Pontiella desulfatans gen. nov., sp. nov., and Pontiella sulfatireligans sp. nov., Two Marine Anaerobes of the Pontiellaceae fam. nov. Producing Sulfated Glycosaminoglycan-like Exopolymers

Decorating the Anammox House: Sialic Acids and Sulfated Glycosaminoglycans in the Extracellular Polymeric Substances of Anammox Granular Sludge

(2020) Marissa Boleij et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Fueled by methane: deep-sea sponges from asphalt seeps gain their nutrition from methane-oxidizing symbionts

(2019) Maxim Rubin-Blum et al.   ISME Journal

New Insights Into the Polar Lipid Composition of Extremely Halo(alkali)philic Euryarchaea From Hypersaline Lakes

(2019) Nicole J. Bale et al.   Frontiers in Microbiology

Anaerobic Degradation of Sulfated Polysaccharides by Two Novel Kiritimatiellales Strains Isolated From Black Sea Sediment

(2019) Daan M. van Vliet et al.   Frontiers in Microbiology

antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline

(2019) Kai Blin et al.   NUCLEIC ACIDS RESEARCH

Fatty Acid and Hopanoid Adaption to Cold in the Methanotroph Methylovulum psychrotolerans

(2019) Nicole J. Bale et al.   Frontiers in Microbiology

GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database

(2019) Pierre-Alain Chaumeil et al.   BIOINFORMATICS

Aerobic granular sludge contains Hyaluronic acid-like and sulfated glycosaminoglycans-like polymers

(2019) Simon Felz et al.   WATER RESEARCH

dbCAN2: a meta server for automated carbohydrate-active enzyme annotation

(2018) Han Zhang et al.   NUCLEIC ACIDS RESEARCH

The Microbial Genomes Atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level

(2018) Luis M Rodriguez-R et al.   NUCLEIC ACIDS RESEARCH

Labilibaculum manganireducens gen. nov., sp. nov. and Labilibaculum filiforme sp. nov., Novel Bacteroidetes Isolated from Subsurface Sediments of the Baltic Sea

(2018) Verona Vandieken et al.   Frontiers in Microbiology

Nitrogen-fixing populations of Planctomycetes and Proteobacteria are abundant in surface ocean metagenomes

(2018) Tom O. Delmont et al.   Nature Microbiology

A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life

(2018) Donovan H Parks et al.   NATURE BIOTECHNOLOGY

UniProt: a worldwide hub of protein knowledge

(2018)   NUCLEIC ACIDS RESEARCH

Co-culture of a Novel Fermentative Bacterium, Lucifera butyrica gen. nov. sp. nov., With the Sulfur Reducer Desulfurella amilsii for Enhanced Sulfidogenesis

(2018) Irene Sánchez-Andrea et al.   Frontiers in Microbiology

Uncultivated microbes in need of their own taxonomy

(2017) Konstantinos T Konstantinidis et al.   ISME Journal

Structural Diversity of Human Gastric Mucin Glycans

(2017) Chunsheng Jin et al.   MOLECULAR & CELLULAR PROTEOMICS

UFBoot2: Improving the Ultrafast Bootstrap Approximation

(2017) Diep Thi Hoang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Complex pectin metabolism by gut bacteria reveals novel catalytic functions

(2017) Didier Ndeh et al.   NATURE

ModelFinder: fast model selection for accurate phylogenetic estimates

(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

The MEROPS database of proteolytic enzymes, their substrates and inhibitors in 2017 and a comparison with peptidases in the PANTHER database

(2017) Neil D Rawlings et al.   NUCLEIC ACIDS RESEARCH

The MetaCyc database of metabolic pathways and enzymes

(2017) Ron Caspi et al.   NUCLEIC ACIDS RESEARCH

Purification, expression and characterization of a novel α- l -fucosidase from a marine bacteria Wenyingzhuangia fucanilytica

(2017) Shujun Dong et al.   PROTEIN EXPRESSION AND PURIFICATION

The life sulfuric: microbial ecology of sulfur cycling in marine sediments

(2017) Kenneth Wasmund et al.   Environmental Microbiology Reports

Ecophysiology of Freshwater Verrucomicrobia Inferred from Metagenome-Assembled Genomes

(2017) Shaomei He et al.   mSphere

Adaptation of Akkermansia muciniphila to the Oxic-Anoxic Interface of the Mucus Layer

(2016) Janneke P. Ouwerkerk et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Habitat and taxon as driving forces of carbohydrate catabolism in marine heterotrophic bacteria: example of the model algae-associated bacterium Zobellia galactanivorans DsijT

(2016) Tristan Barbeyron et al.   ENVIRONMENTAL MICROBIOLOGY

Thermostilla marina gen. nov., sp. nov., a thermophilic, facultatively anaerobic planctomycete isolated from a shallow submarine hydrothermal vent

(2016) Galina B. Slobodkina et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Characterization of the first cultured representative of Verrucomicrobia subdivision 5 indicates the proposal of a novel phylum

(2016) Stefan Spring et al.   ISME Journal

The Multiple Functions of Common Microbial Carbon Polymers, Glycogen and PHB, during Stress Responses in the Non-Diazotrophic Cyanobacterium Synechocystis sp. PCC 6803

