Evidence for niche adaptation in the genome of the bovine pathogen Streptococcus uberis
Streptococcus uberis, a Gram positive bacterial pathogen responsible for a significant proportion of bovine mastitis in commercial dairy herds, colonises multiple body sites of the cow including the gut, genital tract and mammary gland. Comparative analysis of the complete genome sequence of S. uber...
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Published in | BMC genomics Vol. 10; no. 1; p. 54 |
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Main Authors | , , , , , , , , , , , , , , , , , , |
Format | Journal Article |
Language | English |
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BioMed Central Ltd
28.01.2009
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Abstract | Streptococcus uberis, a Gram positive bacterial pathogen responsible for a significant proportion of bovine mastitis in commercial dairy herds, colonises multiple body sites of the cow including the gut, genital tract and mammary gland. Comparative analysis of the complete genome sequence of S. uberis strain 0140J was undertaken to help elucidate the biology of this effective bovine pathogen.
The genome revealed 1,825 predicted coding sequences (CDSs) of which 62 were identified as pseudogenes or gene fragments. Comparisons with related pyogenic streptococci identified a conserved core (40%) of orthologous CDSs. Intriguingly, S. uberis 0140J displayed a lower number of mobile genetic elements when compared with other pyogenic streptococci, however bacteriophage-derived islands and a putative genomic island were identified. Comparative genomics analysis revealed most similarity to the genomes of Streptococcus agalactiae and Streptococcus equi subsp. zooepidemicus. In contrast, streptococcal orthologs were not identified for 11% of the CDSs, indicating either unique retention of ancestral sequence, or acquisition of sequence from alternative sources. Functions including transport, catabolism, regulation and CDSs encoding cell envelope proteins were over-represented in this unique gene set; a limited array of putative virulence CDSs were identified.
S. uberis utilises nutritional flexibility derived from a diversity of metabolic options to successfully occupy a discrete ecological niche. The features observed in S. uberis are strongly suggestive of an opportunistic pathogen adapted to challenging and changing environmental parameters. |
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AbstractList | BACKGROUNDStreptococcus uberis, a Gram positive bacterial pathogen responsible for a significant proportion of bovine mastitis in commercial dairy herds, colonises multiple body sites of the cow including the gut, genital tract and mammary gland. Comparative analysis of the complete genome sequence of S. uberis strain 0140J was undertaken to help elucidate the biology of this effective bovine pathogen.RESULTSThe genome revealed 1,825 predicted coding sequences (CDSs) of which 62 were identified as pseudogenes or gene fragments. Comparisons with related pyogenic streptococci identified a conserved core (40%) of orthologous CDSs. Intriguingly, S. uberis 0140J displayed a lower number of mobile genetic elements when compared with other pyogenic streptococci, however bacteriophage-derived islands and a putative genomic island were identified. Comparative genomics analysis revealed most similarity to the genomes of Streptococcus agalactiae and Streptococcus equi subsp. zooepidemicus. In contrast, streptococcal orthologs were not identified for 11% of the CDSs, indicating either unique retention of ancestral sequence, or acquisition of sequence from alternative sources. Functions including transport, catabolism, regulation and CDSs encoding cell envelope proteins were over-represented in this unique gene set; a limited array of putative virulence CDSs were identified.CONCLUSIONS. uberis utilises nutritional flexibility derived from a diversity of metabolic options to successfully occupy a discrete ecological niche. The features observed in S. uberis are strongly suggestive of an opportunistic pathogen adapted to challenging and changing environmental parameters. Abstract Background Streptococcus uberis, a Gram positive bacterial pathogen responsible for a significant proportion of bovine mastitis in commercial dairy herds, colonises multiple body sites of the cow including the gut, genital tract and mammary gland. Comparative analysis of the complete genome sequence of S. uberis strain 0140J was undertaken to help elucidate the biology of this effective bovine pathogen. Results The genome revealed 1,825 predicted coding sequences (CDSs) of which 62 were identified as pseudogenes or gene fragments. Comparisons with related pyogenic streptococci identified a conserved core (40%) of orthologous CDSs. Intriguingly, S. uberis 0140J displayed