Published in BMC Biotechnol on July 03, 2012
Proteogenomic analysis of a thermophilic bacterial consortium adapted to deconstruct switchgrass. PLoS One (2013) 1.08
Metagenomic analysis of a tropical composting operation at the são paulo zoo park reveals diversity of biomass degradation functions and organisms. PLoS One (2013) 0.99
Estimating the success of enzyme bioprospecting through metagenomics: current status and future trends. Microb Biotechnol (2015) 0.93
Metagenomic analysis of microbial consortia enriched from compost: new insights into the role of Actinobacteria in lignocellulose decomposition. Biotechnol Biofuels (2016) 0.84
Comparative analysis of sugarcane bagasse metagenome reveals unique and conserved biomass-degrading enzymes among lignocellulolytic microbial communities. Biotechnol Biofuels (2015) 0.83
Microbial community structure and dynamics in thermophilic composting viewed through metagenomics and metatranscriptomics. Sci Rep (2016) 0.77
Metagenomic and metaproteomic analyses of a corn stover-adapted microbial consortium EMSD5 reveal its taxonomic and enzymatic basis for degrading lignocellulose. Biotechnol Biofuels (2016) 0.76
Improvement in thermostability of metagenomic GH11 endoxylanase (Mxyl) by site-directed mutagenesis and its applicability in paper pulp bleaching process. J Ind Microbiol Biotechnol (2013) 0.76
A multi-substrate approach for functional metagenomics-based screening for (hemi)cellulases in two wheat straw-degrading microbial consortia unveils novel thermoalkaliphilic enzymes. BMC Genomics (2016) 0.76
Discovery of genes coding for carbohydrate-active enzyme by metagenomic analysis of lignocellulosic biomasses. Sci Rep (2017) 0.75
Metagenomics of Thermophiles with a Focus on Discovery of Novel Thermozymes. Front Microbiol (2016) 0.75
Protein production by auto-induction in high density shaking cultures. Protein Expr Purif (2005) 29.74
The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics. Nucleic Acids Res (2008) 27.83
Metagenomic discovery of biomass-degrading genes and genomes from cow rumen. Science (2011) 6.93
Cellulosic biofuels. Annu Rev Plant Biol (2009) 4.00
Xylanases, xylanase families and extremophilic xylanases. FEMS Microbiol Rev (2005) 3.52
Targeted discovery of glycoside hydrolases from a switchgrass-adapted compost community. PLoS One (2010) 2.02
Advances in recovery of novel biocatalysts from metagenomes. J Mol Microbiol Biotechnol (2008) 1.78
Bioprospecting metagenomes: glycosyl hydrolases for converting biomass. Biotechnol Biofuels (2009) 1.52
Metagenomic era for biocatalyst identification. Curr Opin Biotechnol (2010) 1.34
Glycoside hydrolase activities of thermophilic bacterial consortia adapted to switchgrass. Appl Environ Microbiol (2011) 1.26
Purification and characterization of a thermostable beta-xylosidase from Thermoanaerobacter ethanolicus. J Bacteriol (1992) 1.23
Metagenomics and the protein universe. Curr Opin Struct Biol (2011) 1.18
Recent progress and new challenges in metagenomics for biotechnology. Biotechnol Lett (2010) 1.13
Protein engineering in designing tailored enzymes and microorganisms for biofuels production. Curr Opin Biotechnol (2009) 1.08
AS2TS system for protein structure modeling and analysis. Nucleic Acids Res (2005) 1.07
Exploring microbial diversity for biotechnology: the way forward. Trends Biotechnol (2009) 1.07
Metagenomic gene discovery: how far have we moved into novel sequence space? Biotechnol J (2009) 1.03
Diversity of glycosyl hydrolases from cellulose-depleting communities enriched from casts of two earthworm species. Appl Environ Microbiol (2010) 0.95
Biochemical characterization of a novel dual-function arabinofuranosidase/xylosidase isolated from a compost starter mixture. Appl Microbiol Biotechnol (2008) 0.84
