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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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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Alpha-, beta-, and gamma-diversity of bacteria varies across habitats

PLoS ONE, Год журнала: 2020, Номер 15(9), С. e0233872 - e0233872

Опубликована: Сен. 23, 2020

Bacteria are essential parts of ecosystems and the most diverse organisms on planet. Yet, we still do not know which habitats support highest diversity bacteria across multiple scales. We analyzed alpha-, beta-, gamma-diversity bacterial assemblages using 11,680 samples compiled by Earth Microbiome Project. found that soils contained richness within a single sample (alpha-diversity), but sediment displayed gamma-diversity. Sediment, biofilms/mats, inland water exhibited variation in community composition among geographic locations (beta-diversity). Within soils, agricultural lands, hot deserts, grasslands, shrublands richness, while forests, cold tundra biomes consistently harbored fewer species. Surprisingly, encompassed similar levels beta-diversity as other soil biomes. These patterns were robust to alpha- beta- metrics used taxonomic binning approach. Overall, results idea spatial environmental heterogeneity is an important driver diversity.

Язык: Английский

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Salinity controls soil microbial community structure and function in coastal estuarine wetlands

Environmental Microbiology, Год журнала: 2020, Номер 23(2), С. 1020 - 1037

Опубликована: Окт. 19, 2020

Summary Soil salinity acts as a critical environmental filter on microbial communities, but the consequences for diversity and biogeochemical processes are poorly understood. Here, we characterized soil bacterial communities functional genes in coastal estuarine wetland ecosystem across gradient (~5 km) ranging from oligohaline to hypersaline habitats by applying PCR‐amplified 16S rRNA (rRNA) sequencing microarray‐based GeoChip 5.0 respectively. Results showed that saline soils marine intertidal supratidal zone exhibited higher richness Faith's phylogenetic than freshwater‐affected habitats. The relative abundance of taxa assigned Gammaproteobacteria , Bacteroidetes Firmicutes was with increasing salinity, while those affiliated Acidobacteria Chloroflexi Cyanobacteria were more prevalent low salinity. inferences demonstrated deterministic role filtering community assembly processes. most involved carbon degradation nitrogen cycling correlated negatively except hzo gene, suggesting anammox process tidal affected zones. Overall, effect shapes composition, act inhibitor estuary ecosystems.

Язык: Английский

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Environmental adaptation is stronger for abundant rather than rare microorganisms in wetland soils from the Qinghai‐Tibet Plateau

Molecular Ecology, Год журнала: 2021, Номер 30(10), С. 2390 - 2403

Опубликована: Март 14, 2021

Disentangling the biogeographic patterns of rare and abundant microbes is essential in order to understand generation maintenance microbial diversity with respect functions they provide. However, little known about ecological assembly processes environmental adaptation across large spatial-scale wetlands. Using Illumina sequencing multiple statistical analyses, we characterized taxonomic phylogenetic bacteria fungi Qinghai-Tibet Plateau wetland soils. Abundant taxa exhibited broader thresholds stronger signals for traits than ones. By contrast, showed higher sensitivity changes closer clustering The null model analysis revealed that dispersal limitation belonging stochastic process dominated community assemblies bacteria, fungi, while variable selection deterministic governed bacteria. Neutral variation partitioning further confirmed were less environmentally constrained. Soil ammonia nitrogen was crucial factor mediating balance between stochasticity determinism both microbes. may have better potential are dispersed by Our findings extend knowledge ongoing change could facilitate prediction biodiversity loss caused probably climate human activity

Язык: Английский

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Spatial metatranscriptomics resolves host–bacteria–fungi interactomes

Nature Biotechnology, Год журнала: 2023, Номер 42(9), С. 1384 - 1393

Опубликована: Ноя. 20, 2023

The interactions of microorganisms among themselves and with their multicellular host take place at the microscale, forming complex networks spatial patterns. Existing technology does not allow simultaneous investigation between a multitude its colonizing microorganisms, which limits our understanding host-microorganism within plant or animal tissue. Here we present metatranscriptomics (SmT), sequencing-based approach that leverages 16S/18S/ITS/poly-d(T) multimodal arrays for transcriptome- microbiome-wide characterization tissues 55-µm resolution. We showcase SmT in outdoor-grown Arabidopsis thaliana leaves as model system, find tissue-scale bacterial fungal hotspots. By network analysis, study inter- intrakingdom well response to microbial provides an answering fundamental questions on host-microbiome interplay.

Язык: Английский

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Perspectives from Ten Years of Protist Studies by High‐Throughput Metabarcoding

Journal of Eukaryotic Microbiology, Год журнала: 2020, Номер 67(5), С. 612 - 622

Опубликована: Июнь 4, 2020

Abstract During the last decade, high‐throughput metabarcoding became routine for analyzing protistan diversity and distributions in nature. Amid a multitude of exciting findings, scientists have also identified addressed technical biological limitations, although problems still exist inference meaningful taxonomic ecological knowledge based on short DNA sequences. Given extensive use this approach, it is critical to settle our understanding its strengths weaknesses synthesize up‐to‐date methodological conceptual trends. This article summarizes key scientific identifies current future directions protist research that uses metabarcoding.

Язык: Английский

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Environmental vulnerability of the global ocean epipelagic plankton community interactome

Science Advances, Год журнала: 2021, Номер 7(35)

Опубликована: Авг. 27, 2021

A global photic-ocean plankton ecological network predicts distinct vulnerabilities to environmental change across marine biomes.

Язык: Английский

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The balance between deterministic and stochastic processes in structuring lake bacterioplankton community over time

Molecular Ecology, Год журнала: 2020, Номер 29(16), С. 3117 - 3130

Опубликована: Июль 6, 2020

Abstract One major goal in microbial ecology is to establish the importance of deterministic and stochastic processes for community assembly. This relevant explain predict how diversity changes at different temporal scales. However, understanding relative quantitative contribution these particularly they may change over time limited. Here, we assessed based on analysis bacterial microbiome one alpine oligotrophic subalpine mesotrophic lake, which were sampled two consecutive years We found that both lakes, homogeneous selection (i.e., a process) was main assembly process annual scale explained 66.7% turnover, despite differences variability patterns between ecosystems. homogenizing dispersal most important short‐term (daily weekly) sampling 55% turnover. Alpha differed seasonal stability more evident lake than one. Our results demonstrate forces govern communities act Overall, our study validates basis, dominance structuring freshwater environments long

Язык: Английский

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A global overview of the trophic structure within microbiomes across ecosystems

Environment International, Год журнала: 2021, Номер 151, С. 106438 - 106438

Опубликована: Фев. 21, 2021

The colossal project of mapping the microbiome on Earth is rapidly advancing, with a focus individual microbial groups. However, global assessment associations between predatory protists and their bacterial prey still missing at cross-ecosystem level. This knowledge critical to better understand importance top-down links in structuring microbiomes. Here, we examined 38 sequence-based datasets paired protistan taxa, covering 3,178 samples from diverse habitats including freshwater, marine soils. We show that community profiles bacteria strongly correlated across within habitats, trophic structures fundamentally differing habitats. Soils hosted most heterogenous Protist communities were dominated by predators soils phototrophs aquatic environments. led changes ratio total richness, which was highest marine, while Taxon richness relative abundance positively These differed soils, protist forest grassland but not agricultural Our results suggested anthropogenic pressure affects higher levels more than lower ones leading decoupled structure Together, our cumulative overview patterns scale revealed major differences microbiomes Earth's factors might have negative effects Furthermore, increased impact especially suggests often-observed reduced ecosystem functions systems be partly attributed reduction complexity.

Язык: Английский

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