% turnover). Nevertheless, also detected number microeukaryotes with specific responses salinity, indicating albeit minor, had role structuring members their communities. In sum, conclude inhabiting can be different processes. This should considered future studies aiming understand mechanisms shape assemblages.

Язык: Английский

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Factors influencing aquatic and terrestrial bacterial community assembly

Environmental Microbiology Reports, Год журнала: 2019, Номер 11(3), С. 306 - 315

Опубликована: Янв. 9, 2019

During recent years, many studies have shown that different processes including drift, environmental selection and dispersal can be important for the assembly of bacterial communities in aquatic terrestrial ecosystems. However, we lack a conceptual overview about ecological context factors influence relative importance mechanisms determine their dynamics time space. Focusing on free-living, i.e., nonhost associated, communities, this minireview, therefore, summarizes conceptualizes findings from empirical how (i) factors, such as heterogeneity, disturbances, productivity trophic interactions; (ii) connectivity rates (iii) spatial scale, (iv) community properties traits (v) use taxonomic/phylogenetic or functional metrics processes. We find there is to-date little consistency among suggest future should now address (i)-(v) differ between habitats organisms this, turn, influences temporal spatial-scale dependency microorganisms.

Язык: Английский

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