Sequence tag–based analysis of microbial population dynamics

Independent Bottlenecks Characterize Colonization of Systemic Compartments and Gut Lymphoid Tissue by Salmonella

(2014) Chee Han Lim et al.   PLoS Pathogens

Tn-Seq Analysis of Vibrio cholerae Intestinal Colonization Reveals a Role for T6SS-Mediated Antibacterial Activity in the Host

(2013) Yang Fu et al.   Cell Host & Microbe

Within-Host Selection Is Limited by an Effective Population of Streptococcus pneumoniae during Nasopharyngeal Colonization

(2013) Yuan Li et al.   INFECTION AND IMMUNITY

Kraken: A set of tools for quality control and analysis of high-throughput sequence data

(2013) Matthew P.A. Davis et al.   METHODS

Lymph Node Colonization Dynamics after Oral Salmonella Typhimurium Infection in Mice

(2013) Patrick Kaiser et al.   PLoS Pathogens

Virus population bottlenecks during within-host progression and host-to-host transmission

(2012) Serafín Gutiérrez et al.   Current Opinion in Virology

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Dynamics of growth and dissemination of Salmonella in vivo

(2010) Kathryn G. Watson et al.   CELLULAR MICROBIOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Back to the Future: Studying Cholera Pathogenesis Using Infant Rabbits

(2010) J. M. Ritchie et al.   mBio

Enzymatic assembly of DNA molecules up to several hundred kilobases

(2009) Daniel G Gibson et al.   NATURE METHODS

Effective population size and patterns of molecular evolution and variation

(2009) Brian Charlesworth   NATURE REVIEWS GENETICS

Modelling within-Host Spatiotemporal Dynamics of Invasive Bacterial Disease

(2008) Andrew J Grant et al.   PLOS BIOLOGY