Related references
Note: Only part of the references are listed.Simulating metagenomic stable isotope probing datasets with MetaSIPSim
Samuel E. Barnett et al.
BMC BIOINFORMATICS (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)
Characterizing the Key Agents in a Disease-Suppressed Soil Managed by Reductive Soil Disinfestation
Liangliang Liu et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2019)
Assessing fungal contributions to cellulose degradation in soil by using high-throughput stable isotope probing
Chantal Koechli et al.
SOIL BIOLOGY & BIOCHEMISTRY (2019)
Modular Assembly of Polysaccharide-Degrading Marine Microbial Communities
Tim N. Enke et al.
CURRENT BIOLOGY (2019)
Vibrio cholerae filamentation promotes chitin surface attachment at the expense of competition in biofilms
Benjamin R. Wucher et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019)
Universality of priming effect: An analysis using thirty five soils with contrasted properties sampled from five continents
Nazia Perveen et al.
SOIL BIOLOGY & BIOCHEMISTRY (2019)
Cooperation and spatial self-organization determine rate and efficiency of particulate organic matter degradation in marine bacteria
Ali Ebrahimi et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019)
Selfish, sharing and scavenging bacteria in the Atlantic Ocean: a biogeographical study of bacterial substrate utilisation
Greta Reintjes et al.
ISME JOURNAL (2019)
KBase: The United States Department of Energy Systems Biology Knowledgebase
Adam P. Arkin et al.
NATURE BIOTECHNOLOGY (2018)
HTSSIP: An R package for analysis of high throughput sequencing data from nucleic acid stable isotope probing (SIP) experiments
Nicholas D. Youngblut et al.
PLOS ONE (2018)
On the maverick Planctomycetes
Sandra Wiegand et al.
FEMS MICROBIOLOGY REVIEWS (2018)
MATAM: reconstruction of phylogenetic marker genes from short sequencing reads in metagenomes
Pierre Pericard et al.
BIOINFORMATICS (2018)
A Rhizobiales-Specific Unipolar Polysaccharide Adhesin Contributes to Rhodopseudomonas palustris Biofilm Formation across Diverse Photoheterotrophic Conditions
Ryan K. Fritts et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2017)
The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters
Kai Blin et al.
NUCLEIC ACIDS RESEARCH (2017)
Genome reduction in an abundant and ubiquitous soil bacterium 'Candidatus Udaeobacter copiosus'
Tess E. Brewer et al.
NATURE MICROBIOLOGY (2017)
Long-Term Enrichment of Stress-Tolerant Cellulolytic Soil Populations following Timber Harvesting Evidenced by Multi-Omic Stable Isotope Probing
Roland C. Wilhelm et al.
FRONTIERS IN MICROBIOLOGY (2017)
The Arbuscular Mycorrhizal Fungus Funneliformis mosseae Alters Bacterial Communities in Subtropical Forest Soils during Litter Decomposition
Heng Gui et al.
FRONTIERS IN MICROBIOLOGY (2017)
Temporal Dynamics of Soil Microbial Communities below the Seedbed under Two Contrasting Tillage Regimes
Florine Degrune et al.
FRONTIERS IN MICROBIOLOGY (2017)
Microbial Volatiles: Small Molecules with an Important Role in Infra- and Inter-Kingdom Interactions
Kristin Schulz-Bohm et al.
FRONTIERS IN MICROBIOLOGY (2017)
Metagenome-Wide Association Study and Machine Learning Prediction of Bulk Soil Microbiome and Crop Productivity
Hao-Xun Chang et al.
FRONTIERS IN MICROBIOLOGY (2017)
Tracking microbial colonization in fecal microbiota transplantation experiments via genome-resolved metagenomics
Sonny T. M. Lee et al.
MICROBIOME (2017)
Ecophysiology of Freshwater Verrucomicrobia Inferred from Metagenome-Assembled Genomes
Shaomei He et al.
MSPHERE (2017)
Long-term no-till: A major driver of fungal communities in dryland wheat cropping systems
Dipak Sharma-Poudyal et al.
