Phylogenetic distribution of potential cellulases in bacteria.

PubWeight™: 1.33‹?› | Rank: Top 10%

🔗 View Article (PMC 3591946)

Published in Appl Environ Microbiol on December 21, 2012

Authors

Renaud Berlemont1, Adam C Martiny

Author Affiliations

1: Department of Earth System Science, University of California, Irvine, CA, USA.

Articles citing this

Occurrence of Priming in the Degradation of Lignocellulose in Marine Sediments. PLoS One (2015) 1.39

Metabolic interdependencies between phylogenetically novel fermenters and respiratory organisms in an unconfined aquifer. ISME J (2014) 1.12

Genomic resolution of linkages in carbon, nitrogen, and sulfur cycling among widespread estuary sediment bacteria. Microbiome (2015) 1.09

Metataxonomic profiling and prediction of functional behaviour of wheat straw degrading microbial consortia. Biotechnol Biofuels (2014) 0.99

Cellulolytic potential under environmental changes in microbial communities from grassland litter. Front Microbiol (2014) 0.99

Metatranscriptomic analysis of arctic peat soil microbiota. Appl Environ Microbiol (2014) 0.94

Potential of cometabolic transformation of polysaccharides and lignin in lignocellulose by soil Actinobacteria. PLoS One (2014) 0.93

Forest harvesting reduces the soil metagenomic potential for biomass decomposition. ISME J (2015) 0.90

Microbial community composition explains soil respiration responses to changing carbon inputs along an Andes-to-Amazon elevation gradient. J Ecol (2014) 0.90

Coupled high-throughput functional screening and next generation sequencing for identification of plant polymer decomposing enzymes in metagenomic libraries. Front Microbiol (2013) 0.90

Genomic potential for polysaccharide deconstruction in bacteria. Appl Environ Microbiol (2015) 0.89

Cellulose and hemicellulose decomposition by forest soil bacteria proceeds by the action of structurally variable enzymatic systems. Sci Rep (2016) 0.86

Microbial response to simulated global change is phylogenetically conserved and linked with functional potential. ISME J (2015) 0.86

Experimental insights into the importance of aquatic bacterial community composition to the degradation of dissolved organic matter. ISME J (2015) 0.85

Metagenomic analysis of microbial consortia enriched from compost: new insights into the role of Actinobacteria in lignocellulose decomposition. Biotechnol Biofuels (2016) 0.84

Nitrogen addition, not initial phylogenetic diversity, increases litter decomposition by fungal communities. Front Microbiol (2015) 0.83

Microbiota Dynamics Associated with Environmental Conditions and Potential Roles of Cellulolytic Communities in Traditional Chinese Cereal Starter Solid-State Fermentation. Appl Environ Microbiol (2015) 0.83

Evolution of High Cellulolytic Activity in Symbiotic Streptomyces through Selection of Expanded Gene Content and Coordinated Gene Expression. PLoS Biol (2016) 0.83

A Phylogenomic Analysis of the Bacterial Phylum Fibrobacteres. Front Microbiol (2016) 0.79

Microbial interactions and community assembly at microscales. Curr Opin Microbiol (2016) 0.78

Unearthing the Ecology of Soil Microorganisms Using a High Resolution DNA-SIP Approach to Explore Cellulose and Xylose Metabolism in Soil. Front Microbiol (2016) 0.77

Natural diversity of cellulases, xylanases, and chitinases in bacteria. Biotechnol Biofuels (2016) 0.77

Initial phylogenetic relatedness of saprotrophic fungal communities affects subsequent litter decomposition rates. Microb Ecol (2014) 0.77

Inference of phenotype-defining functional modules of protein families for microbial plant biomass degraders. Biotechnol Biofuels (2014) 0.77

Decoding the complete arsenal for cellulose and hemicellulose deconstruction in the highly efficient cellulose decomposer Paenibacillus O199. Biotechnol Biofuels (2016) 0.76

Belowground Response to Drought in a Tropical Forest Soil. I. Changes in Microbial Functional Potential and Metabolism. Front Microbiol (2016) 0.76

Lignocellulose-Adapted Endo-Cellulase Producing Streptomyces Strains for Bioconversion of Cellulose-Based Materials. Front Microbiol (2016) 0.76

Cellulose-Enriched Microbial Communities from Leaf-Cutter Ant (Atta colombica) Refuse Dumps Vary in Taxonomic Composition and Degradation Ability. PLoS One (2016) 0.75

Glycoside Hydrolases across Environmental Microbial Communities. PLoS Comput Biol (2016) 0.75

Impact of Phanerochaete chrysosporium on the Functional Diversity of Bacterial Communities Associated with Decaying Wood. PLoS One (2016) 0.75

Forest Soil Bacteria: Diversity, Involvement in Ecosystem Processes, and Response to Global Change. Microbiol Mol Biol Rev (2017) 0.75