(2016) Ramon Damrow et al.   Frontiers in Microbiology

Expanding the World of Marine Bacterial and Archaeal Clades

(2016) Pelin Yilmaz et al.   Frontiers in Microbiology

Matching the Diversity of Sulfated Biomolecules: Creation of a Classification Database for Sulfatases Reflecting Their Substrate Specificity

(2016) Tristan Barbeyron et al.   PLoS One

Evidence of glycoproteins and sulphated proteoglycan-like presence in extracellular polymeric substance from anaerobic granular sludge

(2015) Isabelle Bourven et al.   ENVIRONMENTAL TECHNOLOGY

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

(2015) Donovan H. Parks et al.   GENOME RESEARCH

A Hidden Pitfall in the Preparation of Agar Media Undermines Microorganism Cultivability

(2014) Tomohiro Tanaka et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Verrucomicrobia Are Candidates for Polysaccharide-Degrading Bacterioplankton in an Arctic Fjord of Svalbard

(2014) Z. Cardman et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Thermogutta terrifontis gen. nov., sp. nov. and Thermogutta hypogea sp. nov., thermophilic anaerobic representatives of the phylum Planctomycetes

(2014) G. B. Slobodkina et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

First genome sequences of Achromobacter phages reveal new members of the N4 family

(2014) Johannes Wittmann et al.   Virology Journal

Exopolysaccharides produced by marine bacteria and their applications as glycosaminoglycan-like molecules

(2014) Christine Delbarre-Ladrat et al.   Frontiers in Chemistry

Comparative analysis of fungal genomes reveals different plant cell wall degrading capacity in fungi

(2013) Zhongtao Zhao et al.   BMC GENOMICS

Quantifying the degradation of organic matter in marine sediments: A review and synthesis

(2013) Sandra Arndt et al.   EARTH-SCIENCE REVIEWS

Ecology of marine Bacteroidetes: a comparative genomics approach

(2013) Beatriz Fernández-Gómez et al.   ISME Journal

Hydrolysis of Fucoidan by Fucoidanase Isolated from the Marine Bacterium, Formosa algae

(2013) Artem Silchenko et al.   Marine Drugs

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

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

The carbohydrate-active enzymes database (CAZy) in 2013

(2013) Vincent Lombard et al.   NUCLEIC ACIDS RESEARCH

The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)

(2013) Ross Overbeek et al.   NUCLEIC ACIDS RESEARCH

Fucoidans from brown seaweeds: an update on structures, extraction techniques and use of enzymes as tools for structural elucidation

(2013) Marcel Tutor Ale et al.   RSC Advances

Pentosan polysulfate increases affinity between ADAMTS-5 and TIMP-3 through formation of an electrostatically driven trimolecular complex

(2012) Linda Troeberg et al.   BIOCHEMICAL JOURNAL

SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes

(2012) Elmar Pruesse et al.   BIOINFORMATICS

Microbial Fucoidan Degradation byLuteolibacter algaeH18 with Deacetylation

(2012) Takashi OHSHIRO et al.   BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY

Pyrosequencing of 16S rRNA genes in fecal samples reveals high diversity of hindgut microflora in horses and potential links to chronic laminitis

(2012) Samantha M Steelman et al.   BMC Veterinary Research

The gut anaerobe Faecalibacterium prausnitzii uses an extracellular electron shuttle to grow at oxic–anoxic interphases

(2012) M Tanweer Khan et al.   ISME Journal

Expression of sulfatases in Rhodopirellula baltica and the diversity of sulfatases in the genus Rhodopirellula

(2012) Carl-Eric Wegner et al.   Marine Genomics

Capturing Single Cell Genomes of Active Polysaccharide Degraders: An Unexpected Contribution of Verrucomicrobia

(2012) Manuel Martinez-Garcia et al.   PLoS One

Genomic and Physiological Analysis of Carbon Storage in the Verrucomicrobial Methanotroph “Ca. Methylacidiphilum Fumariolicum” SolV

(2012) Ahmad F. Khadem et al.   Frontiers in Microbiology

The cytochrome bd respiratory oxygen reductases

(2011) Vitaliy B. Borisov et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Role of Geobacter sulfurreducens Outer Surface c-Type Cytochromes in Reduction of Soil Humic Acid and Anthraquinone-2,6-Disulfonate

(2010) J. W. Voordeckers et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes

(2010) Nancy Y. Yu et al.   BIOINFORMATICS

Genome Sequence of Lentisphaera araneosa HTCC2155T, the Type Species of the Order Lentisphaerales in the Phylum Lentisphaerae

(2010) J. C. Thrash et al.   JOURNAL OF BACTERIOLOGY

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Digital DNA-DNA hybridization for microbial species delineation by means of genome-to-genome sequence comparison

(2010) Alexander F. Auch et al.   Standards in Genomic Sciences

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology

(2009) P. D. Karp et al.   BRIEFINGS IN BIOINFORMATICS

Enzyme phylogenies as markers for the oxidation state of the environment: The case of respiratory arsenate reductase and related enzymes

(2008) Simon Duval et al.   BMC EVOLUTIONARY BIOLOGY

The CGView Server: a comparative genomics tool for circular genomes

(2008) J. R. Grant et al.   NUCLEIC ACIDS RESEARCH