a lower number of mobile genetic elements when compared with other pyogenic streptococci, however bacteriophage-derived islands and a putative genomic island were identified. Comparative genomics analysis revealed most similarity to the genomes of Streptococcus agalactiae and Streptococcus equi subsp. zooepidemicus. In contrast, streptococcal orthologs were not identified for 11% of the CDSs, indicating either unique retention of ancestral sequence, or acquisition of sequence from alternative sources. Functions including transport, catabolism, regulation and CDSs encoding cell envelope proteins were over-represented in this unique gene set; a limited array of putative virulence CDSs were identified. Conclusion S. uberis utilises nutritional flexibility derived from a diversity of metabolic options to successfully occupy a discrete ecological niche. The features observed in S. uberis are strongly suggestive of an opportunistic pathogen adapted to challenging and changing environmental parameters. Streptococcus uberis, a Gram positive bacterial pathogen responsible for a significant proportion of bovine mastitis in commercial dairy herds, colonises multiple body sites of the cow including the gut, genital tract and mammary gland. Comparative analysis of the complete genome sequence of S. uberis strain 0140J was undertaken to help elucidate the biology of this effective bovine pathogen. The genome revealed 1,825 predicted coding sequences (CDSs) of which 62 were identified as pseudogenes or gene fragments. Comparisons with related pyogenic streptococci identified a conserved core (40%) of orthologous CDSs. Intriguingly, S. uberis 0140J displayed a lower number of mobile genetic elements when compared with other pyogenic streptococci, however bacteriophage-derived islands and a putative genomic island were identified. Comparative genomics analysis revealed most similarity to the genomes of Streptococcus agalactiae and Streptococcus equi subsp. zooepidemicus. In contrast, streptococcal orthologs were not identified for 11% of the CDSs, indicating either unique retention of ancestral sequence, or acquisition of sequence from alternative sources. Functions including transport, catabolism, regulation and CDSs encoding cell envelope proteins were over-represented in this unique gene set; a limited array of putative virulence CDSs were identified. S. uberis utilises nutritional flexibility derived from a diversity of metabolic options to successfully occupy a discrete ecological niche. The features observed in S. uberis are strongly suggestive of an opportunistic pathogen adapted to challenging and changing environmental parameters. BACKGROUND: Streptococcus uberis, a Gram positive bacterial pathogen responsible for a significant proportion of bovine mastitis in commercial dairy herds, colonises multiple body sites of the cow including the gut, genital tract and mammary gland. Comparative analysis of the complete genome sequence of S. uberis strain 0140J was undertaken to help elucidate the biology of this effective bovine pathogen. RESULTS: The genome revealed 1,825 predicted coding sequences (CDSs) of which 62 were identified as pseudogenes or gene fragments. Comparisons with related pyogenic streptococci identified a conserved core (40%) of orthologous CDSs. Intriguingly, S. uberis 0140J displayed a lower number of mobile genetic elements when compared with other pyogenic streptococci, however bacteriophage-derived islands and a putative genomic island were identified. Comparative genomics analysis revealed most similarity to the genomes of Streptococcus agalactiae and Streptococcus equi subsp. zooepidemicus. In contrast, streptococcal orthologs were not identified for 11% of the CDSs, indicating either unique retention of ancestral sequence, or acquisition of sequence from alternative sources. Functions including transport, catabolism, regulation and CDSs encoding cell envelope proteins were over-represented in this unique gene set; a limited array of putative virulence CDSs were identified. CONCLUSION: S. uberis utilises nutritional flexibility derived from a diversity of metabolic options to successfully occupy a discrete ecological niche. The features observed in S. uberis are strongly suggestive of an opportunistic pathogen adapted to challenging and changing environmental parameters. |
ArticleNumber | 54 |
Audience | Academic |
Author | Field, Terence R Lennard, Nicola Maskell, Duncan Egan, Sharon A Whatmore, Adrian M Woodward, John Bignell, Alexandra Quail, Michael A Barrell, Bart G Holden, Matthew T G Leigh, James A Parkhill, Julian Chanter, Neil Bentley, Stephen D Ward, Philip N Kehoe, Michael Barron, Andy Clark, Louise Dowson, Christopher G |
