[HTML][HTML] Phylogeographic reconstruction of a bacterial species with high levels of lateral gene transfer
Background Phylogeographic reconstruction of some bacterial populations is hindered by
low diversity coupled with high levels of lateral gene transfer. A comparison of …
low diversity coupled with high levels of lateral gene transfer. A comparison of …
[HTML][HTML] Pangenome Analysis of Burkholderia pseudomallei: Genome Evolution Preserves Gene Order despite High Recombination Rates
SM Spring-Pearson, JK Stone, A Doyle, CJ Allender… - PLoS …, 2015 - journals.plos.org
The pangenomic diversity in Burkholderia pseudomallei is high, with approximately 5.8% of
the genome consisting of genomic islands. Genomic islands are known hotspots for …
the genome consisting of genomic islands. Genomic islands are known hotspots for …
[HTML][HTML] Genomic islands from five strains of Burkholderia pseudomallei
Background Burkholderia pseudomallei is the etiologic agent of melioidosis, a significant
cause of morbidity and mortality where this infection is endemic. Genomic differences …
cause of morbidity and mortality where this infection is endemic. Genomic differences …
Efficient inference of recent and ancestral recombination within bacterial populations
Prokaryotic evolution is affected by horizontal transfer of genetic material through
recombination. Inference of an evolutionary tree of bacteria thus relies on accurate …
recombination. Inference of an evolutionary tree of bacteria thus relies on accurate …
[HTML][HTML] Tandem repeat regions within the Burkholderia pseudomallei genome and their application for high resolution genotyping
Background The facultative, intracellular bacterium Burkholderia pseudomallei is the
causative agent of melioidosis, a serious infectious disease of humans and animals. We …
causative agent of melioidosis, a serious infectious disease of humans and animals. We …
Recombination produces coherent bacterial species clusters in both core and accessory genomes
Background: Population samples show bacterial genomes can be divided into a core of
ubiquitous genes and accessory genes that are present in a fraction of isolates. The …
ubiquitous genes and accessory genes that are present in a fraction of isolates. The …
Bacterial phylogenetic reconstruction from whole genomes is robust to recombination but demographic inference is not
Phylogenetic inference in bacterial genomics is fundamental to understanding problems
such as population history, antimicrobial resistance, and transmission dynamics. The field …
such as population history, antimicrobial resistance, and transmission dynamics. The field …
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
The emergence of new sequencing technologies has facilitated the use of bacterial whole
genome alignments for evolutionary studies and outbreak analyses. These datasets, of …
genome alignments for evolutionary studies and outbreak analyses. These datasets, of …
Whole genome phylogenies reflect the distributions of recombination rates for many bacterial species
Although recombination is accepted to be common in bacteria, for many species robust
phylogenies with well-resolved branches can be reconstructed from whole genome …
phylogenies with well-resolved branches can be reconstructed from whole genome …
Exploring the concept of clonality in bacteria
BG Spratt - … , Proteomics, and Clinical Bacteriology: Methods and …, 2004 - Springer
Isolates of bacterial species that are indistinguishable in genotype are assigned as a clone,
with the implication that they are descended from the same recent ancestor. Clones are …
with the implication that they are descended from the same recent ancestor. Clones are …