New Insights into Clostridia Through Comparative Analyses of Their 40 Genomes

An integrated toolkit for accurate prediction and analysis of cis-regulatory motifs at a genome scale

(2013) Qin Ma et al.   BIOINFORMATICS

Complete Genome Sequence of Clostridium sp. Strain BNL1100, a Cellulolytic Mesophile Isolated from Corn Stover

(2012) L.-L. Li et al.   JOURNAL OF BACTERIOLOGY

dbCAN: a web resource for automated carbohydrate-active enzyme annotation

(2012) Yanbin Yin et al.   NUCLEIC ACIDS RESEARCH

Physical descriptions of the bacterial nucleoid at large scales, and their biological implications

(2012) Vincenzo G Benza et al.   REPORTS ON PROGRESS IN PHYSICS

Improved similarity scores for comparing motifs

(2011) Emi Tanaka et al.   BIOINFORMATICS

Comparative genomic and transcriptomic analysis revealed genetic characteristics related to solvent formation and xylose utilization in Clostridium acetobutylicum EA 2018

(2011) Shiyuan Hu et al.   BMC GENOMICS

Clostridium botulinum group III: a group with dual identity shaped by plasmids, phages and mobile elements

(2011) Hanna Skarin et al.   BMC GENOMICS

Single-nucleotide resolution analysis of the transcriptome structure of Clostridium beijerinckii NCIMB 8052 using RNA-Seq

(2011) Yi Wang et al.   BMC GENOMICS

Transcriptomic analysis of Clostridium thermocellum ATCC 27405 cellulose fermentation

(2011) Babu Raman et al.   BMC MICROBIOLOGY

Clostridia: the importance of their exceptional substrate and metabolite diversity for biofuel and biorefinery applications

(2011) Bryan P Tracy et al.   CURRENT OPINION IN BIOTECHNOLOGY

Complete Genome Sequence of the Proteolytic Clostridium botulinum Type A5 (B3') Strain H04402 065

(2011) A. T. Carter et al.   JOURNAL OF BACTERIOLOGY

Complete Genome Sequence of the Cellulolytic Thermophile Clostridium thermocellum DSM1313

(2011) L. Feinberg et al.   JOURNAL OF BACTERIOLOGY

Complete Genomic Sequence of the O-Desmethylangolensin-Producing Bacterium Clostridium rRNA Cluster XIVa Strain SY8519, Isolated from Adult Human Intestine

(2011) S.-i. Yokoyama et al.   JOURNAL OF BACTERIOLOGY

Complete Genome Sequence of the Cellulose-Degrading Bacterium Cellulosilyticum lentocellum

(2011) D. A. Miller et al.   JOURNAL OF BACTERIOLOGY

Complete Genome Sequence of Clostridium acetobutylicum DSM 1731, a Solvent-Producing Strain with Multireplicon Genome Architecture

(2011) G. Bao et al.   JOURNAL OF BACTERIOLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

The Genomes OnLine Database (GOLD) v.4: status of genomic and metagenomic projects and their associated metadata

(2011) I. Pagani et al.   NUCLEIC ACIDS RESEARCH

KOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases

(2011) Chen Xie et al.   NUCLEIC ACIDS RESEARCH

Comparative genomics of the mesophilic cellulosome‐producingClostridium cellulovoransand its application to biofuel production via consolidated bioprocessing

(2010) Yutaka Tamaru et al.   ENVIRONMENTAL TECHNOLOGY

Sequencing of Multiple Clostridial Genomes Related to Biomass Conversion and Biofuel Production

(2010) C. L. Hemme et al.   JOURNAL OF BACTERIOLOGY

Bacterial nucleoid-associated proteins, nucleoid structure and gene expression

(2010) Shane C. Dillon et al.   NATURE REVIEWS MICROBIOLOGY

A new framework for identifying cis-regulatory motifs in prokaryotes

(2010) Guojun Li et al.   NUCLEIC ACIDS RESEARCH

Evolutionary dynamics of Clostridium difficile over short and long time scales

(2010) M. He et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Clostridium ljungdahlii represents a microbial production platform based on syngas

(2010) M. Kopke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparison of the mesophilic cellulosome-producing Clostridium cellulovorans genome with other cellulosome-related clostridial genomes

(2010) Yutaka Tamaru et al.   Microbial Biotechnology

Clostridium clariflavum sp. nov. and Clostridium caenicola sp. nov., moderately thermophilic, cellulose-/cellobiose-digesting bacteria isolated from methanogenic sludge

(2009) H. Shiratori et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Genome Sequence of the Cellulosome-Producing Mesophilic Organism Clostridium cellulovorans 743B

(2009) Y. Tamaru et al.   JOURNAL OF BACTERIOLOGY

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Estimating the size of the bacterial pan-genome

(2009) Pascal Lapierre et al.   TRENDS IN GENETICS

Effects of dependence in high-dimensional multiple testing problems

(2008) Kyung In Kim et al.   BMC BIOINFORMATICS

From cellulosomes to cellulosomics

(2008) Edward A. Bayer et al.   CHEMICAL RECORD

DOOR: a database for prokaryotic operons

(2008) Fenglou Mao et al.   NUCLEIC ACIDS RESEARCH

The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics

(2008) B. L. Cantarel et al.   NUCLEIC ACIDS RESEARCH

The genome of Clostridium kluyveri, a strict anaerobe with unique metabolic features

(2008) H. Seedorf et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA