Population Genomics of Early Events in the Ecological Differentiation of Bacteria

Merging Taxonomy with Ecological Population Prediction in a Case Study of Vibrionaceae

(2011) Sarah P. Preheim et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Detection of recombination events in bacterial genomes from large population samples

(2011) Pekka Marttinen et al.   NUCLEIC ACIDS RESEARCH

Structure and Function of MARTX Toxins and Other Large Repetitive RTX Proteins

(2010) Karla J.F. Satchell   Annual Review of Microbiology

Mugsy: fast multiple alignment of closely related whole genomes

(2010) Samuel V. Angiuoli et al.   BIOINFORMATICS

Vibrio chromosomes share common history

(2010) Benjamin C Kirkup et al.   BMC MICROBIOLOGY

O-antigen diversity and lateral transfer of the wbe region among Vibrio splendidus isolates

(2010) Hans Wildschutte et al.   ENVIRONMENTAL MICROBIOLOGY

Inference of Homologous Recombination in Bacteria Using Whole-Genome Sequences

(2010) X. Didelot et al.   GENETICS

AMD biofilms: using model communities to study microbial evolution and ecological complexity in nature

(2010) Vincent J Denef et al.   ISME Journal

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Ecosystem-specific selection pressures revealed through comparative population genomics

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

Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities

(2010) V. J. Denef et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SNP Genotyping Defines Complex Gene-Flow Boundaries Among African Malaria Vector Mosquitoes

(2010) D. E. Neafsey et al.   SCIENCE

SimMLST: simulation of multi-locus sequence typing data under a neutral model

(2009) X. Didelot et al.   BIOINFORMATICS

Inactivation of mismatch repair increases the diversity ofVibrio parahaemolyticus

(2009) Tracy H. Hazen et al.   ENVIRONMENTAL MICROBIOLOGY

An intricate network of regulators controls biofilm formation and colonization byVibrio fischeri

(2009) Karen L. Visick   MOLECULAR MICROBIOLOGY

Genome evolution and adaptation in a long-term experiment with Escherichia coli

(2009) Jeffrey E. Barrick et al.   NATURE

Pebble and Rock Band: Heuristic Resolution of Repeats and Scaffolding in the Velvet Short-Read de Novo Assembler

(2009) Daniel R. Zerbino et al.   PLoS One

Looking for Darwin's footprints in the microbial world

(2009) B. Jesse Shapiro et al.   TRENDS IN MICROBIOLOGY

De novo fragment assembly with short mate-paired reads: Does the read length matter?

(2008) M. J. Chaisson et al.   GENOME RESEARCH

High-throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi

(2008) Kathryn E Holt et al.   NATURE GENETICS

Identifying the fundamental units of bacterial diversity: A paradigm shift to incorporate ecology into bacterial systematics

(2008) A. Koeppel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Resource Partitioning and Sympatric Differentiation Among Closely Related Bacterioplankton

(2008) D. E. Hunt et al.   SCIENCE