An alpha-glucuronidase enzyme activity assay adaptable for solid phase screening. Appl Biochem Biotechnol (2008) 0.82
Phaser crystallographic software. J Appl Crystallogr (2007) 108.34
A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea. Nature (2009) 15.06
Towards automated crystallographic structure refinement with phenix.refine. Acta Crystallogr D Biol Crystallogr (2012) 11.31
The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism. Science (2004) 9.97
Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard. Acta Crystallogr D Biol Crystallogr (2007) 7.72
Deep-sea oil plume enriches indigenous oil-degrading bacteria. Science (2010) 6.73
Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard. Acta Crystallogr D Biol Crystallogr (2009) 6.47
Structural basis for double-stranded RNA processing by Dicer. Science (2006) 5.86
Automated structure solution with the PHENIX suite. Methods Mol Biol (2008) 5.65
Automated ligand fitting by core-fragment fitting and extension into density. Acta Crystallogr D Biol Crystallogr (2006) 5.03
electronic Ligand Builder and Optimization Workbench (eLBOW): a tool for ligand coordinate and restraint generation. Acta Crystallogr D Biol Crystallogr (2009) 4.90
A robust bulk-solvent correction and anisotropic scaling procedure. Acta Crystallogr D Biol Crystallogr (2005) 4.82
SPARX, a new environment for Cryo-EM image processing. J Struct Biol (2006) 4.66
Surprises and pitfalls arising from (pseudo)symmetry. Acta Crystallogr D Biol Crystallogr (2007) 4.44
Application of a high-density oligonucleotide microarray approach to study bacterial population dynamics during uranium reduction and reoxidation. Appl Environ Microbiol (2006) 4.09
Averaged kick maps: less noise, more signal... and probably less bias. Acta Crystallogr D Biol Crystallogr (2009) 3.62
Simultaneous femtosecond X-ray spectroscopy and diffraction of photosystem II at room temperature. Science (2013) 3.60
Robust indexing for automatic data collection. J Appl Crystallogr (2004) 3.51
A single-base resolution map of an archaeal transcriptome. Genome Res (2009) 3.42
A new generation of crystallographic validation tools for the protein data bank. Structure (2011) 3.41
Complete genome sequence of Kytococcus sedentarius type strain (541). Stand Genomic Sci (2009) 3.30
Crystallographic model quality at a glance. Acta Crystallogr D Biol Crystallogr (2009) 3.11
Iterative-build OMIT maps: map improvement by iterative model building and refinement without model bias. Acta Crystallogr D Biol Crystallogr (2008) 3.07
Interpretation of ensembles created by multiple iterative rebuilding of macromolecular models. Acta Crystallogr D Biol Crystallogr (2007) 3.07
Automated modelling of signal transduction networks. BMC Bioinformatics (2002) 2.92
Oil biodegradation and bioremediation: a tale of the two worst spills in U.S. history. Environ Sci Technol (2011) 2.88
Ligand identification using electron-density map correlations. Acta Crystallogr D Biol Crystallogr (2006) 2.82
On macromolecular refinement at subatomic resolution with interatomic scatterers. Acta Crystallogr D Biol Crystallogr (2007) 2.75
Automatic multiple-zone rigid-body refinement with a large convergence radius. J Appl Crystallogr (2009) 2.66
Hydrocarbon-degrading bacteria and the bacterial community response in gulf of Mexico beach sands impacted by the deepwater horizon oil spill. Appl Environ Microbiol (2011) 2.47
The challenge of enzyme cost in the production of lignocellulosic biofuels. Biotechnol Bioeng (2011) 2.47
Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill. ISME J (2012) 2.45
Room temperature femtosecond X-ray diffraction of photosystem II microcrystals. Proc Natl Acad Sci U S A (2012) 2.43
Nanoflow electrospinning serial femtosecond crystallography. Acta Crystallogr D Biol Crystallogr (2012) 2.32
