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Archaeal biogeography and interactions with microbial community across complex subtropical coastal waters

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Biogeochemical and metagenomic analysis of nitrite accumulation in the G ulf of M exico hypoxic zone

inferredcites →https://doi.org/10.1007/s00253-016-7421-zopenalex-snapshot

Population and diversity of ammonia-oxidizing archaea and bacteria in a pollutants’ receiving area in Hangzhou Bay

inferredcites →https://doi.org/10.1016/j.scitotenv.2018.04.142openalex-snapshot

Microeukaryotic biogeography in the typical subtropical coastal waters with multiple environmental gradients

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Diversity and distribution of Archaea in global estuarine ecosystems

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Distribution patterns of ammonia-oxidizing archaea and bacteria in sediments of the eastern China marginal seas

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A New Perspective on Microbes Formerly Known as Nitrite-Oxidizing Bacteria

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Archaeal dominance in the mesopelagic zone of the Pacific Ocean

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Proteorhodopsin phototrophy in the ocean

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Novel major archaebacterial group from marine plankton

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Molecular and biogeochemical evidence for ammonia oxidation by marine Crenarchaeota in the Gulf of California

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Hindsight in the relative abundance, metabolic potential and genome dynamics of uncultivated marine archaea from comparative metagenomic analyses of bathypelagic plankton of different oceanic regions

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Seasonal Synechococcus and Thaumarchaeal population dynamics examined with high resolution with remote in situ instrumentation

inferredcites →https://doi.org/10.1038/ismej.2011.24openalex-snapshot

Marine bacterial, archaeal and protistan association networks reveal ecological linkages

inferredcites →https://doi.org/10.1038/ismej.2012.169openalex-snapshot

Ecology of marine Bacteroidetes: a comparative genomics approach

inferredcites →https://doi.org/10.1038/ismej.2012.22openalex-snapshot

Stochastic and deterministic assembly processes in subsurface microbial communities

inferredcites →https://doi.org/10.1038/ismej.2013.171openalex-snapshot

Seasonal variation in the metratranscriptomes of a Thaumarchaeota population from SE USA coastal waters

inferredcites →https://doi.org/10.1038/ismej.2013.93openalex-snapshot

Quantifying community assembly processes and identifying features that impose them

inferredcites →https://doi.org/10.1038/ismej.2014.11openalex-snapshot

Differential contributions of archaeal ammonia oxidizer ecotypes to nitrification in coastal surface waters

inferredcites →https://doi.org/10.1038/ismej.2014.249openalex-snapshot

A new class of marine Euryarchaeota group II from the mediterranean deep chlorophyll maximum

inferredcites →https://doi.org/10.1038/ismej.2014.260openalex-snapshot

Ecophysiology of uncultivated marine euryarchaea is linked to particulate organic matter

inferredcites →https://doi.org/10.1038/ismej.2015.143openalex-snapshot

Insights in the ecology and evolutionary history of the Miscellaneous Crenarchaeotic Group lineage

inferredcites →https://doi.org/10.1038/ismej.2015.235openalex-snapshot

Correlation detection strategies in microbial data sets vary widely in sensitivity and precision

inferredcites →https://doi.org/10.1038/ismej.2017.104openalex-snapshot

Marine archaeal dynamics and interactions with the microbial community over 5 years from surface to seafloor

inferredcites →https://doi.org/10.1038/ismej.2017.183openalex-snapshot

Contrasting the relative importance of species sorting and dispersal limitation in shaping marine bacterial versus protist communities

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Isolation of an autotrophic ammonia-oxidizing marine archaeon

inferredcites →https://doi.org/10.1038/nature04435openalex-snapshot

Proteorhodopsin lateral gene transfer between marine planktonic Bacteria and Archaea

inferredcites →https://doi.org/10.1038/nature08465openalex-snapshot

Ammonia oxidation kinetics determine niche separation of nitrifying Archaea and Bacteria

inferredcites →https://doi.org/10.1038/nature16459openalex-snapshot

Complete nitrification by a single microorganism

inferredcites →https://doi.org/10.1038/nature16461openalex-snapshot

Complete nitrification by Nitrospira bacteria

inferredcites →https://doi.org/10.1038/nmeth.2276openalex-snapshot

Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing

inferredcites →https://doi.org/10.1038/nmeth.2658openalex-snapshot

Differential abundance analysis for microbial marker-gene surveys

inferredcites →https://doi.org/10.1038/nmeth.f.303openalex-snapshot

QIIME allows analysis of high-throughput community sequencing data

inferredcites →https://doi.org/10.1038/nmicrobiol.2016.5openalex-snapshot

Pronounced daily succession of phytoplankton, archaea and bacteria following a spring bloom

