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

Interactions Between Marine Group II Archaea and Phytoplankton Revealed by Population Correlations in the Northern Coast of South China Sea

(2022) Songze Chen et al.   Frontiers in Microbiology

Niche differentiation of ammonia-oxidizing archaea and related autotrophic carbon fixation potential in the water column of the South China Sea

(2022) Jiapeng Wu et al.   iScience

Ecological dynamics and impacts of viruses in Chinese and global estuaries

(2022) Lanlan Cai et al.   WATER RESEARCH

Exploring Marine Planktonic Archaea: Then and Now

(2021) Edward F. DeLong   Frontiers in Microbiology

GTDB: an ongoing census of bacterial and archaeal diversity through a phylogenetically consistent, rank normalized and complete genome-based taxonomy

(2021) Donovan H Parks et al.   NUCLEIC ACIDS RESEARCH

A standardized archaeal taxonomy for the Genome Taxonomy Database

(2021) Christian Rinke et al.   Nature Microbiology

Vertical Niche Partitioning of Archaea and Bacteria Linked to Shifts in Dissolved Organic Matter Quality and Hydrography in North Atlantic Waters

(2021) Tamara Rodríguez-Ramos et al.   Frontiers in Marine Science

Disentangling environmental effects in microbial association networks

(2021) Ina Maria Deutschmann et al.   Microbiome

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

(2021) Baoli Wang et al.   Environmental Microbiome

Estuarine gradients dictate spatiotemporal variations of microbiome networks in the Chesapeake Bay

(2021) Hualong Wang et al.   Environmental Microbiome

Community size can affect the signals of ecological drift and niche selection on biodiversity

(2020) Tadeu Siqueira et al.   ECOLOGY

Alternative strategies of nutrient acquisition and energy conservation map to the biogeography of marine ammonia-oxidizing archaea

(2020) Wei Qin et al.   ISME Journal

Community assembly of bacteria and archaea in coastal waters governed by contrasting mechanisms: A seasonal perspective

(2020) Kai Wang et al.   MOLECULAR ECOLOGY

Community, Distribution, and Ecological Roles of Estuarine Archaea

(2020) Dayu Zou et al.   Frontiers in Microbiology

Differential co-occurrence relationships shaping ecotype diversification within Thaumarchaeota populations in the coastal ocean water column

(2019) Linta Reji et al.   ISME Journal

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

(2019) Kai Wang et al.   MOLECULAR ECOLOGY

Proteomic Response of Three Marine Ammonia-Oxidizing Archaea to Hydrogen Peroxide and Their Metabolic Interactions with a Heterotrophic Alphaproteobacterium

(2019) Barbara Bayer et al.   mSystems

Distinct temporal dynamics of planktonic archaeal and bacterial assemblages in the bays of the Yellow Sea

(2019) Jong-Geol Kim et al.   PLoS One

Rapid Inference of Direct Interactions in Large-Scale Ecological Networks from Heterogeneous Microbial Sequencing Data

(2019) Janko Tackmann et al.   Cell Systems

Diversity and distribution of Archaea in global estuarine ecosystems

(2018) Xiaobo Liu et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Archaea Are Interactive Components of Complex Microbiomes

(2018) Christine Moissl-Eichinger et al.   TRENDS IN MICROBIOLOGY

Distinct distribution patterns of ammonia-oxidizing archaea and bacteria in sediment and water column of the Yellow River estuary

(2018) Mingcong Li et al.   Scientific Reports

Planktonic Marine Archaea

(2018) Alyson E. Santoro et al.   Annual Review of Marine Science

A phylogenomic and ecological analysis of the globally abundant Marine Group II archaea (Ca. Poseidoniales ord. nov.)

(2018) Christian Rinke et al.   ISME Journal

Diversity and seasonal distribution of ammonia-oxidizing archaea in the water column of a tropical estuary along the southeast Arabian Sea

(2018) Puthiya Veettil Vipindas et al.   WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY

Localized high abundance of Marine Group II archaea in the subtropical Pearl River Estuary: implications for their niche adaptation

(2017) Wei Xie et al.   ENVIRONMENTAL MICROBIOLOGY

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

(2017) Alma E Parada et al.   ISME Journal

Thaumarchaeal ecotype distributions across the equatorial Pacific Ocean and their potential roles in nitrification and sinking flux attenuation

(2017) Alyson E. Santoro et al.   LIMNOLOGY AND OCEANOGRAPHY

Sources, Ages, and Alteration of Organic Matter in Estuaries

(2016) Elizabeth A. Canuel et al.   Annual Review of Marine Science

Diverse, uncultivated bacteria and archaea underlying the cycling of dissolved protein in the ocean

(2016) William D Orsi et al.   ISME Journal

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

(2016) David M. Needham et al.   Nature Microbiology

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

(2015) A Apprill et al.   AQUATIC MICROBIAL ECOLOGY

Archaeal enrichment in the hypoxic zone in the northern Gulf of Mexico

(2015) Lauren E. Gillies et al.   ENVIRONMENTAL MICROBIOLOGY

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

(2015) Alma E. Parada et al.   ENVIRONMENTAL MICROBIOLOGY

Contribution of neutral processes to the assembly of gut microbial communities in the zebrafish over host development

(2015) Adam R Burns et al.   ISME Journal

Temporal Dynamics of Active Prokaryotic Nitrifiers and Archaeal Communities from River to Sea

(2015) Mylène Hugoni et al.   MICROBIAL ECOLOGY

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

(2015) Johan Decelle et al.   Molecular Ecology Resources

Determinants of community structure in the global plankton interactome

(2015) G. Lima-Mendez et al.   SCIENCE

Application of a Neutral Community Model To Assess Structuring of the Human Lung Microbiome

(2015) Arvind Venkataraman et al.   mBio

Salinity-dominated change in community structure and ecological function of Archaea from the lower Pearl River to coastal South China Sea

(2014) Wei Xie et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

circlize implements and enhances circular visualization in R

(2014) Zuguang Gu et al.   BIOINFORMATICS

Shifts in archaeaplankton community structure along ecological gradients of Pearl Estuary

(2014) Jiwen Liu et al.   FEMS MICROBIOLOGY ECOLOGY

Bacterial Domination Over Archaea in Ammonia Oxidation in a Monsoon-Driven Tropical Estuary

(2014) Vipindas Puthiya Veettil et al.   MICROBIAL ECOLOGY

An archaeal origin of eukaryotes supports only two primary domains of life

(2013) Tom A. Williams et al.   NATURE

Differential abundance analysis for microbial marker-gene surveys

(2013) Joseph N Paulson et al.   NATURE METHODS

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

(2013) M. Hugoni et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Biogeography of bacterial communities exposed to progressive long-term environmental change

(2012) Ramiro Logares et al.   ISME Journal

Bacterial diversity, community structure and potential growth rates along an estuarine salinity gradient

(2012) Barbara J Campbell et al.   ISME Journal

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

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

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

(2011) T. Magoc et al.   BIOINFORMATICS

Co-occurrence patterns for abundant marine archaeal and bacterial lineages in the deep chlorophyll maximum of coastal California

(2011) J Michael Beman et al.   ISME Journal

Marine bacterial, archaeal and protistan association networks reveal ecological linkages

(2011) Joshua A Steele et al.   ISME Journal

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Relative abundance and diversity of ammonia-oxidizing archaea and bacteria in the San Francisco Bay estuary

(2008) Annika C. Mosier et al.   ENVIRONMENTAL MICROBIOLOGY