相关参考文献
注意：仅列出部分参考文献，下载原文获取全部文献信息。Hydrogenimonas urashimensis sp. nov., a hydrogen-oxidizing chemolithoautotroph isolated from a deep-sea hydrothermal vent in the Southern Mariana Trough
Sayaka Mino et al.
SYSTEMATIC AND APPLIED MICROBIOLOGY (2021)
Casting Light on the Adaptation Mechanisms and Evolutionary History of the Widespread Sumerlaeota
Yun Fang et al.
MBIO (2021)
Function-driven single-cell genomics uncovers cellulose-degrading bacteria from the rare biosphere
Devin F. R. Doud et al.
ISME JOURNAL (2020)
Genome- and Community-Level Interaction Insights in Carbon Utilization and Element Cycling Functions of Hydrothermarchaeota in Hydrothermal Sediment
Zhichao Zhou et al.
MSYSTEMS (2020)
The Great Oxidation Event expanded the genetic repertoire of arsenic metabolism and cycling
Song-Can Chen et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2020)
Microbial succession during the transition from active to inactive stages of deep-sea hydrothermal vent sulfide chimneys
Jialin Hou et al.
MICROBIOME (2020)
SignalP 5.0 improves signal peptide predictions using deep neural networks
Jose Juan Almagro Armenteros et al.
NATURE BIOTECHNOLOGY (2019)
Single cell fluorescence imaging of glycan uptake by intestinal bacteria
Jan-Hendrik Hehemann et al.
ISME JOURNAL (2019)
Interactive Tree Of Life (iTOL) v4: recent updates and new developments
Ivica Letunic et al.
NUCLEIC ACIDS RESEARCH (2019)
Machine Learning Applied to Predicting Microorganism Growth Temperatures and Enzyme Catalytic Optima
Gang Li et al.
ACS SYNTHETIC BIOLOGY (2019)
The Biogeochemical Sulfur Cycle of Marine Sediments
Bo Barker Jorgensen et al.
FRONTIERS IN MICROBIOLOGY (2019)
In marine Bacteroidetes the bulk of glycan degradation during algae blooms is mediated by few clades using a restricted set of genes
Karen Krueger et al.
ISME JOURNAL (2019)
Iron and sulfide nanoparticle formation and transport in nascent hydrothermal vent plumes
Alyssa J. Findlay et al.
NATURE COMMUNICATIONS (2019)
Microbial metal-sulfide oxidation in inactive hydrothermal vent chimneys suggested by metagenomic and metaproteomic analyses
Dimitri Meier et al.
ENVIRONMENTAL MICROBIOLOGY (2019)
Selfish, sharing and scavenging bacteria in the Atlantic Ocean: a biogeographical study of bacterial substrate utilisation
Greta Reintjes et al.
ISME JOURNAL (2019)
Free-living chemoautotrophic and particle-attached heterotrophic prokaryotes dominate microbial assemblages along a pelagic redox gradient
Elizabeth A. Suter et al.
ENVIRONMENTAL MICROBIOLOGY (2018)
The MEROPS database of proteolytic enzymes, their substrates and inhibitors in 2017 and a comparison with peptidases in the PANTHER database
Neil D. Rawlings et al.
NUCLEIC ACIDS RESEARCH (2018)
fastp: an ultra-fast all-in-one FASTQ preprocessor
Shifu Chen et al.
BIOINFORMATICS (2018)
Life on the edge: active microbial communities in the Kryos MgCl(2-)brine basin at very low water activity
Lea Steinle et al.
ISME JOURNAL (2018)
dbCAN2: a meta server for automated carbohydrate-active enzyme annotation
Han Zhang et al.
NUCLEIC ACIDS RESEARCH (2018)
Metaproteogenomic Profiling of Microbial Communities Colonizing Actively Venting Hydrothermal Chimneys
Petra Pjevac et al.
FRONTIERS IN MICROBIOLOGY (2018)
Adaptive mechanisms that provide competitive advantages to marine bacteroidetes during microalgal blooms
Frank Unfried et al.
ISME JOURNAL (2018)
MetaWRAP-a flexible pipeline for genome-resolved metagenomic data analysis
Gherman V. Uritskiy et al.
MICROBIOME (2018)
metaSPAdes: a new versatile metagenomic assembler
Sergey Nurk et al.
GENOME RESEARCH (2017)
Desulfurobacterium indicum sp nov., a thermophilic sulfur-reducing bacterium from the Indian Ocean
Junwei Cao et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2017)
An alternative polysaccharide uptake mechanism of marine bacteria
Greta Reintjes et al.
ISME JOURNAL (2017)
Diversity and community composition of particle-associated and free-living bacteria in mesopelagic and bathypelagic Southern Ocean water masses: Evidence of dispersal limitation in the Bransfield Strait
Mathias Milici et al.
LIMNOLOGY AND OCEANOGRAPHY (2017)
Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper
Jaime Huerta-Cepas et al.
MOLECULAR BIOLOGY AND EVOLUTION (2017)
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
Robert M. Bowers et al.
NATURE BIOTECHNOLOGY (2017)
Disguised as a Sulfate Reducer: Growth of the Deltaproteobacterium Desulfurivibrio alkaliphilus by Sulfide Oxidation with Nitrate
Casper Thorup et al.
MBIO (2017)
Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads
Ryan R. Wick et al.
PLOS COMPUTATIONAL BIOLOGY (2017)
Oxidative Weathering and Microbial Diversity of an Inactive Seafloor Hydrothermal Sulfide Chimney
Jiangtao Li et al.
FRONTIERS IN MICROBIOLOGY (2017)
Comparative Genomic Analysis of the Class Epsilonproteobacteria and Proposed Reclassification to Epsilonbacteraeota (phyl. nov.)
David W. Waite et al.
FRONTIERS IN MICROBIOLOGY (2017)
Genomic insights into potential interdependencies in microbial hydrocarbon and nutrient cycling in hydrothermal sediments
Nina Dombrowski et al.
MICROBIOME (2017)
JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison
Michael Richter et al.
BIOINFORMATICS (2016)
Nitrous Oxide Reduction Kinetics Distinguish Bacteria Harboring Clade I NosZ from Those Harboring Clade II NosZ
Sukhwan Yoon et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2016)
BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences
Minoru Kanehisa et al.
JOURNAL OF MOLECULAR BIOLOGY (2016)
Genome-Based Microbial Taxonomy Coming of Age
Philip Hugenholtz et al.
COLD SPRING HARBOR PERSPECTIVES IN BIOLOGY (2016)
A Modified SDS-Based DNA Extraction Method for High Quality Environmental DNA from Seafloor Environments
Vengadesh Perumal Natarajan et al.
FRONTIERS IN MICROBIOLOGY (2016)
Functional interactions among filamentous Epsilonproteobacteria and Bacteroidetes in a deep-sea hydrothermal vent biofilm
Runar Stokke et al.
ENVIRONMENTAL MICROBIOLOGY (2015)
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
Donovan H. Parks et al.
GENOME RESEARCH (2015)
Human gut Bacteroidetes can utilize yeast mannan through a selfish mechanism
Fiona Cuskin et al.
NATURE (2015)
Potential for biogeochemical cycling of sulfur, iron and carbon within massive sulfide deposits below the seafloor
Shingo Kato et al.
ENVIRONMENTAL MICROBIOLOGY (2015)
IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies
Lam-Tung Nguyen et al.
MOLECULAR BIOLOGY AND EVOLUTION (2015)
Fast and sensitive protein alignment using DIAMOND
Benjamin Buchfink et al.
NATURE METHODS (2015)
Cytochrome bd oxidase and bacterial tolerance to oxidative and nitrosative stress
Alessandro Giuffre et al.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS (2014)
Functional characterization of polysaccharide utilization loci in the marine Bacteroidetes 'Gramella forsetii' KT0803
Antje Kabisch et al.
ISME JOURNAL (2014)
Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences
Pablo Yarza et al.
NATURE REVIEWS MICROBIOLOGY (2014)
Biostimulation induces syntrophic interactions that impact C, S and N cycling in a sediment microbial community
Kim M. Handley et al.
ISME JOURNAL (2013)
Ecology of marine Bacteroidetes: a comparative genomics approach
Beatriz Fernandez-Gomez et al.
ISME JOURNAL (2013)
Gliding Motility and Por Secretion System Genes Are Widespread among Members of the Phylum Bacteroidetes
Mark J. McBride et al.
JOURNAL OF BACTERIOLOGY (2013)
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Kazutaka Katoh et al.
MOLECULAR BIOLOGY AND EVOLUTION (2013)
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
Christian Quast et al.
NUCLEIC ACIDS RESEARCH (2013)
Ammonia oxidation pathways and nitrifier denitrification are significant sources of N2O and NO under low oxygen availability
Xia Zhu et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)
Microbiological characterization of post-eruption snowblower vents at Axial Seamount Juan de Fuca Ridge
Julie L. Meyer et al.
FRONTIERS IN MICROBIOLOGY (2013)
Low temperature geomicrobiology follows host rock composition along a geochemical gradient in Lau Basin
Jason B. Sylvan et al.
FRONTIERS IN MICROBIOLOGY (2013)
SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
Elmar Pruesse et al.
BIOINFORMATICS (2012)
Fast gapped-read alignment with Bowtie 2
Ben Langmead et al.
NATURE METHODS (2012)
Microbial ecology of expanding oxygen minimum zones
Jody J. Wright et al.
NATURE REVIEWS MICROBIOLOGY (2012)
How glycan metabolism shapes the human gut microbiota
Nicole M. Koropatkin et al.