inferredcites →https://doi.org/10.1038/nrmicro.2018.9openalex-snapshot

The microbial nitrogen-cycling network

inferredcites →https://doi.org/10.1038/nrmicro2795openalex-snapshot

Beyond biogeographic patterns: processes shaping the microbial landscape

inferredcites →https://doi.org/10.1038/s41396-018-0066-4openalex-snapshot

Light and temperature control the seasonal distribution of thaumarchaeota in the South Atlantic bight

inferredcites →https://doi.org/10.1038/s41467-017-01376-9openalex-snapshot

Diverse Marinimicrobia bacteria may mediate coupled biogeochemical cycles along eco-thermodynamic gradients

inferredcites →https://doi.org/10.1038/srep02471openalex-snapshot

Metagenomics uncovers a new group of low GC and ultra-small marine Actinobacteria

inferredcites →https://doi.org/10.1073/pnas.0600756103openalex-snapshot

Archaeal nitrification in the ocean

inferredcites →https://doi.org/10.1073/pnas.0707200104openalex-snapshot

The power of species sorting: Local factors drive bacterial community composition over a wide range of spatial scales

inferredcites →https://doi.org/10.1073/pnas.1216863110openalex-snapshot

Structure of the rare archaeal biosphere and seasonal dynamics of active ecotypes in surface coastal waters

inferredcites →https://doi.org/10.1073/pnas.1324115111openalex-snapshot

Marine ammonia-oxidizing archaeal isolates display obligate mixotrophy and wide ecotypic variation

inferredcites →https://doi.org/10.1073/pnas.1605501113openalex-snapshot

Hydrogen peroxide detoxification is a key mechanism for growth of ammonia-oxidizing archaea

inferredcites →https://doi.org/10.1073/pnas.1718854115openalex-snapshot

Growth of sedimentary Bathyarchaeota on lignin as an energy source

inferredcites →https://doi.org/10.1073/pnas.89.12.5685openalex-snapshot

Archaea in coastal marine environments.

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Conceptual Synthesis in Community Ecology

inferredcites →https://doi.org/10.1093/bioinformatics/btq461openalex-snapshot

Search and clustering orders of magnitude faster than BLAST

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UCHIME improves sensitivity and speed of chimera detection

inferredcites →https://doi.org/10.1093/bioinformatics/btr507openalex-snapshot

FLASH: fast length adjustment of short reads to improve genome assemblies

inferredcites →https://doi.org/10.1093/nar/gks1219openalex-snapshot

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

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Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

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Nitrolancea hollandica gen. nov., sp. nov., a chemolithoautotrophic nitrite-oxidizing bacterium isolated from a bioreactor belonging to the phylum Chloroflexi

inferredcites →https://doi.org/10.1111/1462-2920.12853openalex-snapshot

Archaeal enrichment in the hypoxic zone in the northern G ulf of M exico

inferredcites →https://doi.org/10.1111/1462-2920.12884openalex-snapshot

Bacterial biogeography in the coastal waters of northern Z hejiang, E ast C hina S ea is highly controlled by spatially structured environmental gradients

inferredcites →https://doi.org/10.1111/1462-2920.13023openalex-snapshot

Every base matters: assessing small subunit rRNA primers for marine microbiomes with mock communities, time series and global field samples

inferredcites →https://doi.org/10.1111/1462-2920.14265openalex-snapshot

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

inferredcites →https://doi.org/10.1111/1574-6941.12404openalex-snapshot

Shifts in archaeaplankton community structure along ecological gradients of Pearl Estuary

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Phyto REF : a reference database of the plastidial 16S rRNA gene of photosynthetic eukaryotes with curated taxonomy

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Navigating the multiple meanings of β diversity: a roadmap for the practicing ecologist