AuthorAffiliation | 3 The School of Veterinary Medicine and Science, The University of Nottingham, Sutton Bonington Campus, Sutton Bonington, Leicestershire, LE12 5RD, UK 1 Nuffield Department of Clinical Laboratory Sciences, Oxford University, John Radcliffe Hospital, Headington, Oxford, OX3 9DU, UK 4 Institute for Animal Health, Compton Laboratory, Compton, Newbury, Berks, RG20 7NN, UK 5 Dept. of Veterinary Medicine, The University of Cambridge, Cambridge, CB3 0ES, UK 6 Institute for Cell and Molecular Biosciences, The Medical School, University of Newcastle upon Tyne, Framlington Place, Newcastle upon Tyne, NE2 4HH, UK 7 Department of Biological Sciences, University of Warwick, Coventry, CV4 7AL, UK 2 The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK 8 Centre for Preventative Medicine, Animal Health Trust, Newmarket, Suffolk, CB8 7UU, UK 9 Veterinary Laboratories Agency, Weybridge, UK |
AuthorAffiliation_xml | – name: 2 The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK – name: 6 Institute for Cell and Molecular Biosciences, The Medical School, University of Newcastle upon Tyne, Framlington Place, Newcastle upon Tyne, NE2 4HH, UK – name: 7 Department of Biological Sciences, University of Warwick, Coventry, CV4 7AL, UK – name: 4 Institute for Animal Health, Compton Laboratory, Compton, Newbury, Berks, RG20 7NN, UK – name: 1 Nuffield Department of Clinical Laboratory Sciences, Oxford University, John Radcliffe Hospital, Headington, Oxford, OX3 9DU, UK – name: 9 Veterinary Laboratories Agency, Weybridge, UK – name: 3 The School of Veterinary Medicine and Science, The University of Nottingham, Sutton Bonington Campus, Sutton Bonington, Leicestershire, LE12 5RD, UK – name: 8 Centre for Preventative Medicine, Animal Health Trust, Newmarket, Suffolk, CB8 7UU, UK – name: 5 Dept. of Veterinary Medicine, The University of Cambridge, Cambridge, CB3 0ES, UK |
Author_xml | – sequence: 1 givenname: Philip N surname: Ward fullname: Ward, Philip N email: Phil.Ward@ndcls.ox.ac.uk organization: The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK. Phil.Ward@ndcls.ox.ac.uk – sequence: 2 givenname: Matthew T G surname: Holden fullname: Holden, Matthew T G – sequence: 3 givenname: James A surname: Leigh fullname: Leigh, James A – sequence: 4 givenname: Nicola surname: Lennard fullname: Lennard, Nicola – sequence: 5 givenname: Alexandra surname: Bignell fullname: Bignell, Alexandra – sequence: 6 givenname: Andy surname: Barron fullname: Barron, Andy – sequence: 7 givenname: Louise surname: Clark fullname: Clark, Louise – sequence: 8 givenname: Michael A surname: Quail fullname: Quail, Michael A – sequence: 9 givenname: John surname: Woodward fullname: Woodward, John – sequence: 10 givenname: Bart G surname: Barrell fullname: Barrell, Bart G – sequence: 11 givenname: Sharon A surname: Egan fullname: Egan, Sharon A – sequence: 12 givenname: Terence R surname: Field fullname: Field, Terence R – sequence: 13 givenname: Duncan surname: Maskell fullname: Maskell, Duncan – sequence: 14 givenname: Michael surname: Kehoe fullname: Kehoe, Michael – sequence: 15 givenname: Christopher G surname: Dowson fullname: Dowson, Christopher G – sequence: 16 givenname: Neil surname: Chanter fullname: Chanter, Neil – sequence: 17 givenname: Adrian M surname: Whatmore fullname: Whatmore, Adrian M – sequence: 18 givenname: Stephen D surname: Bentley fullname: Bentley, Stephen D – sequence: 19 givenname: Julian surname: Parkhill fullname: Parkhill, Julian |
BackLink | https://www.ncbi.nlm.nih.gov/pubmed/19175920$$D View this record in MEDLINE/PubMed |
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Snippet | Streptococcus uberis, a Gram positive bacterial pathogen responsible for a significant proportion of bovine mastitis in commercial dairy herds, colonises... BACKGROUNDStreptococcus uberis, a Gram positive bacterial pathogen responsible for a significant proportion of bovine mastitis in commercial dairy herds,... BACKGROUND: Streptococcus uberis, a Gram positive bacterial pathogen responsible for a significant proportion of bovine mastitis in commercial dairy herds,... Abstract Background Streptococcus uberis, a Gram positive bacterial pathogen responsible for a significant proportion of bovine mastitis in commercial dairy... |
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StartPage | 54 |
SubjectTerms | Adaptation, Biological - genetics Animals Bacterial Proteins - genetics Bacterial Proteins - metabolism Cattle Comparative Genomic Hybridization Diseases DNA, Bacterial - genetics Evolution, Molecular Gene Expression Profiling Genes, Bacterial Genetic aspects Genome, Bacterial Genomic Islands Mastitis, Bovine - microbiology Phylogeny Physiological aspects Sequence Analysis, DNA Streptococcus Streptococcus - genetics Streptococcus - metabolism Streptococcus - pathogenicity Virulence |
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Title | Evidence for niche adaptation in the genome of the bovine pathogen Streptococcus uberis |
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