BcsZ inhibits biofilm phenotypes and promotes virulence by blocking cellulose production in Salmonella enterica serovar Typhimurium. Microb Cell Fact (2016) 0.75

Multiple cellobiohydrolases and cellobiose phosphorylases cooperate in the ruminal bacterium Ruminococcus albus 8 to degrade cellooligosaccharides. Sci Rep (2016) 0.75

Expression, purification and characterization of an endoglucanase from Serratia proteamaculans CDBB-1961, isolated from the gut of Dendroctonus adjunctus (Coleoptera: Scolytinae). AMB Express (2016) 0.75

Microbial legacies alter decomposition in response to simulated global change. ISME J (2016) 0.75

Temporal and Spatial Variation of Soil Bacteria Richness, Composition, and Function in a Neotropical Rainforest. PLoS One (2016) 0.75

Polysaccharide degradation capability of Actinomycetales soil isolates from a semi-arid grassland of the Colorado Plateau. Appl Environ Microbiol (2017) 0.75

Evidence for Ecological Flexibility in the Cosmopolitan Genus Curtobacterium. Front Microbiol (2016) 0.75

Diversity of microbial carbohydrate-active enzymes in Danish anaerobic digesters fed with wastewater treatment sludge. Biotechnol Biofuels (2017) 0.75

Carbohydrate-active enzymes in Trichoderma harzianum: a bioinformatic analysis bioprospecting for key enzymes for the biofuels industry. BMC Genomics (2017) 0.75

A genomic perspective on stoichiometric regulation of soil carbon cycling. ISME J (2017) 0.75

Articles cited by this

APE: Analyses of Phylogenetics and Evolution in R language. Bioinformatics (2004) 39.31

SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res (2007) 35.65

The Pfam protein families database. Nucleic Acids Res (2011) 33.46

The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes. Nucleic Acids Res (2005) 29.61

The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics. Nucleic Acids Res (2008) 27.83

A classification of glycosyl hydrolases based on amino acid sequence similarities. Biochem J (1991) 14.56

Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy. Nucleic Acids Res (2011) 10.82

Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite. Nature (2007) 7.42

Metagenomic discovery of biomass-degrading genes and genomes from cow rumen. Science (2011) 6.93

How phosphotransferase system-related protein phosphorylation regulates carbohydrate metabolism in bacteria. Microbiol Mol Biol Rev (2006) 6.39

Colloquium paper: resistance, resilience, and redundancy in microbial communities. Proc Natl Acad Sci U S A (2008) 6.29

Structures and mechanisms of glycosyl hydrolases. Structure (1995) 5.96

dbCAN: a web resource for automated carbohydrate-active enzyme annotation. Nucleic Acids Res (2012) 4.91

PATRIC: the comprehensive bacterial bioinformatics resource with a focus on human pathogenic species. Infect Immun (2011) 4.57

Genomics of Actinobacteria: tracing the evolutionary history of an ancient phylum. Microbiol Mol Biol Rev (2007) 4.13

Accessing the SEED genome databases via Web services API: tools for programmers. BMC Bioinformatics (2010) 3.99

Phylogenetic analysis using PHYLIP. Methods Mol Biol (2000) 3.27

FIGfams: yet another set of protein families. Nucleic Acids Res (2009) 3.26

Recent structural insights into the expanding world of carbohydrate-active enzymes. Curr Opin Struct Biol (2005) 3.01

Cellulosomes: highly efficient nanomachines designed to deconstruct plant cell wall complex carbohydrates. Annu Rev Biochem (2010) 2.76

CAZymes Analysis Toolkit (CAT): web service for searching and analyzing carbohydrate-active enzymes in a newly sequenced organism using CAZy database. Glycobiology (2010) 2.76

Stoichiometry of soil enzyme activity at global scale. Ecol Lett (2008) 2.73

Selectivity in mammalian extinction risk and threat types: a new measure of phylogenetic signal strength in binary traits. Conserv Biol (2010) 2.70

Nitrogen fixation island and rhizosphere competence traits in the genome of root-associated Pseudomonas stutzeri A1501. Proc Natl Acad Sci U S A (2008) 2.70

Evolution, substrate specificity and subfamily classification of glycoside hydrolase family 5 (GH5). BMC Evol Biol (2012) 2.54

Molecular biology of cellulose production in bacteria. Res Microbiol (2002) 2.23

The biochemistry and structural biology of plant cell wall deconstruction. Plant Physiol (2010) 2.02

Understanding the biological rationale for the diversity of cellulose-directed carbohydrate-binding modules in prokaryotic enzymes. J Biol Chem (2006) 2.02

Evidence of cellulose metabolism by the giant panda gut microbiome. Proc Natl Acad Sci U S A (2011) 2.00

Phylogenetic conservatism of functional traits in microorganisms. ISME J (2012) 1.92

Microbial diversity of cellulose hydrolysis. Curr Opin Microbiol (2011) 1.86

Regulation of cellulase synthesis in batch and continuous cultures of Clostridium thermocellum. J Bacteriol (2005) 1.67

