Paleogenomics in a temperate environment: shotgun sequencing from an extinct Mediterranean caprine.
Paleogenomics in a temperate environment: shotgun sequencing from an extinct Mediterranean caprine.
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DOI：
10.1371/journal.pone.0005670
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发表时间：
2009-05-22
期刊：
影响因子：
3.7
通讯作者：
Lalueza-Fox C
中科院分区：
文献类型：
--
作者：
Ramírez O;Gigli E;Bover P;Alcover JA;Bertranpetit J;Castresana J;Lalueza-Fox C
许多特有的哺乳动物，包括矮象、山羊、河马和鹿，在上新世和更新世期间在地中海岛屿上与世隔绝地进化。它们中的大多数后来在全新世灭绝了。最近开发的高通量测序技术可以为从这些灭绝物种中检索基因组数据提供一种独特的工具，使研究它们的进化史和它们特殊的、有时是独特的适应背后的遗传基础成为可能。从西地中海巴利阿里群岛一只已灭绝的山羊(Myotragus Balearicus)身上提取的∼6000年前的骨骼样本，已经在GS FLX454平台上进行了鸟枪式测序。根据与奶牛基因组的比对确定的结果序列中，只有0.27%被证明是内源性的，该序列包含15,832个核苷酸，平均长度为60个核苷酸。由肌耳屏序列和其他偶蹄目序列生成的系统发育树显示了与由线粒体DNA数据生成的相同的拓扑结构。尽管处于不利的热环境中，这解释了内源序列的低产量，但我们的研究表明，从温带地区灭绝的物种中获得基因组数据是可能的。
Numerous endemic mammals, including dwarf elephants, goats, hippos and deers, evolved in isolation in the Mediterranean islands during the Pliocene and Pleistocene. Most of them subsequently became extinct during the Holocene. Recently developed high-throughput sequencing technologies could provide a unique tool for retrieving genomic data from these extinct species, making it possible to study their evolutionary history and the genetic bases underlying their particular, sometimes unique, adaptations. A DNA extraction of a ∼6,000 year-old bone sample from an extinct caprine (Myotragus balearicus) from the Balearic Islands in the Western Mediterranean, has been subjected to shotgun sequencing with the GS FLX 454 platform. Only 0.27% of the resulting sequences, identified from alignments with the cow genome and comprising 15,832 nucleotides, with an average length of 60 nucleotides, proved to be endogenous. A phylogenetic tree generated with Myotragus sequences and those from other artiodactyls displays an identical topology to that generated from mitochondrial DNA data. Despite being in an unfavourable thermal environment, which explains the low yield of endogenous sequences, our study demonstrates that it is possible to obtain genomic data from extinct species from temperate regions.
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DOI：
10.1098/rstb.1915.0006
发表时间：
1915-10-01
影响因子：
--
作者：
Andrews, CW
通讯作者：
Andrews, CW
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：
2.8
作者：
Gilbert, MTP;Rudbeck, L;Collins, MJ
通讯作者：
Collins, MJ
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：
14.9
作者：
CORPET, F
通讯作者：
CORPET, F