Comparison of dilute acid and ionic liquid pretreatment of switchgrass: Biomass recalcitrance, delignification and enzymatic saccharification. Bioresour Technol (2009) 2.32
Environmental whole-genome amplification to access microbial populations in contaminated sediments. Appl Environ Microbiol (2006) 2.24
Dielectrophoretic concentration and separation of live and dead bacteria in an array of insulators. Anal Chem (2004) 2.22
GeoChip 3.0 as a high-throughput tool for analyzing microbial community composition, structure and functional activity. ISME J (2010) 2.21
Microbial gene functions enriched in the Deepwater Horizon deep-sea oil plume. ISME J (2011) 2.10
The protein structure initiative structural genomics knowledgebase. Nucleic Acids Res (2008) 2.03
Targeted discovery of glycoside hydrolases from a switchgrass-adapted compost community. PLoS One (2010) 2.02
Crystal structure of a bacterial ribonuclease P RNA. Proc Natl Acad Sci U S A (2005) 2.01
Environmental genomics reveals a single-species ecosystem deep within Earth. Science (2008) 1.98
Long-term sustainability of a high-energy, low-diversity crustal biome. Science (2006) 1.97
Engineering microbial biofuel tolerance and export using efflux pumps. Mol Syst Biol (2011) 1.96
Joint X-ray and neutron refinement with phenix.refine. Acta Crystallogr D Biol Crystallogr (2010) 1.80
Role of the gamma-phosphate of ATP in triggering protein folding by GroEL-GroES: function, structure and energetics. EMBO J (2003) 1.78
Synthesis of three advanced biofuels from ionic liquid-pretreated switchgrass using engineered Escherichia coli. Proc Natl Acad Sci U S A (2011) 1.75
Metagenomic insights into evolution of a heavy metal-contaminated groundwater microbial community. ISME J (2010) 1.71
Salt stress in Desulfovibrio vulgaris Hildenborough: an integrated genomics approach. J Bacteriol (2006) 1.68
Insulator-based dielectrophoresis for the selective concentration and separation of live bacteria in water. Electrophoresis (2004) 1.67
Structure of a three-domain sesquiterpene synthase: a prospective target for advanced biofuels production. Structure (2011) 1.67
Use of knowledge-based restraints in phenix.refine to improve macromolecular refinement at low resolution. Acta Crystallogr D Biol Crystallogr (2012) 1.64
From annotated genomes to metabolic flux models and kinetic parameter fitting. OMICS (2003) 1.64
Modelling dynamics in protein crystal structures by ensemble refinement. Elife (2012) 1.62
Deciphering principles of transcription regulation in eukaryotic genomes. Mol Syst Biol (2006) 1.61
Deep-sea bacteria enriched by oil and dispersant from the Deepwater Horizon spill. Environ Microbiol (2012) 1.58
Visualization of biomass solubilization and cellulose regeneration during ionic liquid pretreatment of switchgrass. Biotechnol Bioeng (2009) 1.57
Exploring the structural dynamics of the E.coli chaperonin GroEL using translation-libration-screw crystallographic refinement of intermediate states. J Mol Biol (2004) 1.56
Crystal structure of DNA sequence specificity subunit of a type I restriction-modification enzyme and its functional implications. Proc Natl Acad Sci U S A (2005) 1.54
phenix.mr_rosetta: molecular replacement and model rebuilding with Phenix and Rosetta. J Struct Funct Genomics (2012) 1.53
In vivo lipidomics using single-cell Raman spectroscopy. Proc Natl Acad Sci U S A (2011) 1.53
Pathway confirmation and flux analysis of central metabolic pathways in Desulfovibrio vulgaris hildenborough using gas chromatography-mass spectrometry and Fourier transform-ion cyclotron resonance mass spectrometry. J Bacteriol (2006) 1.40
Influence of physico-chemical changes on enzymatic digestibility of ionic liquid and AFEX pretreated corn stover. Bioresour Technol (2011) 1.39
Succession of hydrocarbon-degrading bacteria in the aftermath of the deepwater horizon oil spill in the gulf of Mexico. Environ Sci Technol (2013) 1.38
