A complete mitochondrial genome sequence from a mesolithic wild aurochs (Bos primigenius).

Hdl Handle:
http://hdl.handle.net/10147/93852
Title:
A complete mitochondrial genome sequence from a mesolithic wild aurochs (Bos primigenius).
Authors:
Edwards, Ceiridwen J; Magee, David A; Park, Stephen D E; McGettigan, Paul A; Lohan, Amanda J; Murphy, Alison; Finlay, Emma K; Shapiro, Beth; Chamberlain, Andrew T; Richards, Martin B; Bradley, Daniel G; Loftus, Brendan J; Machugh, David E
Affiliation:
Smurfit Institute of Genetics, Trinity College, Dublin, Ireland.
Citation:
A complete mitochondrial genome sequence from a mesolithic wild aurochs (Bos primigenius). 2010, 5 (2):e9255 PLoS ONE
Journal:
PloS one
Issue Date:
2010
URI:
http://hdl.handle.net/10147/93852
DOI:
10.1371/journal.pone.0009255
PubMed ID:
20174668
Abstract:
BACKGROUND: The derivation of domestic cattle from the extinct wild aurochs (Bos primigenius) has been well-documented by archaeological and genetic studies. Genetic studies point towards the Neolithic Near East as the centre of origin for Bos taurus, with some lines of evidence suggesting possible, albeit rare, genetic contributions from locally domesticated wild aurochsen across Eurasia. Inferences from these investigations have been based largely on the analysis of partial mitochondrial DNA sequences generated from modern animals, with limited sequence data from ancient aurochsen samples. Recent developments in DNA sequencing technologies, however, are affording new opportunities for the examination of genetic material retrieved from extinct species, providing new insight into their evolutionary history. Here we present DNA sequence analysis of the first complete mitochondrial genome (16,338 base pairs) from an archaeologically-verified and exceptionally-well preserved aurochs bone sample. METHODOLOGY: DNA extracts were generated from an aurochs humerus bone sample recovered from a cave site located in Derbyshire, England and radiocarbon-dated to 6,738+/-68 calibrated years before present. These extracts were prepared for both Sanger and next generation DNA sequencing technologies (Illumina Genome Analyzer). In total, 289.9 megabases (22.48%) of the post-filtered DNA sequences generated using the Illumina Genome Analyzer from this sample mapped with confidence to the bovine genome. A consensus B. primigenius mitochondrial genome sequence was constructed and was analysed alongside all available complete bovine mitochondrial genome sequences. CONCLUSIONS: For all nucleotide positions where both Sanger and Illumina Genome Analyzer sequencing methods gave high-confidence calls, no discrepancies were observed. Sequence analysis reveals evidence of heteroplasmy in this sample and places this mitochondrial genome sequence securely within a previously identified aurochsen haplogroup (haplogroup P), thus providing novel insights into pre-domestic patterns of variation. The high proportion of authentic, endogenous aurochs DNA preserved in this sample bodes well for future efforts to determine the complete genome sequence of a wild ancestor of domestic cattle.
Language:
en
ISSN:
1932-6203

Full metadata record

DC FieldValue Language
dc.contributor.authorEdwards, Ceiridwen Jen
dc.contributor.authorMagee, David Aen
dc.contributor.authorPark, Stephen D Een
dc.contributor.authorMcGettigan, Paul Aen
dc.contributor.authorLohan, Amanda Jen
dc.contributor.authorMurphy, Alisonen
dc.contributor.authorFinlay, Emma Ken
dc.contributor.authorShapiro, Bethen
dc.contributor.authorChamberlain, Andrew Ten
dc.contributor.authorRichards, Martin Ben
dc.contributor.authorBradley, Daniel Gen
dc.contributor.authorLoftus, Brendan Jen
dc.contributor.authorMachugh, David Een
dc.date.accessioned2010-03-08T13:14:35Z-
dc.date.available2010-03-08T13:14:35Z-
dc.date.issued2010-
dc.identifier.citationA complete mitochondrial genome sequence from a mesolithic wild aurochs (Bos primigenius). 2010, 5 (2):e9255 PLoS ONEen
dc.identifier.issn1932-6203-
dc.identifier.pmid20174668-
dc.identifier.doi10.1371/journal.pone.0009255-
dc.identifier.urihttp://hdl.handle.net/10147/93852-
dc.description.abstractBACKGROUND: The derivation of domestic cattle from the extinct wild aurochs (Bos primigenius) has been well-documented by archaeological and genetic studies. Genetic studies point towards the Neolithic Near East as the centre of origin for Bos taurus, with some lines of evidence suggesting possible, albeit rare, genetic contributions from locally domesticated wild aurochsen across Eurasia. Inferences from these investigations have been based largely on the analysis of partial mitochondrial DNA sequences generated from modern animals, with limited sequence data from ancient aurochsen samples. Recent developments in DNA sequencing technologies, however, are affording new opportunities for the examination of genetic material retrieved from extinct species, providing new insight into their evolutionary history. Here we present DNA sequence analysis of the first complete mitochondrial genome (16,338 base pairs) from an archaeologically-verified and exceptionally-well preserved aurochs bone sample. METHODOLOGY: DNA extracts were generated from an aurochs humerus bone sample recovered from a cave site located in Derbyshire, England and radiocarbon-dated to 6,738+/-68 calibrated years before present. These extracts were prepared for both Sanger and next generation DNA sequencing technologies (Illumina Genome Analyzer). In total, 289.9 megabases (22.48%) of the post-filtered DNA sequences generated using the Illumina Genome Analyzer from this sample mapped with confidence to the bovine genome. A consensus B. primigenius mitochondrial genome sequence was constructed and was analysed alongside all available complete bovine mitochondrial genome sequences. CONCLUSIONS: For all nucleotide positions where both Sanger and Illumina Genome Analyzer sequencing methods gave high-confidence calls, no discrepancies were observed. Sequence analysis reveals evidence of heteroplasmy in this sample and places this mitochondrial genome sequence securely within a previously identified aurochsen haplogroup (haplogroup P), thus providing novel insights into pre-domestic patterns of variation. The high proportion of authentic, endogenous aurochs DNA preserved in this sample bodes well for future efforts to determine the complete genome sequence of a wild ancestor of domestic cattle.-
dc.language.isoenen
dc.titleA complete mitochondrial genome sequence from a mesolithic wild aurochs (Bos primigenius).en
dc.contributor.departmentSmurfit Institute of Genetics, Trinity College, Dublin, Ireland.en
dc.identifier.journalPloS oneen

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