PLOS ONE (2017)
Optimization of cold-active CMCase production by psychrotrophic Sphingomonas sp FLX-7 from the cold region of China
Dapeng Li et al.
CELLULOSE (2016)
Evolution of High Cellulolytic Activity in Symbiotic Streptomyces through Selection of Expanded Gene Content and Coordinated Gene Expression
Adam J. Book et al.
PLOS BIOLOGY (2016)
MEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data
Daniel H. Huson et al.
PLOS COMPUTATIONAL BIOLOGY (2016)
Resource Partitioning between Bacteria, Fungi, and Protists in the Detritusphere of an Agricultural Soil
Susanne Kramer et al.
FRONTIERS IN MICROBIOLOGY (2016)
Unearthing the Ecology of Soil Microorganisms Using a High Resolution DNA-SIP Approach to Explore Cellulose and Xylose Metabolism in Soil
Charles Pepe-Ranney et al.
FRONTIERS IN MICROBIOLOGY (2016)
Stable-Isotope Probing Identifies Uncultured Planctomycetes as Primary Degraders of a Complex Heteropolysaccharide in Soil
Xiaoqing Wang et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2015)
MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph
Dinghua Li et al.
BIOINFORMATICS (2015)
Biodegradation of cellulosic and lignocellulosic waste by Pseudoxanthomonas sp R-28
Mohit Kumar et al.
CARBOHYDRATE POLYMERS (2015)
Sphingomonas gei sp nov., isolated from roots of Geum aleppicum
Lingfang Zhu et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2015)
Auxotrophy and intrapopulation complementary in the interactome' of a cultivated freshwater model community
Sarahi L. Garcia et al.
MOLECULAR ECOLOGY (2015)
The contentious nature of soil organic matter
Johannes Lehmann et al.
NATURE (2015)
Insight into Dominant Cellulolytic Bacteria from Two Biogas Digesters and Their Glycoside Hydrolase Genes
Yongjun Wei et al.
PLOS ONE (2015)
The mysterious nature of bacterial surface (gliding) motility: A focal adhesion-based mechanism in Myxococcus xanthus
Salim T. Islam et al.
SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY (2015)
Back from the dead; the curious tale of the predatory cyanobacterium Vampirovibrio chlorellavorus
Rochelle M. Soo et al.
PEERJ (2015)
MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities
Dongwan D. Kang et al.
PEERJ (2015)
Efficacy of Chaetomium Species as Biological Control Agents against Phytophthora nicotianae Root Rot in Citrus
Phung Manh Hung et al.
MYCOBIOLOGY (2015)
Fast and sensitive protein alignment using DIAMOND
Benjamin Buchfink et al.
NATURE METHODS (2015)
Draft Genome Sequence of Herpetosiphon geysericola GC-42, a Nonphototrophic Member of the Chloroflexi Class Chloroflexia
Lewis M. Ward et al.
GENOME ANNOUNCEMENTS (2015)
Characterization of a Planctomycetal Organelle: a Novel Bacterial Microcompartment for the Aerobic Degradation of Plant Saccharides
Onur Erbilgin et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2014)
Nonpareil: a redundancy-based approach to assess the level of coverage in metagenomic datasets
Luis M. Rodriguez-R et al.
BIOINFORMATICS (2014)
Explaining microbial genomic diversity in light of evolutionary ecology
Otto X. Cordero et al.
NATURE REVIEWS MICROBIOLOGY (2014)
Intra-genomic variation in G plus C content and its implications for DNA stable isotope probing
Nicholas D. Youngblut et al.
ENVIRONMENTAL MICROBIOLOGY REPORTS (2014)
Multisubstrate Isotope Labeling and Metagenomic Analysis of Active Soil Bacterial Communities
Y. Verastegui et al.
MBIO (2014)
Improved Assemblies Using a Source-Agnostic Pipeline for MetaGenomic Assembly by Merging (MeGAMerge) of Contigs
Matthew Scholz et al.
SCIENTIFIC REPORTS (2014)
Cellulolytic Bacteria Associated with the Gut of Dendroctonus armandi Larvae ( Coleoptera: Curculionidae: Scolytinae)
Xia Hu et al.