The Structural Biology Knowledgebase: a portal to protein structures, sequences, functions, and methods. J Struct Funct Genomics (2011) 1.36
The electron transfer system of syntrophically grown Desulfovibrio vulgaris. J Bacteriol (2009) 1.35
Energetic consequences of nitrite stress in Desulfovibrio vulgaris Hildenborough, inferred from global transcriptional analysis. Appl Environ Microbiol (2006) 1.35
Metagenomic analysis and metabolite profiling of deep-sea sediments from the Gulf of Mexico following the Deepwater Horizon oil spill. Front Microbiol (2013) 1.34
Draft Genome Sequence of the Lignin-Degrading Burkholderia sp. Strain LIG30, Isolated from Wet Tropical Forest Soil. Genome Announc (2014) 1.34
Energy-dispersive X-ray emission spectroscopy using an X-ray free-electron laser in a shot-by-shot mode. Proc Natl Acad Sci U S A (2012) 1.33
PCR amplification-independent methods for detection of microbial communities by the high-density microarray PhyloChip. Appl Environ Microbiol (2011) 1.32
Microbial community analysis of a coastal salt marsh affected by the Deepwater Horizon oil spill. PLoS One (2012) 1.32
Transition of cellulose crystalline structure and surface morphology of biomass as a function of ionic liquid pretreatment and its relation to enzymatic hydrolysis. Biomacromolecules (2011) 1.31
Stochasticity, succession, and environmental perturbations in a fluidic ecosystem. Proc Natl Acad Sci U S A (2014) 1.31
Metabolic engineering of Escherichia coli for limonene and perillyl alcohol production. Metab Eng (2013) 1.31
Analysis of a ferric uptake regulator (Fur) mutant of Desulfovibrio vulgaris Hildenborough. Appl Environ Microbiol (2007) 1.31
Enhancing fatty acid production by the expression of the regulatory transcription factor FadR. Metab Eng (2012) 1.30
Molecular dynamics applied to X-ray structure refinement. Acc Chem Res (2002) 1.30
Targeted proteomics for metabolic pathway optimization: application to terpene production. Metab Eng (2011) 1.29
Graphical tools for macromolecular crystallography in PHENIX. J Appl Crystallogr (2012) 1.28
Engineering dynamic pathway regulation using stress-response promoters. Nat Biotechnol (2013) 1.27
Crystal structures of a group II chaperonin reveal the open and closed states associated with the protein folding cycle. J Biol Chem (2010) 1.26
Improved low-resolution crystallographic refinement with Phenix and Rosetta. Nat Methods (2013) 1.26
Isolation and proteomic characterization of the Arabidopsis Golgi defines functional and novel components involved in plant cell wall biosynthesis. Plant Physiol (2012) 1.26
Glycoside hydrolase activities of thermophilic bacterial consortia adapted to switchgrass. Appl Environ Microbiol (2011) 1.26
Coupling of receptor conformation and ligand orientation determine graded activity. Nat Chem Biol (2010) 1.25
Characterization of coastal urban watershed bacterial communities leads to alternative community-based indicators. PLoS One (2010) 1.24
Complete genome sequence of "Enterobacter lignolyticus" SCF1. Stand Genomic Sci (2011) 1.24
High-resolution structure of RNase P protein from Thermotoga maritima. Proc Natl Acad Sci U S A (2003) 1.23
Phaser.MRage: automated molecular replacement. Acta Crystallogr D Biol Crystallogr (2013) 1.20
Automated crystallographic ligand building using the medial axis transform of an electron-density isosurface. Acta Crystallogr D Biol Crystallogr (2005) 1.19
Automatic solution of heavy-atom substructures. Methods Enzymol (2003) 1.18
An insulator-based (electrodeless) dielectrophoretic concentrator for microbes in water. J Microbiol Methods (2005) 1.18
phenix.model_vs_data: a high-level tool for the calculation of crystallographic model and data statistics. J Appl Crystallogr (2010) 1.18