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Environmental factors determining ammonia‐oxidizing organism distribution and diversity in marine environments

inferredcites →https://doi.org/10.1111/j.1462-2920.2011.02628.xopenalex-snapshot

Metagenomic analysis of a complex marine planktonic thaumarchaeal community from the Gulf of Maine

inferredcites →https://doi.org/10.1111/j.1574-6941.2007.00397.xopenalex-snapshot

Variations in spatial and temporal distribution of Archaea in the North Sea in relation to environmental variables

inferredcites →https://doi.org/10.1111/j.1574-6968.2011.02457.xopenalex-snapshot

Differential photoinhibition of bacterial and archaeal ammonia oxidation

inferredcites →https://doi.org/10.1111/j.1600-0587.2009.06105.xopenalex-snapshot

Variation partitioning as a tool to distinguish between niche and neutral processes

inferredcites →https://doi.org/10.1111/j.1758-2229.2011.00257.xopenalex-snapshot

Local and regional factors influencing bacterial community assembly

inferredcites →https://doi.org/10.1111/mec.14421openalex-snapshot

Spatial variability of marine bacterial and archaeal communities along the particulate matter continuum

inferredcites →https://doi.org/10.1126/science.1120250openalex-snapshot

Community Genomics Among Stratified Microbial Assemblages in the Ocean's Interior

inferredcites →https://doi.org/10.1126/science.1212665openalex-snapshot

Untangling Genomes from Metagenomes: Revealing an Uncultured Class of Marine Euryarchaeota

inferredcites →https://doi.org/10.1126/science.1261359openalex-snapshot

Structure and function of the global ocean microbiome

inferredcites →https://doi.org/10.1126/science.1262073openalex-snapshot

Determinants of community structure in the global plankton interactome

inferredcites →https://doi.org/10.1126/science.289.5486.1902openalex-snapshot

Bacterial Rhodopsin: Evidence for a New Type of Phototrophy in the Sea

inferredcites →https://doi.org/10.1128/aem.01907-10openalex-snapshot

Abundance, Diversity, and Activity of Ammonia-Oxidizing Prokaryotes in the Coastal Arctic Ocean in Summer and Winter

inferredcites →https://doi.org/10.1128/aem.63.1.50-56.1997openalex-snapshot

Vertical distribution and phylogenetic characterization of marine planktonic Archaea in the Santa Barbara Channel

inferredcites →https://doi.org/10.1128/aem.64.7.2585-2595.1998openalex-snapshot

Seasonal and Spatial Variability of Bacterial and Archaeal Assemblages in the Coastal Waters near Anvers Island, Antarctica

inferredcites →https://doi.org/10.1128/mmbr.00002-17openalex-snapshot

Stochastic Community Assembly: Does It Matter in Microbial Ecology?

inferredcites →https://doi.org/10.1128/msystems.00009-15openalex-snapshot

Improved Bacterial 16S rRNA Gene (V4 and V4-5) and Fungal Internal Transcribed Spacer Marker Gene Primers for Microbial Community Surveys

inferredcites →https://doi.org/10.1186/1752-0509-5-s2-s15openalex-snapshot

Extended local similarity analysis (eLSA) of microbial community and other time series data with replicates

inferredcites →https://doi.org/10.1186/s40168-018-0488-2openalex-snapshot

Insights into the ecology, evolution, and metabolism of the widespread Woesearchaeotal lineages

inferredcites →https://doi.org/10.1371/journal.pone.0009490openalex-snapshot

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

inferredcites →https://doi.org/10.1371/journal.pone.0020906openalex-snapshot

Inferring Ecological Processes from Taxonomic, Phylogenetic and Functional Trait β-Diversity

inferredcites →https://doi.org/10.1890/0012-9658(2006)87[2614:vposdm]2.0.co;2openalex-snapshot

VARIATION PARTITIONING OF SPECIES DATA MATRICES: ESTIMATION AND COMPARISON OF FRACTIONS

inferredcites →https://doi.org/10.1890/05-0549openalex-snapshot

ANALYZING BETA DIVERSITY: PARTITIONING THE SPATIAL VARIATION OF COMMUNITY COMPOSITION DATA

inferredcites →https://doi.org/10.1890/06-2098.1openalex-snapshot

THE ROLE OF ENVIRONMENTAL AND SPATIAL FACTORS FOR THE COMPOSITION OF AQUATIC BACTERIAL COMMUNITIES

inferredcites →https://doi.org/10.1890/07-1880.1openalex-snapshot

Partitioning beta diversity in a subtropical broad‐leaved forest of China

inferredcites →https://doi.org/10.1890/es10-00117.1openalex-snapshot

Using null models to disentangle variation in community dissimilarity from variation in α-diversity