FORESTS (2014)
Planctomycetes and rnacroalgae, a striking association
Olga M. Lage et al.
FRONTIERS IN MICROBIOLOGY (2014)
From genome mining to phenotypic microarrays: Planctomycetes as source for novel bioactive molecules
Olga Jeske et al.
ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY (2013)
Phylogenetic Distribution of Potential Cellulases in Bacteria
Renaud Berlemont et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2013)
QUAST: quality assessment tool for genome assemblies
Alexey Gurevich et al.
BIOINFORMATICS (2013)
Infernal 1.1: 100-fold faster RNA homology searches
Eric P. Nawrocki et al.
BIOINFORMATICS (2013)
Cellulose degradation by one mesophilic strain Caulobacter sp FMC1 under both aerobic and anaerobic conditions
Na Song et al.
BIORESOURCE TECHNOLOGY (2013)
Asticcacaulis solisilvae sp nov., isolated from forest soil
Seil Kim et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2013)
Phylogenetic conservatism of functional traits in microorganisms
Adam C. Martiny et al.
ISME JOURNAL (2013)
Agricultural Management and Labile Carbon Additions Affect Soil Microbial Community Structure and Interact with Carbon and Nitrogen Cycling
Sean T. Berthrong et al.
MICROBIAL ECOLOGY (2013)
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
Paul J. McMurdie et al.
PLOS ONE (2013)
Helical flow of surface protein required for bacterial gliding motility
Daisuke Nakane et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)
Identification of Cellulose-Responsive Bacterial and Fungal Communities in Geographically and Edaphically Different Soils by Using Stable Isotope Probing
Stephanie A. Eichorst et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2012)
A review of lignocellulose bioconversion using enzymatic hydrolysis and synergistic cooperation between enzymes-Factors affecting enzymes, conversion and synergy
J. S. Van Dyk et al.
BIOTECHNOLOGY ADVANCES (2012)
Cellulose utilization in forest litter and soil: identification of bacterial and fungal decomposers
Martina Stursova et al.
FEMS MICROBIOLOGY ECOLOGY (2012)
Syntrophic metabolism of a co-culture containing Clostridium cellulolyticum and Rhodopseudomonas palustris for hydrogen production
Yongqin Jiao et al.
INTERNATIONAL JOURNAL OF HYDROGEN ENERGY (2012)
Reclassification and emended description of Caulobacter leidyi as Sphingomonas leidyi comb. nov., and emendation of the genus Sphingomonas
Hong Chen et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2012)
Flavobacterium johnsoniae RemA Is a Mobile Cell Surface Lectin Involved in Gliding
Abhishek Shrivastava et al.
JOURNAL OF BACTERIOLOGY (2012)
Role of Rhizobium endoglucanase CelC2 in cellulose biosynthesis and biofilm formation on plant roots and abiotic surfaces
M. Robledo et al.
MICROBIAL CELL FACTORIES (2012)
MEROPS: the database of proteolytic enzymes, their substrates and inhibitors
Neil D. Rawlings et al.
NUCLEIC ACIDS RESEARCH (2012)
Unravelling Soil Fungal Communities from Different Mediterranean Land-Use Backgrounds
Alberto Orgiazzi et al.
PLOS ONE (2012)
Biodiversity characterization of cellulolytic bacteria present on native Chaco soil by comparison of ribosomal RNA genes
Paola Talia et al.
RESEARCH IN MICROBIOLOGY (2012)
The Black Queen Hypothesis: Evolution of Dependencies through Adaptive Gene Loss
J. Jeffrey Morris et al.
MBIO (2012)
Diversity of Glycosyl Hydrolases from Cellulose-Depleting Communities Enriched from Casts of Two Earthworm Species
Ana Beloqui et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2010)
Metabolic responses of novel cellulolytic and saccharolytic agricultural soil Bacteria to oxygen
Stefanie Schellenberger et al.
