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Analysis of Multiple Brachyspira hyodysenteriae Genomes Confirms That the Species Is Relatively Conserved but Has Potentially Important Strain Variation.

Black M, Moolhuijzen P, Barrero R, La T, Phillips N, Hampson D, Herbst W, Barth S, Bellgard M - PLoS ONE (2015)

Bottom Line: The result is a global comparative genomic analysis of B. hyodysenteriae genomes revealing potential differential phenotypic markers for numerous strains.Despite the differences found, the genomes were less varied than those of the related pathogenic species Brachyspira pilosicoli, and the analysis supports the clonal nature of the species.This is the first intra-species B. hyodysenteriae comparative genomic analysis.

View Article: PubMed Central - PubMed

Affiliation: Centre for Comparative Genomics, Murdoch University, Murdoch, Western Australia, Australia.

ABSTRACT
The intestinal spirochete Brachyspira hyodysenteriae is an important pathogen in swine, causing mucohemorrhagic colitis in a disease known as swine dysentery. Based on the detection of significant linkage disequilibrium in multilocus sequence data, the species is considered to be clonal. An analysis of the genome sequence of Western Australian B. hyodysenteriae strain WA1 has been published, and in the current study 19 further strains from countries around the world were sequenced with Illumina technology. The genomes were assembled and aligned to over 97.5% of the reference WA1 genome at a percentage sequence identity better than 80%. Strain regions not aligned to the reference ranged between 0.2 and 2.5%. Clustering of the strain genes found on average 2,354 (88%) core genes, 255 (8.6%) ancillary genes and 77 (2.9%) unique genes per strain. Depending on the strain the proportion of genes with 100% sequence identity to WA1 ranged from 85% to 20%. The result is a global comparative genomic analysis of B. hyodysenteriae genomes revealing potential differential phenotypic markers for numerous strains. Despite the differences found, the genomes were less varied than those of the related pathogenic species Brachyspira pilosicoli, and the analysis supports the clonal nature of the species. From this study, a public genome resource has been created that will serve as a repository for further genetic and phenotypic studies of these important porcine bacteria. This is the first intra-species B. hyodysenteriae comparative genomic analysis.

No MeSH data available.


Related in: MedlinePlus

Protein similarity matrix showing 19 B. hyodysenteriae strains and the WA1 reference strain.Reading top to bottom, column by column, the matrix displays the percentage of homologous proteins between strains and on the diagonal the percentage of paralogous proteins (multiple copies of a protein) within the strain. Circled boxes represent the MLST sub-cluster of WA1, NSW5, Vic2 and Q17.
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pone.0131050.g005: Protein similarity matrix showing 19 B. hyodysenteriae strains and the WA1 reference strain.Reading top to bottom, column by column, the matrix displays the percentage of homologous proteins between strains and on the diagonal the percentage of paralogous proteins (multiple copies of a protein) within the strain. Circled boxes represent the MLST sub-cluster of WA1, NSW5, Vic2 and Q17.

Mentions: The protein matrix analysis of the 20 B. hyodysenteriae proteomes (19 new strains plus the reference WA1 proteome) largely mirrored the MLST results, but with some significant differences (Fig 5). One difference was the close clustering of ST265 with other B. hyodysenteriae strains despite the anomaly found in the MLST analysis. This supports the fact that ST265 is a strain of B. hyodysenteriae that has an alp gene that may have been horizontally transferred from another Brachyspira species. This is not a unique observation, as previously alleles of five other genes used in MLST have been deduced to have been transmitted between strains of Brachyspira species isolated from pigs [32].


Analysis of Multiple Brachyspira hyodysenteriae Genomes Confirms That the Species Is Relatively Conserved but Has Potentially Important Strain Variation.

Black M, Moolhuijzen P, Barrero R, La T, Phillips N, Hampson D, Herbst W, Barth S, Bellgard M - PLoS ONE (2015)

Protein similarity matrix showing 19 B. hyodysenteriae strains and the WA1 reference strain.Reading top to bottom, column by column, the matrix displays the percentage of homologous proteins between strains and on the diagonal the percentage of paralogous proteins (multiple copies of a protein) within the strain. Circled boxes represent the MLST sub-cluster of WA1, NSW5, Vic2 and Q17.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4476648&req=5

pone.0131050.g005: Protein similarity matrix showing 19 B. hyodysenteriae strains and the WA1 reference strain.Reading top to bottom, column by column, the matrix displays the percentage of homologous proteins between strains and on the diagonal the percentage of paralogous proteins (multiple copies of a protein) within the strain. Circled boxes represent the MLST sub-cluster of WA1, NSW5, Vic2 and Q17.
Mentions: The protein matrix analysis of the 20 B. hyodysenteriae proteomes (19 new strains plus the reference WA1 proteome) largely mirrored the MLST results, but with some significant differences (Fig 5). One difference was the close clustering of ST265 with other B. hyodysenteriae strains despite the anomaly found in the MLST analysis. This supports the fact that ST265 is a strain of B. hyodysenteriae that has an alp gene that may have been horizontally transferred from another Brachyspira species. This is not a unique observation, as previously alleles of five other genes used in MLST have been deduced to have been transmitted between strains of Brachyspira species isolated from pigs [32].

Bottom Line: The result is a global comparative genomic analysis of B. hyodysenteriae genomes revealing potential differential phenotypic markers for numerous strains.Despite the differences found, the genomes were less varied than those of the related pathogenic species Brachyspira pilosicoli, and the analysis supports the clonal nature of the species.This is the first intra-species B. hyodysenteriae comparative genomic analysis.

View Article: PubMed Central - PubMed

Affiliation: Centre for Comparative Genomics, Murdoch University, Murdoch, Western Australia, Australia.

ABSTRACT
The intestinal spirochete Brachyspira hyodysenteriae is an important pathogen in swine, causing mucohemorrhagic colitis in a disease known as swine dysentery. Based on the detection of significant linkage disequilibrium in multilocus sequence data, the species is considered to be clonal. An analysis of the genome sequence of Western Australian B. hyodysenteriae strain WA1 has been published, and in the current study 19 further strains from countries around the world were sequenced with Illumina technology. The genomes were assembled and aligned to over 97.5% of the reference WA1 genome at a percentage sequence identity better than 80%. Strain regions not aligned to the reference ranged between 0.2 and 2.5%. Clustering of the strain genes found on average 2,354 (88%) core genes, 255 (8.6%) ancillary genes and 77 (2.9%) unique genes per strain. Depending on the strain the proportion of genes with 100% sequence identity to WA1 ranged from 85% to 20%. The result is a global comparative genomic analysis of B. hyodysenteriae genomes revealing potential differential phenotypic markers for numerous strains. Despite the differences found, the genomes were less varied than those of the related pathogenic species Brachyspira pilosicoli, and the analysis supports the clonal nature of the species. From this study, a public genome resource has been created that will serve as a repository for further genetic and phenotypic studies of these important porcine bacteria. This is the first intra-species B. hyodysenteriae comparative genomic analysis.

No MeSH data available.


Related in: MedlinePlus