inferredcites →https://doi.org/10.3354/ame01753openalex-snapshot

Minor revision to V4 region SSU rRNA 806R gene primer greatly increases detection of SAR11 bacterioplankton

inferredcites →https://doi.org/10.3354/ame018263openalex-snapshot

Evidence for circumpolar distribution of planktonic Archaea in the Southern Ocean

inferredcites →https://doi.org/10.3389/fmicb.2013.00072openalex-snapshot

An Analysis of Thaumarchaeota Populations from the Northern Gulf of Mexico

inferredcites →https://doi.org/10.3389/fmicb.2015.00370openalex-snapshot

Estimating and mapping ecological processes influencing microbial community assembly

inferredcites →https://doi.org/10.3389/fmicb.2015.01108openalex-snapshot

Marine Group II Archaea, potentially important players in the global ocean carbon cycle

inferredcites →https://doi.org/10.3389/fmicb.2015.01180openalex-snapshot

Shifts in the pelagic ammonia-oxidizing microbial communities along the eutrophic estuary of Yong River in Ningbo City, China

inferredcites →https://doi.org/10.3389/fmicb.2016.00137openalex-snapshot

Diversity, Abundance, and Niche Differentiation of Ammonia-Oxidizing Prokaryotes in Mud Deposits of the Eastern China Marginal Seas

inferredcites →https://doi.org/10.3389/fmicb.2017.01098openalex-snapshot

Marine Group II Dominates Planktonic Archaea in Water Column of the Northeastern South China Sea

inferredcites →https://doi.org/10.4319/lo.2006.51.1.0047openalex-snapshot

Archaea in particle-rich waters of the Beaufort Shelf and Franklin Bay, Canadian Arctic: Clues to an allochthonous origin?

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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inferred← citeshttps://doi.org/10.1002/ece3.70768openalex-snapshot

Adaptation of Archaeal Communities to Summer Hypoxia in the Sediment of Bohai Sea

inferred← citeshttps://doi.org/10.1007/s00343-021-1084-zopenalex-snapshot

Community structure and assembly of denitrifying bacteria in epiphytic biofilms in a freshwater lake ecosystem

inferred← citeshttps://doi.org/10.1007/s00792-023-01310-6openalex-snapshot

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inferred← citeshttps://doi.org/10.1007/s11356-022-19157-3openalex-snapshot

Microbial diversity and community structure in deep-sea sediments of South Indian Ocean

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Microbial assembly, interaction, functioning, activity and diversification: a review derived from community compositional data

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Prokaryotic community succession and assembly on different types of microplastics in a mariculture cage

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Dynamic patterns of quorum sensing signals in phycospheric microbes during a marine algal bloom

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Colonization time of plastisphere drives the dynamics of organic carbon stability and microbial communities in seagrass bed sediments

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Water masses and climate change drive marine archaeal community biogeography: Insights from a dynamic marginal sea

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Brackish water mixing shapes seasonal dynamics of microbial interactions, community assembly, and stability in the Yangtze River Estuary

inferred← citeshttps://doi.org/10.1016/j.scitotenv.2023.167499openalex-snapshot

Microbial interactions strengthen deterministic processes during community assembly in a subtropical estuary

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Phosphorus starvation response genes and function coupling: A mechanism to regulate phosphorus availability in a subtropical estuary

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Depth‐Dependent Dynamics and Assembly Mechanisms of Bacterial Communities in the Eastern Indian Ocean

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

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Erratum

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Taxonomic dependency and spatial heterogeneity in assembly mechanisms of bacteria across complex coastal waters

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Biogeographic shifts in the microbial co-occurrence network features of three domains across complex environmental gradients in subtropical coastal waters

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Co-occurrence of planktonic bacteria and archaea affects their biogeographic patterns in China’s coastal wetlands

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Distinct patterns of distribution, community assembly and cross-domain co-occurrence of planktonic archaea in four major estuaries of China

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微生物群落构建过程的空间可视化方法

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Microplastic surface biofilms: a review of structural assembly, influencing factors, and ecotoxicity

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Additional file 1 of Co-occurrence of planktonic bacteria and archaea affects their biogeographic patterns in China’s coastal wetlands

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Additional file 1 of Distinct patterns of distribution, community assembly and cross-domain co-occurrence of planktonic archaea in four major estuaries of China

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Additional file 1 of Taxonomic dependency and spatial heterogeneity in assembly mechanisms of bacteria across complex coastal waters

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