ENVIRONMENTAL MICROBIOLOGY (2010)
Broad-spectrum antibiotic resistance of Planctomycetes organisms determined by Etest
C. Cayrou et al.
JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY (2010)
High-throughput generation, optimization and analysis of genome-scale metabolic models
Christopher S. Henry et al.
NATURE BIOTECHNOLOGY (2010)
Evolutionary Systems Biology of Amino Acid Biosynthetic Cost in Yeast
Michael D. Barton et al.
PLOS ONE (2010)
The Systemic Imprint of Growth and Its Uses in Ecological (Meta) Genomics
Sara Vieira-Silva et al.
PLOS GENETICS (2010)
Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities
Patrick D. Schloss et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2009)
Universal and species-specific bacterial 'fungiphiles' in the mycospheres of different basidiomycetous fungi
J. A. Warmink et al.
ENVIRONMENTAL MICROBIOLOGY (2009)
The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics
Brandi L. Cantarel et al.
NUCLEIC ACIDS RESEARCH (2009)
Impact of white-rot fungi on numbers and community composition of bacteria colonizing beech wood from forest soil
Larissa B. Folman et al.
FEMS MICROBIOLOGY ECOLOGY (2008)
The use of kapok fibres for enrichment cultures of lignocellulose-degrading bacteria
Thomas Nilsson et al.
INTERNATIONAL BIODETERIORATION & BIODEGRADATION (2008)
SILVA:: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
Elmar Pruesse et al.
NUCLEIC ACIDS RESEARCH (2007)
Complete genome sequence of the myxobacterium Sorangium cellulosum
Susanne Schneiker et al.
NATURE BIOTECHNOLOGY (2007)
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
Qiong Wang et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2007)
Identification of cellulolytic bacteria in soil by stable isotope probing
Feth el Zahar Haichar et al.
ENVIRONMENTAL MICROBIOLOGY (2007)
Plant Carbohydrate Scavenging through TonB-Dependent Receptors: A Feature Shared by Phytopathogenic and Aquatic Bacteria
Servane Blanvillain et al.
PLOS ONE (2007)
Devosia soli sp nov., isolated from greenhouse soil in Korea
Seung-Hee Yoo et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2006)
Carbohydrate binding modules: Biochemical properties and novel applications
Oded Shoseyov et al.
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS (2006)
Cellobiose dehydrogenase formation by filamentous fungus Chaetomium sp INBI 2-26(-)
LG Vasil'chenko et al.
JOURNAL OF BIOTECHNOLOGY (2005)
Energy constraints on the evolution of gene expression
A Wagner
MOLECULAR BIOLOGY AND EVOLUTION (2005)
Identification of a 349-kilodalton protein (Gli349) responsible for cytadherence and glass binding during gliding of Mycoplasma mobile
A Uenoyama et al.
JOURNAL OF BACTERIOLOGY (2004)
Effective cellulose degradation by a mixed-culture system composed of a cellulolytic Clostridium and aerobic non-cellulolytic bacteria
S Kato et al.
FEMS MICROBIOLOGY ECOLOGY (2004)
Cellulosomes: Plant-cell-wall-degrading enzyme complexes
RH Doi et al.
NATURE REVIEWS MICROBIOLOGY (2004)
Functional redundancy supports biodiversity and ecosystem function in a closed and constant environment
DL Wohl et al.
ECOLOGY (2004)
Versatile and open software for comparing large genomes
S Kurtz et al.
GENOME BIOLOGY (2004)
Proteomic analysis of the Caulobacter crescentus stalk indicates competence for nutrient uptake
MME Ireland et al.
MOLECULAR MICROBIOLOGY (2002)
Cloning, sequencing and overexpression of a Sinorhizobium meliloti M5N1CS carboxymethyl-cellulase gene
P Michaud et al.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2002)
Occurrence of novel verrucomicrobial species, endosymbiotic and associated with parthenogenesis in Xiphinema americanum-group species (Nematoda, Longidoridae)
TTM Vandekerckhove et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2000)
The COG database: a tool for genome-scale analysis of protein functions and evolution
RL Tatusov et al.
NUCLEIC ACIDS RESEARCH (2000)
Share Paper