NATURE REVIEWS MICROBIOLOGY (2012)
Chemoautotrophy at Deep-Sea Vents Past, Present, and Future
Stefan M. Sievert et al.
OCEANOGRAPHY (2012)
Unexpected nondenitrifier nitrous oxide reductase gene diversity and abundance in soils
Robert A. Sanford et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)
Life and Death of Deep-Sea Vents: Bacterial Diversity and Ecosystem Succession on Inactive Hydrothermal Sulfides
Jason B. Sylvan et al.
MBIO (2012)
The cytochrome bd respiratory oxygen reductases
Vitaliy B. Borisov et al.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS (2011)
Exploring the composition and diversity of microbial communities at the Jan Mayen hydrothermal vent field using RNA and DNA
Anders Lanzen et al.
FEMS MICROBIOLOGY ECOLOGY (2011)
Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample
J. Gregory Caporaso et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2011)
Compositional differences in particle-associated and free-living microbial assemblages from an extreme deep-ocean environment
Emiley A. Eloe et al.
ENVIRONMENTAL MICROBIOLOGY REPORTS (2011)
Prodigal: prokaryotic gene recognition and translation initiation site identification
Doug Hyatt et al.
BMC BIOINFORMATICS (2010)
Gas geochemical characteristics of hydrothermal plumes at the HAKUREI and JADE vent sites, the Izena Cauldron, Okinawa Trough
Shinsuke Kawagucci et al.
GEOCHEMICAL JOURNAL (2010)
Caldithrix palaeochoryensis sp. nov., a thermophilic, anaerobic, chemo-organotrophic bacterium from a geothermally heated sediment, and emended description of the genus Caldithnx
Margarita L. Miroshnichenko et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2010)
QIIME allows analysis of high-throughput community sequencing data
J. Gregory Caporaso et al.
NATURE METHODS (2010)
Structural Basis of Biological N2O Generation by Bacterial Nitric Oxide Reductase
Tomoya Hino et al.
SCIENCE (2010)
Diversity and Abundance of Ammonia-Oxidizing Archaea in Hydrothermal Vent Chimneys of the Juan de Fuca Ridge
Shufang Wang et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2009)
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
Salvador Capella-Gutierrez et al.
BIOINFORMATICS (2009)
Complex Glycan Catabolism by the Human Gut Microbiota: The Bacteroidetes Sus-like Paradigm
Eric C. Martens et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2009)
The structure of Aquifex aeolicus sulfide:quinone oxidoreductase, a basis to understand sulfide detoxification and respiration
Marco Marcia et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)
Metagenome of a Versatile Chemolithoautotroph from Expanding Oceanic Dead Zones
David A. Walsh et al.
SCIENCE (2009)
Deep-sea vent chemoautotrophs: diversity, biochemistry and ecological significance
Satoshi Nakagawa et al.
FEMS MICROBIOLOGY ECOLOGY (2008)
The surprisingly diverse ways that prokaryotes move
Ken F. Jarrell et al.
NATURE REVIEWS MICROBIOLOGY (2008)
Molecular mechanism of energy conservation in polysulfide respiration
Mika Jormakka et al.
NATURE STRUCTURAL & MOLECULAR BIOLOGY (2008)
RNAmmer:: consistent and rapid annotation of ribosomal RNA genes
Karin Lagesen et al.
NUCLEIC ACIDS RESEARCH (2007)
Global patterns of diversity and community structure in marine bacterioplankton
T. Pommier et al.
MOLECULAR ECOLOGY (2007)
Disruption of a sugar transporter gene cluster in a hyperthermophilic archaeon using a host-marker system based on antibiotic resistance
Rie Matsumi et al.
JOURNAL OF BACTERIOLOGY (2007)
Towards a genome-based taxonomy for prokaryotes
KT Konstantinidis et al.
JOURNAL OF BACTERIOLOGY (2005)
Genomic insights that advance the species definition for prokaryotes
KT Konstantinidis et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)
Early steps in microbial colonization processes at deep-sea hydrothermal vents
K Alain et al.
ENVIRONMENTAL MICROBIOLOGY (2004)
Oceanithermus desulfurans sp nov., a novel thermophilic, sulfur-reducing bacterium isolated from a sulfide chimney in Suiyo Seamount
K Mori et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2004)
Thermovibrio ammonificans sp nov., a thermophilic, chemolithotrophic, nitrate-ammonifying bacterium from deep-sea hydrothermal vents
C Vetriani et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2004)
Molecular characterization of sulfate-reducing bacteria in the Guaymas Basin
A Dhillon et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2003)
Identification of 16S ribosomal DNA-defined bacterial populations at a shallow submarine hydrothermal vent near Milos Island (Greece)
SM Sievert et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2000)
Novel bacterial and archaeal lineages from an in situ growth chamber deployed at a Mid-Atlantic Ridge hydrothermal vent
AL Reysenbach et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2000)
分享论文
