ArticleBMC evolutionary biology2009
Genome wide evolutionary analyses reveal serotype specific patterns of positive selection in selected Salmonella serotypes.
Article in BMC evolutionary biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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Who cites it
42 citing papers in PubMed, 77 citations in OpenAlex.
- Multidrug Resistance and Virulence Traits ofAntibiotics (Basel, Switzerland) · 2025Article
- A genome-wide scan of wastewater E. coli for genes under positive selection: focusing on mechanisms of antibiotic resistance.Scientific reports · 2022Article
- Two homologous Salmonella serogroup C1-specific genes are required for flagellar motility and cell invasion.BMC genomics · 2021Article
- Genome-Wide Analysis of Nubian Ibex Reveals Candidate Positively Selected Genes That Contribute to Its Adaptation to the Desert Environment.Animals : an open access journal from MDPI · 2020Article
- Characterization ofFrontiers in genetics · 2020Article
- Serotype-specific evolutionary patterns of antimicrobial-resistant Salmonella enterica.BMC evolutionary biology · 2019Article
- Identification of positively selected genes in human pathogenic treponemes: Syphilis-, yaws-, and bejel-causing strains differ in sets of genes showing adaptive evolution.PLoS neglected tropical diseases · 2019Article
- Genomic analysis of Leptospira interrogans serovar Paidjan and Dadas isolates from carrier dogs and comparative genomic analysis to detect genes under positive selection.BMC genomics · 2019Article
- PosiGene: automated and easy-to-use pipeline for genome-wide detection of positively selected genes.Nucleic acids research · 2017Article
- Phenotypic and Genotypic Eligible Methods forFrontiers in microbiology · 2017Review
- Genome-Wide Analyses Reveal Genes Subject to Positive Selection inFrontiers in microbiology · 2017Article
- Changes in selective pressures associated with human population expansion may explain metabolic and immune related pathways enriched for signatures of positive selection.BMC genomics · 2016Article
- The Landscape of Realized Homologous Recombination in Pathogenic Bacteria.Molecular biology and evolution · 2016Article
- Article
- Allelic variation contributes to bacterial host specificity.Nature communications · 2015Article
- Prevalence of Antimicrobial Resistant and Virulent Salmonella spp. in Treated Effluent and Receiving Aquatic Milieu of Wastewater Treatment Plants in Durban, South Africa.International journal of environmental research and public health · 2015Article
- POTION: an end-to-end pipeline for positive Darwinian selection detection in genome-scale data through phylogenetic comparison of protein-coding genes.BMC genomics · 2015Article
- Allelic variation in Salmonella: an underappreciated driver of adaptation and virulence.Frontiers in microbiology · 2014Review
- A genome-wide identification of genes undergoing recombination and positive selection in Neisseria.BioMed research international · 2014Article
- SYBR®Green qPCR Salmonella detection system allowing discrimination at the genus, species and subspecies levels.Applied microbiology and biotechnology · 2013Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
backgroundThe bacterium Salmonella enterica includes a diversity of serotypes that cause disease in humans and different animal species. Some Salmonella serotypes show a broad host range, some are host restricted and exclusively associated with one particular host, and some are associated with one particular host species, but able to cause disease in other host species and are thus considered "host adapted". Five Salmonella genome sequences, representing a broad host range serotype (Typhimurium), two host restricted serotypes (Typhi [two genomes] and Paratyphi) and one host adapted serotype (Choleraesuis) were used to identify core genome genes that show evidence for recombination and positive selection.
resultsOverall, 3323 orthologous genes were identified in all 5 Salmonella genomes analyzed. Use of four different methods to assess homologous recombination identified 270 genes that showed evidence for recombination with at least one of these methods (false discovery rate [FDR] <10%). After exclusion of genes with evidence for recombination, site and branch specific models identified 41 genes as showing evidence for positive selection (FDR <20%), including a number of genes with confirmed or likely roles in virulence and ompC, a gene encoding an outer membrane protein, which has also been found to be under positive selection in other bacteria. A total of 8, 16, 7, and 5 genes showed evidence for positive selection in Choleraesuis, Typhi, Typhimurium, and Paratyphi branch analyses, respectively. Sequencing and evolutionary analyses of four genes in an additional 42 isolates representing 23 serotypes confirmed branch specific positive selection and recombination patterns.
conclusionOur data show that, among the four serotypes analyzed, (i) less than 10% of Salmonella genes in the core genome show evidence for homologous recombination, (ii) a number of Salmonella genes are under positive selection, including genes that appear to contribute to virulence, and (iii) branch specific positive selection contributes to the evolution of host restricted Salmonella serotypes.
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