Genome sequencing of ovine isolates of <it>Mycobacterium avium </it>subspecies <it>paratuberculosis </it>offers insights into host association
<p>Abstract</p> <p>Background</p> <p>The genome of <it>Mycobacterium avium </it>subspecies <it>paratuberculosis </it>(<it>MAP</it>) is remarkably homogeneous among the genomes of bovine, human and wildlife isolates. However, previous...
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BMC
2012-03-01
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| Series: | BMC Genomics |
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| Online Access: | http://www.biomedcentral.com/1471-2164/13/89 |
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| author | Bannantine John P Wu Chia-wei Hsu Chungyi Zhou Shiguo Schwartz David C Bayles Darrell O Paustian Michael L Alt David P Sreevatsan Srinand Kapur Vivek Talaat Adel M |
| author_facet | Bannantine John P Wu Chia-wei Hsu Chungyi Zhou Shiguo Schwartz David C Bayles Darrell O Paustian Michael L Alt David P Sreevatsan Srinand Kapur Vivek Talaat Adel M |
| author_sort | Bannantine John P |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>The genome of <it>Mycobacterium avium </it>subspecies <it>paratuberculosis </it>(<it>MAP</it>) is remarkably homogeneous among the genomes of bovine, human and wildlife isolates. However, previous work in our laboratories with the bovine K-10 strain has revealed substantial differences compared to sheep isolates. To systematically characterize all genomic differences that may be associated with the specific hosts, we sequenced the genomes of three U.S. sheep isolates and also obtained an optical map.</p> <p>Results</p> <p>Our analysis of one of the isolates, <it>MAP </it>S397, revealed a genome 4.8 Mb in size with 4,700 open reading frames (ORFs). Comparative analysis of the <it>MAP </it>S397 isolate showed it acquired approximately 10 large sequence regions that are shared with the human <it>M. avium </it>subsp. <it>hominissuis </it>strain 104 and lost 2 large regions that are present in the bovine strain. In addition, optical mapping defined the presence of 7 large inversions between the bovine and ovine genomes (~ 2.36 Mb). Whole-genome sequencing of 2 additional sheep strains of <it>MAP </it>(JTC1074 and JTC7565) further confirmed genomic homogeneity of the sheep isolates despite the presence of polymorphisms on the nucleotide level.</p> <p>Conclusions</p> <p>Comparative sequence analysis employed here provided a better understanding of the host association, evolution of members of the <it>M. avium </it>complex and could help in deciphering the phenotypic differences observed among sheep and cattle strains of <it>MAP</it>. A similar approach based on whole-genome sequencing combined with optical mapping could be employed to examine closely related pathogens. We propose an evolutionary scenario for <it>M. avium </it>complex strains based on these genome sequences.</p> |
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| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-11T10:22:22Z |
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| spelling | doaj.art-13fc8d95b7924d05926dee4bf09d7fa52022-12-22T01:11:21ZengBMCBMC Genomics1471-21642012-03-011318910.1186/1471-2164-13-89Genome sequencing of ovine isolates of <it>Mycobacterium avium </it>subspecies <it>paratuberculosis </it>offers insights into host associationBannantine John PWu Chia-weiHsu ChungyiZhou ShiguoSchwartz David CBayles Darrell OPaustian Michael LAlt David PSreevatsan SrinandKapur VivekTalaat Adel M<p>Abstract</p> <p>Background</p> <p>The genome of <it>Mycobacterium avium </it>subspecies <it>paratuberculosis </it>(<it>MAP</it>) is remarkably homogeneous among the genomes of bovine, human and wildlife isolates. However, previous work in our laboratories with the bovine K-10 strain has revealed substantial differences compared to sheep isolates. To systematically characterize all genomic differences that may be associated with the specific hosts, we sequenced the genomes of three U.S. sheep isolates and also obtained an optical map.</p> <p>Results</p> <p>Our analysis of one of the isolates, <it>MAP </it>S397, revealed a genome 4.8 Mb in size with 4,700 open reading frames (ORFs). Comparative analysis of the <it>MAP </it>S397 isolate showed it acquired approximately 10 large sequence regions that are shared with the human <it>M. avium </it>subsp. <it>hominissuis </it>strain 104 and lost 2 large regions that are present in the bovine strain. In addition, optical mapping defined the presence of 7 large inversions between the bovine and ovine genomes (~ 2.36 Mb). Whole-genome sequencing of 2 additional sheep strains of <it>MAP </it>(JTC1074 and JTC7565) further confirmed genomic homogeneity of the sheep isolates despite the presence of polymorphisms on the nucleotide level.</p> <p>Conclusions</p> <p>Comparative sequence analysis employed here provided a better understanding of the host association, evolution of members of the <it>M. avium </it>complex and could help in deciphering the phenotypic differences observed among sheep and cattle strains of <it>MAP</it>. A similar approach based on whole-genome sequencing combined with optical mapping could be employed to examine closely related pathogens. We propose an evolutionary scenario for <it>M. avium </it>complex strains based on these genome sequences.</p>http://www.biomedcentral.com/1471-2164/13/89<it>M. paratuberculosis</it>EvolutionJohne's diseaseGenomeOptical mapping |
| spellingShingle | Bannantine John P Wu Chia-wei Hsu Chungyi Zhou Shiguo Schwartz David C Bayles Darrell O Paustian Michael L Alt David P Sreevatsan Srinand Kapur Vivek Talaat Adel M Genome sequencing of ovine isolates of <it>Mycobacterium avium </it>subspecies <it>paratuberculosis </it>offers insights into host association BMC Genomics <it>M. paratuberculosis</it> Evolution Johne's disease Genome Optical mapping |
| title | Genome sequencing of ovine isolates of <it>Mycobacterium avium </it>subspecies <it>paratuberculosis </it>offers insights into host association |
| title_full | Genome sequencing of ovine isolates of <it>Mycobacterium avium </it>subspecies <it>paratuberculosis </it>offers insights into host association |
| title_fullStr | Genome sequencing of ovine isolates of <it>Mycobacterium avium </it>subspecies <it>paratuberculosis </it>offers insights into host association |
| title_full_unstemmed | Genome sequencing of ovine isolates of <it>Mycobacterium avium </it>subspecies <it>paratuberculosis </it>offers insights into host association |
| title_short | Genome sequencing of ovine isolates of <it>Mycobacterium avium </it>subspecies <it>paratuberculosis </it>offers insights into host association |
| title_sort | genome sequencing of ovine isolates of it mycobacterium avium it subspecies it paratuberculosis it offers insights into host association |
| topic | <it>M. paratuberculosis</it> Evolution Johne's disease Genome Optical mapping |
| url | http://www.biomedcentral.com/1471-2164/13/89 |
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