Substrate degradation pathways, conserved functions and community composition of the hindgut microbiota in the herbivorous marine fish Kyphosus sydneyanus

Genomic and functional analyses of fungal and bacterial consortia that enable lignocellulose breakdown in goat gut microbiomes

(2021) Xuefeng Peng et al.   Nature Microbiology

Inference-based accuracy of metagenome prediction tools varies across sample types and functional categories

(2020) Shan Sun et al.   Microbiome

Biochemical unity revisited: microbial central carbon metabolism holds new discoveries, multi-tasking pathways, and redundancies with a reason

(2020) Lennart Schada von Borzyskowski et al.   BIOLOGICAL CHEMISTRY

The Road Not Taken: The Rumen Microbiome, Functional Groups, and Community States

(2019) Sarah Moraïs et al.   TRENDS IN MICROBIOLOGY

RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference

(2019) Alexey M Kozlov et al.   BIOINFORMATICS

Comparison of normalization methods for the analysis of metagenomic gene abundance data

(2018) Mariana Buongermino Pereira et al.   BMC GENOMICS

Efficient conversion of mannitol derived from brown seaweed to fructose for fermentation with a thraustochytrid

(2018) Takahisa Tajima et al.   JOURNAL OF BIOSCIENCE AND BIOENGINEERING

Role of priority effects in the early-life assembly of the gut microbiota

(2018) Daniel Sprockett et al.   Nature Reviews Gastroenterology & Hepatology

The Gut Microbiota of Marine Fish

(2018) Sian Egerton et al.   Frontiers in Microbiology

Function and functional redundancy in microbial systems

(2018) Stilianos Louca et al.   Nature Ecology & Evolution

Functional metagenomics reveals abundant polysaccharide-degrading gene clusters and cellobiose utilization pathways within gut microbiota of a wood-feeding higher termite

(2018) Ning Liu et al.   ISME Journal

Alginate Lyases: Substrates, Structure, Properties, and Prospects of Application

(2018) A. A. Belik et al.   RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY

Experimental evaluation of the importance of colonization history in early-life gut microbiota assembly

(2018) Inés Martínez et al.   eLife

The Microbiome of the Gastrointestinal Tract of a Range-Shifting Marine Herbivorous Fish

(2018) Jacquelyn Jones et al.   Frontiers in Microbiology

Stochastic and Deterministic Effects of a Moisture Gradient on Soil Microbial Communities in the McMurdo Dry Valleys of Antarctica

(2018) Kevin C. Lee et al.   Frontiers in Microbiology

Oxygen as a driver of gut dysbiosis

(2017) Fabian Rivera-Chávez et al.   FREE RADICAL BIOLOGY AND MEDICINE

Beyond Fermentation: Other Important Services Provided to Endothermic Herbivores by their Gut Microbiota

(2017) M. Denise Dearing et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

Convergence of gut microbiotas in the adaptive radiations of African cichlid fishes

(2017) Laura Baldo et al.   ISME Journal

Host effects on microbiota community assembly

(2017) Kathrin Näpflin et al.   JOURNAL OF ANIMAL ECOLOGY

Fish intestinal microbiome: diversity and symbiosis unravelled by metagenomics

(2017) A.M. Tarnecki et al.   JOURNAL OF APPLIED MICROBIOLOGY

Exploiting fine-scale genetic and physiological variation of closely related microbes to reveal unknown enzyme functions

(2017) Ahmet H. Badur et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The resilience of the intestinal microbiota influences health and disease

(2017) Felix Sommer et al.   NATURE REVIEWS MICROBIOLOGY

Genomic diversification of giant enteric symbionts reflects host dietary lifestyles

(2017) David Kamanda Ngugi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Progress in fish gastrointestinal microbiota research

(2017) An R. Wang et al.   Reviews in Aquaculture

A Metagenomics Investigation of Carbohydrate-Active Enzymes along the Gastrointestinal Tract of Saudi Sheep

(2017) Saad Al-Masaudi et al.   Frontiers in Microbiology

The microbiome beyond the horizon of ecological and evolutionary theory

(2017) Britt Koskella et al.   Nature Ecology & Evolution

MultiQC: summarize analysis results for multiple tools and samples in a single report

(2016) Philip Ewels et al.   BIOINFORMATICS

It’s the song, not the singer: an exploration of holobiosis and evolutionary theory

(2016) W. Ford Doolittle et al.   BIOLOGY & PHILOSOPHY

World-wide species distributions in the family Kyphosidae (Teleostei: Perciformes)