Differential growth responses of soil bacterial taxa to carbon substrates of varying chemical recalcitrance. Front Microbiol (2011) 1.65

SEED servers: high-performance access to the SEED genomes, annotations, and metabolic models. PLoS One (2012) 1.62

Interactions of bacteria and fungi on decomposing litter: differential extracellular enzyme activities. Ecology (2006) 1.55

A trait-based approach for modelling microbial litter decomposition. Ecol Lett (2012) 1.55

Genome analyses highlight the different biological roles of cellulases. Nat Rev Microbiol (2012) 1.46

Leading a sheltered life: intracellular pathogens and maintenance of vacuolar compartments. Cell Host Microbe (2009) 1.40

Metagenomic mining for microbiologists. ISME J (2011) 1.28

Cellulase kinetics as a function of cellulose pretreatment. Metab Eng (2008) 1.15

Microdiversity of extracellular enzyme genes among sequenced prokaryotic genomes. ISME J (2013) 1.15

How nature can exploit nonspecific catalytic and carbohydrate binding modules to create enzymatic specificity. Proc Natl Acad Sci U S A (2012) 1.14

A cellulose synthase-like protein involved in hyphal tip growth and morphological differentiation in streptomyces. J Bacteriol (2008) 1.12

Enhanced cellulose degradation by targeted integration of a cohesin-fused β-glucosidase into the Clostridium thermocellum cellulosome. Proc Natl Acad Sci U S A (2012) 1.02

Binding characteristics of CebR, the regulator of the ceb operon required for cellobiose/cellotriose uptake in Streptomyces reticuli. FEMS Microbiol Lett (2000) 0.99

Apo- and cellopentaose-bound structures of the bacterial cellulose synthase subunit BcsZ. J Biol Chem (2011) 0.98

Glycoside hydrolases: catalytic base/nucleophile diversity. Biotechnol Bioeng (2010) 0.97

Cellulases: ambiguous nonhomologous enzymes in a genomic perspective. Trends Biotechnol (2011) 0.97

The phosphoenolpyruvate-dependent glucose-phosphotransferase system from Escherichia coli K-12 as the center of a network regulating carbohydrate flux in the cell. Eur J Cell Biol (2011) 0.96

Insights into bacterial cellulose biosynthesis by functional metagenomics on Antarctic soil samples. ISME J (2009) 0.95

Paradoxical conservation of a set of three cellulose-targeting genes in Mycobacterium tuberculosis complex organisms. Microbiology (2010) 0.90

Identification of Streptomyces coelicolor proteins that are differentially expressed in the presence of plant material. Appl Environ Microbiol (2003) 0.88

Articles by these authors

Sequencing genomes from single cells by polymerase cloning. Nat Biotechnol (2006) 7.64

Genomic islands and the ecology and evolution of Prochlorococcus. Science (2006) 5.07

Patterns and implications of gene gain and loss in the evolution of Prochlorococcus. PLoS Genet (2007) 4.25

Present and future global distributions of the marine Cyanobacteria Prochlorococcus and Synechococcus. Proc Natl Acad Sci U S A (2013) 2.34

Prochlorococcus ecotype abundances in the North Atlantic Ocean as revealed by an improved quantitative PCR method. Appl Environ Microbiol (2006) 1.81

Characterization of Prochlorococcus clades from iron-depleted oceanic regions. Proc Natl Acad Sci U S A (2010) 1.49

Temporal dynamics of Prochlorococcus ecotypes in the Atlantic and Pacific oceans. ISME J (2010) 1.44

Microbial abundance and composition influence litter decomposition response to environmental change. Ecology (2013) 1.24

Prevalence of a calcium-based alkaline phosphatase associated with the marine cyanobacterium Prochlorococcus and other ocean bacteria. Environ Microbiol (2011) 1.19

Microdiversity of extracellular enzyme genes among sequenced prokaryotic genomes. ISME J (2013) 1.15

Global distribution and diversity of marine Verrucomicrobia. ISME J (2012) 1.11

Phylogenetic constraints on elemental stoichiometry and resource allocation in heterotrophic marine bacteria. Environ Microbiol (2013) 0.97

Coupled high-throughput functional screening and next generation sequencing for identification of plant polymer decomposing enzymes in metagenomic libraries. Front Microbiol (2013) 0.90

Genomic potential for polysaccharide deconstruction in bacteria. Appl Environ Microbiol (2015) 0.89

Beta diversity of marine bacteria depends on temporal scale. Ecology (2013) 0.88

Development and bias assessment of a method for targeted metagenomic sequencing of marine cyanobacteria. Appl Environ Microbiol (2013) 0.85

Fine-scale temporal variation in marine extracellular enzymes of coastal southern california. Front Microbiol (2012) 0.84

Techniques for quantifying phytoplankton biodiversity. Ann Rev Mar Sci (2014) 0.79

Biogeochemistry. News about nitrogen. Science (2008) 0.77