A complete mitochondrial genome sequence from a mesolithic wild aurochs (Bos primigenius).
A complete mitochondrial genome sequence from a mesolithic wild aurochs (Bos primigenius).
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DOI：
10.1371/journal.pone.0009255
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发表时间：
2010-02-17
期刊：
影响因子：
3.7
通讯作者：
MacHugh DE
中科院分区：
文献类型：
--
作者：
Edwards CJ;Magee DA;Park SD;McGettigan PA;Lohan AJ;Murphy A;Finlay EK;Shapiro B;Chamberlain AT;Richards MB;Bradley DG;Loftus BJ;MacHugh DE
从灭绝的野生欧洲野牛（Bos aurochs）演化出家养牛的过程，在考古学和遗传学研究中已有充分的记载。遗传学研究指出，新石器时代的近东是牛的起源中心，一些证据表明，欧亚大陆当地驯化的野生野牛可能有遗传贡献，尽管很罕见。这些研究的推论主要基于对现代动物产生的部分线粒体DNA序列的分析，而来自古代Aurochsen样本的序列数据有限。然而，DNA测序技术的最新发展为检查从灭绝物种中检索到的遗传物质提供了新的机会，为它们的进化历史提供了新的见解。在这里，我们提出了第一个完整的线粒体基因组（16,338个碱基对）的DNA序列分析，从考古学验证和保存异常完好的欧洲野牛骨骼样本。DNA提取物是从位于英格兰德比郡的一个洞穴遗址中发现的一个欧洲野牛肱骨样本中提取的，放射性碳年代测定为距今6，738 ±68年。制备这些提取物用于桑格和下一代DNA测序技术（Illumina基因组分析仪）。总的来说，使用Illumina基因组分析仪从该样品中产生的289.9兆碱基（22.48%）的过滤后DNA序列被可靠地映射到牛基因组。A共识B。构建了牛线粒体基因组序列，并与所有可用的完整牛线粒体基因组序列一起进行分析。对于桑格和Illumina基因组分析仪测序方法均给出高置信度调用的所有核苷酸位置，未观察到差异。序列分析揭示了该样本中异质性的证据，并将该线粒体基因组序列安全地放置在先前确定的aurochsen单倍群（单倍群P）内，从而提供了对家养前变异模式的新见解。在这个样本中保存的高比例的真实的内源性欧洲野牛DNA预示着未来的努力，以确定完整的基因组序列的野生祖先的家牛。
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. 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. 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.
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DOI：
10.1073/pnas.0509210103
发表时间：
2006-05-23
影响因子：
11.1
作者：
Beja-Pereira, Albano;Caramelli, David;Bertorelle, Giorgio
通讯作者：
Bertorelle, Giorgio
影响因子：
56.9
作者：
Gilbert, M. Thomas P.;Tomsho, Lynn P.;Schuster, Stephan C.
通讯作者：
Schuster, Stephan C.
影响因子：
9.2
作者：
Ermini, Luca;Olivieri, Cristina;Rollo, Franco
通讯作者：
Rollo, Franco
影响因子：
56.9
作者：
Gilbert, M. Thomas P.;Kivisild, Toomas;Willerslev, Eske
通讯作者：
Willerslev, Eske
影响因子：
10.7
作者：
Chen, Shanyuan;Lin, Bang-Zhong;Beja-Pereira, Albano
通讯作者：
Beja-Pereira, Albano