(2016) Steen Wilhelm Knudsen et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

KEGG: new perspectives on genomes, pathways, diseases and drugs

(2016) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

“Algae’s sulfated polysaccharides modifications: Potential use of microbial enzymes”

(2016) Daniela de Borba Gurpilhares et al.   PROCESS BIOCHEMISTRY

The alginate lyases FlAlyA, FlAlyB, FlAlyC, and FlAlex from Flavobacterium sp. UMI-01 have distinct roles in the complete degradation of alginate

(2016) Akira Inoue et al.   Algal Research-Biomass Biofuels and Bioproducts

Characterization of the Gut Microbiome Using 16S or Shotgun Metagenomics

(2016) Juan Jovel et al.   Frontiers in Microbiology

The Woodrat Gut Microbiota as an Experimental System for Understanding Microbial Metabolism of Dietary Toxins

(2016) Kevin D. Kohl et al.   Frontiers in Microbiology

A new view of the fish gut microbiome: Advances from next-generation sequencing

(2015) Mahdi Ghanbari et al.   AQUACULTURE

Functional genomic and metagenomic approaches to understanding gut microbiota–animal mutualism

(2015) Sang Sun Yoon et al.   CURRENT OPINION IN 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

Purification and Characterization of a Fucoidanase (FNase S) from a Marine Bacterium Sphingomonas paucimobilis PF-1

(2015) Woo Kim et al.   Marine Drugs

Gut biogeography of the bacterial microbiota

(2015) Gregory P. Donaldson et al.   NATURE REVIEWS MICROBIOLOGY

Role of the normal gut microbiota

(2015) Sai Manasa Jandhyala   WORLD JOURNAL OF GASTROENTEROLOGY

High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats

(2015) Jizhong Zhou et al.   mBio

The functionality of the gastrointestinal microbiome in non-human animals

(2015) Irene Hanning et al.   Microbiome

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

STAMP: statistical analysis of taxonomic and functional profiles

(2014) Donovan H. Parks et al.   BIOINFORMATICS

A sweet new wave: structures and mechanisms of enzymes that digest polysaccharides from marine algae

(2014) Jan-Hendrik Hehemann et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Structure-based Conversion of the Coenzyme Requirement of a Short-chain Dehydrogenase/Reductase Involved in Bacterial Alginate Metabolism

(2014) Ryuichi Takase et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Control of pathogens and pathobionts by the gut microbiota

(2013) Nobuhiko Kamada et al.   NATURE IMMUNOLOGY

The abundance and variety of carbohydrate-active enzymes in the human gut microbiota

(2013) Abdessamad El Kaoutari et al.   NATURE REVIEWS MICROBIOLOGY

Environmental and ecological factors that shape the gut bacterial communities of fish: a meta-analysis

(2012) KAREN E. SULLAM et al.   MOLECULAR ECOLOGY

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

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

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

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

The Application of Ecological Theory Toward an Understanding of the Human Microbiome

(2012) E. K. Costello et al.   SCIENCE

Host-Gut Microbiota Metabolic Interactions

(2012) J. K. Nicholson et al.   SCIENCE

Beyond the Venn diagram: the hunt for a core microbiome

(2011) Ashley Shade et al.   ENVIRONMENTAL MICROBIOLOGY

Distinct commensal bacteria associated with ingesta and mucosal epithelium in the gastrointestinal tracts of calves and chickens

(2011) Nilusha Malmuthuge et al.   FEMS MICROBIOLOGY ECOLOGY

Evidence for a core gut microbiota in the zebrafish

(2011) Guus Roeselers et al.   ISME Journal

Phylogenetic analysis of the fecal microbial community in herbivorous land and marine iguanas of the Galápagos Islands using 16S rRNA-based pyrosequencing

(2011) Pei-Ying Hong et al.   ISME Journal

Bacterial community assembly based on functional genes rather than species

(2011) C. Burke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Utilisation of mannitol by temperate marine herbivorous fishes

(2010) W.L. White et al.   JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY

Fucoidan: Structure and Bioactivity

(2008) Bo Li et al.   MOLECULES

Polysaccharide utilization by gut bacteria: potential for new insights from genomic analysis

(2008) Harry J. Flint et al.   NATURE REVIEWS MICROBIOLOGY

The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics

(2008) B. L. Cantarel et al.   NUCLEIC ACIDS RESEARCH