Construction of a mariner-based transposon vector for use in insertion sequence mutagenesis in selected members of the Rhizobiaceae

Bayesian analysis of gene essentiality based on sequencing of transposon insertion libraries

(2013) Michael A. DeJesus et al.   BIOINFORMATICS

A Hidden Markov Model for identifying essential and growth-defect regions in bacterial genomes from transposon insertion sequencing data

(2013) Michael A DeJesus et al.   BMC BIOINFORMATICS

Identification of Genes Required by Bacillus thuringiensis for Survival in Soil by Transposon-Directed Insertion Site Sequencing

(2013) Alistair H. Bishop et al.   CURRENT MICROBIOLOGY

Transposon insertion sequencing: a new tool for systems-level analysis of microorganisms

(2013) Tim van Opijnen et al.   NATURE REVIEWS MICROBIOLOGY

High-resolution definition of the Vibrio cholerae essential gene set with hidden Markov model–based analyses of transposon-insertion sequencing data

(2013) Michael C. Chao et al.   NUCLEIC ACIDS RESEARCH

Combining Functional and Structural Genomics to Sample the Essential Burkholderia Structome

(2013) Loren Baugh et al.   PLoS One

Identification of T6SS-dependent effector and immunity proteins by Tn-seq in Vibrio cholerae

(2013) T. G. Dong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Approaches to querying bacterial genomes with transposon-insertion sequencing

(2013) Lars Barquist et al.   RNA Biology

The Serum Resistome of a Globally Disseminated Multidrug Resistant Uropathogenic Escherichia coli Clone

(2013) Minh-Duy Phan et al.   PLoS Genetics

A Comprehensive Analysis of In Vitro and In Vivo Genetic Fitness of Pseudomonas aeruginosa Using High-Throughput Sequencing of Transposon Libraries

(2013) David Skurnik et al.   PLoS Pathogens

Gene Fitness Landscapes of Vibrio cholerae at Important Stages of Its Life Cycle

(2013) Heather D. Kamp et al.   PLoS Pathogens

Genome Scanning for Conditionally Essential Genes in Salmonella enterica Serotype Typhimurium

(2012) Anita Khatiwara et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Identification of essential genes of the periodontal pathogen Porphyromonas gingivalis

(2012) Brian A Klein et al.   BMC GENOMICS

High-throughput comparison of gene fitness among related bacteria

(2012) Rocio Canals et al.   BMC GENOMICS

Inability To Catabolize Galactose Leads to Increased Ability To Compete for Nodule Occupancy in Sinorhizobium meliloti

(2012) Barney A. Geddes et al.   JOURNAL OF BACTERIOLOGY

Glycerol utilization by Rhizobium leguminosarum requires an ABC transporter and affects competition for nodulation

(2012) H. Ding et al.   MICROBIOLOGY-SGM

Anomalies of the anaerobic tricarboxylic acid cycle inShewanella oneidensisrevealed by Tn-seq

(2012) Evan D. Brutinel et al.   MOLECULAR MICROBIOLOGY

Global Assessment of Genomic Regions Required for Growth in Mycobacterium tuberculosis

(2012) Yanjia J. Zhang et al.   PLoS Pathogens

Mutation of a Broadly Conserved Operon (RL3499-RL3502) from Rhizobium leguminosarum Biovar viciae Causes Defects in Cell Morphology and Envelope Integrity

(2011) E. M. Vanderlinde et al.   JOURNAL OF BACTERIOLOGY

The essential genome of a bacterium

(2011) B. Christen et al.   Molecular Systems Biology

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Identifying microbial fitness determinants by insertion sequencing using genome-wide transposon mutant libraries

(2011) Andrew L Goodman et al.   Nature Protocols

Genome-Scale Identification of Resistance Functions in Pseudomonas aeruginosa Using Tn-seq

(2011) L. A. Gallagher et al.   mBio

High-Resolution Phenotypic Profiling Defines Genes Essential for Mycobacterial Growth and Cholesterol Catabolism

(2011) Jennifer E. Griffin et al.   PLoS Pathogens

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Plasmid transfer systems in the rhizobia

(2009) Hao Ding et al.   CANADIAN JOURNAL OF MICROBIOLOGY

Identifying Genetic Determinants Needed to Establish a Human Gut Symbiont in Its Habitat

(2009) Andrew L. Goodman et al.   Cell Host & Microbe

Identification of a novel ABC transporter required for desiccation tolerance, and biofilm formation inRhizobium leguminosarumbv.viciae3841

(2009) Elizabeth M. Vanderlinde et al.   FEMS MICROBIOLOGY ECOLOGY

Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants

(2009) G. C. Langridge et al.   GENOME RESEARCH

Rhizobium leguminosarum biovar viciae 3841, deficient in 27-hydroxyoctacosanoate-modified lipopolysaccharide, is impaired in desiccation tolerance, biofilm formation and motility

(2009) E. M. Vanderlinde et al.   MICROBIOLOGY-SGM

Tn-seq: high-throughput parallel sequencing for fitness and genetic interaction studies in microorganisms

(2009) Tim van Opijnen et al.   NATURE METHODS

Tracking insertion mutants within libraries by deep sequencing and a genome-wide screen for Haemophilus genes required in the lung

(2009) J. D. Gawronski et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY