Related references
Note: Only part of the references are listed.KofamKOALA: KEGG Ortholog assignment based on profile HMM and adaptive score threshold
Takuya Aramaki et al.
BIOINFORMATICS (2020)
Rubrivivax albus sp. nov., isolated from a freshwater pond
Shih-Yi Sheu et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2020)
Outer membrane vesicles catabolize lignin-derived aromatic compounds in Pseudomonas putida KT2440
Davinia Salvachua et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2020)
Bacterial contributions to delignification and lignocellulose degradation in forest soils with metagenomic and quantitative stable isotope probing
Roland C. Wilhelm et al.
ISME JOURNAL (2019)
MetaBAT 2: an adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies
Dongwan D. Kang et al.
PEERJ (2019)
Proteomic Profiling, Transcription Factor Modeling, and Genomics of Evolved Tolerant Strains Elucidate Mechanisms of Vanillin Toxicity in Escherichia coli
Calum A. Pattrick et al.
MSYSTEMS (2019)
Catabolism of Alkylphenols in Rhodococcus via a Meta-Cleavage Pathway Associated With Genomic Islands
David J. Levy-Booth et al.
FRONTIERS IN MICROBIOLOGY (2019)
A heterodimeric glutathione S-transferase that stereospecifically breaks lignin's (R)-aryl ether bond reveals the diversity of bacterial -etherases
Wayne S. Kontur et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2019)
The Pfam protein families database in 2019
Sara El-Gebali et al.
NUCLEIC ACIDS RESEARCH (2019)
Funneling aromatic products of chemically depolymerized lignin into 2-pyrone-4-6-dicarboxylic acid with Novosphingobium aromaticivorans
Jose M. Perez et al.
GREEN CHEMISTRY (2019)
Novosphingobium aromaticivorans uses a Nu-class glutathione S-transferase as a glutathione lyase in breaking the β-aryl ether bond of lignin
Wayne S. Kontur et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2018)
dbCAN2: a meta server for automated carbohydrate-active enzyme annotation
Han Zhang et al.
NUCLEIC ACIDS RESEARCH (2018)
Application of ribonucleoside vanadyl complex (RVC) for developing a multifunctional tissue preservative solution
Tzong-Ming Shieh et al.
PLOS ONE (2018)
Characterization and Catalytic Transfer Hydrogenolysis of Deep Eutectic Solvent Extracted Sorghum Lignin to Phenolic Compounds
Lalitendu Das et al.
ACS SUSTAINABLE CHEMISTRY & ENGINEERING (2018)
Rapid, Parallel Identification of Catabolism Pathways of Lignin-Derived Aromatic Compounds in Novosphingobium aromaticivorans
Jacob H. Cecil et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2018)
Microbes follow Humboldt: temperature drives plant and soil microbial diversity patterns from the Amazon to the Andes
Andrew T. Nottingham et al.
ECOLOGY (2018)
A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
Donovan H. Parks et al.
NATURE BIOTECHNOLOGY (2018)
Yellowstone Hot Springs are Organic Chemodiversity Hot Spots
Michael Gonsior et al.
SCIENTIFIC REPORTS (2018)
Characterization of multicopper oxidase CopA from Pseudomonas putida KT2440 and Pseudomonas fluorescens Pf-5: Involvement in bacterial lignin oxidation
Rommel Santiago Granja-Travez et al.
ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS (2018)
Genomic evidence for the degradation of terrestrial organic matter by pelagic Arctic Ocean Chloroflexi bacteria
David Colatriano et al.
COMMUNICATIONS BIOLOGY (2018)
Complete Genome Sequence of Altererythrobacter sp. Strain B11, an Aromatic Monomer-Degrading Bacterium, Isolated from Deep-Sea Sediment under the Seabed off Kashima, Japan
Allyn H. Maeda et al.
GENOME ANNOUNCEMENTS (2018)
Kinetic analysis of a complete nitrifier reveals an oligotrophic lifestyle
K. Dimitri Kits et al.
NATURE (2017)
Development and characterization of a thermophilic, lignin degrading microbiota
Shannon J. Ceballos et al.
PROCESS BIOCHEMISTRY (2017)
Altererythrobacter lauratis sp nov and Altererythrobacter palmitatis sp nov., isolated from a Tibetan hot spring
Chang-Guo Yuan et al.
ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY (2017)
Deep groundwater circulation and associated methane leakage in the northern Canadian Rocky Mountains
S. E. Grasby et al.
APPLIED GEOCHEMISTRY (2016)
Opportunities and challenges in biological lignin valorization
Gregg T. Beckham et al.
CURRENT OPINION IN BIOTECHNOLOGY (2016)
Structural analysis of hardwood native lignins by quantitative 13C NMR spectroscopy
Mikhail Yu Balakshin et al.
HOLZFORSCHUNG (2016)
Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system
Karthik Anantharaman et al.
NATURE COMMUNICATIONS (2016)
Fast and sensitive taxonomic classification for metagenomics with Kaiju
Peter Menzel et al.
NATURE COMMUNICATIONS (2016)
First Canadian record of the water mite Thermacarus nevadensis Marshall, 1928 ( Arachnida: Acariformes: Hydrachnidiae: Thermacaridae) from hot springs in British Columbia
Jennifer Heron et al.
BIODIVERSITY DATA JOURNAL (2016)
MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph
Dinghua Li et al.
BIOINFORMATICS (2015)
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
Donovan H. Parks et al.
GENOME RESEARCH (2015)
Cyanate as an energy source for nitrifiers
Marton Palatinszky et al.
NATURE (2015)
Anaerobic carboxydotrophic bacteria in geothermal springs identified using stable isotope probing
Allyson L. Brady et al.
FRONTIERS IN MICROBIOLOGY (2015)
UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches
Baris E. Suzek et al.
BIOINFORMATICS (2015)
Characterization of a thermotolerant laccase produced by Streptomyces sp SB086
Tatiana Alves Rigamonte Fernandes et al.
ANNALS OF MICROBIOLOGY (2014)
Three-Component O-Demethylase System Essential for Catabolism of a Lignin-Derived Biphenyl Compound in Sphingobium sp. Strain SYK-6
Taichi Yoshikata et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2014)
Trimmomatic: a flexible trimmer for Illumina sequence data
Anthony M. Bolger et al.
BIOINFORMATICS (2014)
Humboldt's spa: microbial diversity is controlled by temperature in geothermal environments
Christine E. Sharp et al.
ISME JOURNAL (2014)
The carbohydrate-active enzymes database (CAZy) in 2013
Vincent Lombard et al.
NUCLEIC ACIDS RESEARCH (2014)
Genome Annotation Provides Insight into Carbon Monoxide and Hydrogen Metabolism in Rubrivivax gelatinosus
Karen Wawrousek et al.
PLOS ONE (2014)
Metagenomic scaffolds enable combinatorial lignin transformation
Cameron R. Strachan et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)
Isolation of bacterial strains able to metabolize lignin from screening of environmental samples
C. R. Taylor et al.
JOURNAL OF APPLIED MICROBIOLOGY (2012)
Complete Genome Sequence of Sphingobium sp Strain SYK-6, a Degrader of Lignin-Derived Biaryls and Monoaryls
Eiji Masai et al.
JOURNAL OF BACTERIOLOGY (2012)
Complete Genome Sequence of Phototrophic Betaproteobacterium Rubrivivax gelatinosus IL144
Sakiko Nagashima et al.
JOURNAL OF BACTERIOLOGY (2012)
Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil
Maria Tourna et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2011)
Prodigal: prokaryotic gene recognition and translation initiation site identification
Doug Hyatt et al.
BMC BIOINFORMATICS (2010)
Methoxyl groups of lignin are essential carbon donors in C1 metabolism of Sphingobium sp. SYK-6
Tomonori Sonoki et al.
JOURNAL OF BASIC MICROBIOLOGY (2009)
The genomic basis of trophic strategy in marine bacteria
Federico M. Lauro et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)
Geothermal diatoms: a comparative study of floras in hot spring systems of Iceland, New Zealand, and Kenya
R. Bernhart Owen et al.
HYDROBIOLOGIA (2008)
Degradation of 3-O-methylgallate in Sphingomonas paucimobilis SYK-6 by pathways involving protocatechuate 4,5-dioxygenase
Daisuke Kasai et al.
FEMS MICROBIOLOGY LETTERS (2007)
From volcanic origins of chemoautotrophic life to Bacteria, Archaea and Eukarya
Guenter Waechtershaeuser
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES (2006)
Rubrivivax benzoatilyticus sp nov., an aromatic, hydrocarbon-degrading purple betaproteobacterium
Ch. V. Ramana et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2006)
Metabolism of isovanillate, vanillate, and veratrate by Comamonas testosteroni strain BR6020
Miguel A. Providenti et al.
JOURNAL OF BACTERIOLOGY (2006)
Why is metabolic labour divided in nitrification?
Engracia Costa et al.
TRENDS IN MICROBIOLOGY (2006)
Carbon monoxide conversion by thermophilic sulfate-reducing bacteria in pure culture and in co-culture with Carboxydothermus hydrogenoformans
SN Parshina et al.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2005)
Characterization of the gallate dioxygenase gene:: Three distinct ring cleavage dioxygenases are involved in syringate degradation by Sphingomonas paucimobilis SYK-6
D Kasai et al.
JOURNAL OF BACTERIOLOGY (2005)
A tetrahydrofolate-dependent O-demethylase, LigM, is crucial for catabolism of vanillate and syringate in Sphingomonas paucimobilis SYK-6
T Abe et al.
JOURNAL OF BACTERIOLOGY (2005)
A geothermally influenced wetland containing unconsolidated geochemical sediments
A Channing et al.
CANADIAN JOURNAL OF EARTH SCIENCES (2004)
A novel tetrahydrofolate-dependent O-demethylase gene is essential for growth of Sphingomonas paucimobilis SYK-6 with syringate
E Masai et al.
JOURNAL OF BACTERIOLOGY (2004)
TIGRFAMs: a protein family resource for the functional identification of proteins
DH Haft et al.
NUCLEIC ACIDS RESEARCH (2001)
Rapid method for coextraction of DNA and RNA from natural environments for analysis of ribosomal DNA- and rRNA-based microbial community composition
RI Griffiths et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2000)
Coexistence of two different O demethylation systems in lignin metabolism by Sphingomonas paucimobilis SYK-6:: Cloning and sequencing of the lignin biphenyl-specific O-demethylase (LigX) gene
T Sonoki et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2000)
The influence of water-rock interaction on the chemistry of thermal springs in western Canada
SE Grasby et al.
APPLIED GEOCHEMISTRY (2000)