Draft genome of the Marco Polo Sheep (Ovis ammon polii).
Draft genome of the Marco Polo Sheep (Ovis ammon polii).
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马可波罗羊 (Ovis ammon polii) 基因组草图
DOI：
10.1093/gigascience/gix106
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发表时间：
2017-12-01
期刊：
影响因子：
9.2
通讯作者：
Wang K
中科院分区：
文献类型：
--
作者：
Yang Y;Wang Y;Zhao Y;Zhang X;Li R;Chen L;Zhang G;Jiang Y;Qiu Q;Wang W;Wei HJ;Wang K
马可波罗羊(Ovis Ammon Poli)是盘羊(Ovis Ammon)的一个亚种，主要分布在帕米尔山脉，为研究高原适应机制提供了哺乳动物模型。由于过度狩猎和自给性偷猎，以及与牲畜的竞争和栖息地的丧失，O.Ammon已被列为几个名单上的濒危物种。它可以与绵羊繁衍后代。因此，一个高质量的马可波罗绵羊参考基因组将非常有助于保护遗传学，甚至在绵羊育种中开发有用的基因。使用Illumina HiSeq2000平台对马可波罗绵羊进行全基因组测序，总共产生了1022.43 GB的原始读数。最终的基因组组装(2.71 GB)具有30.7Kb的N50重叠群和5.49Mb的支架N50。确定的重复序列占基因组的46.72%，从掩蔽基因组中预测了20336个蛋白质编码基因。系统发育分析表明，马可波罗绵羊与家养绵羊有较近的亲缘关系，其分化时间约为236万年前。我们在马可波罗绵羊家系中鉴定了271个扩大的基因家族和168个假定的正向选择基因。我们提供了马可波罗绵羊的第一个基因组序列和基因注释。这些资源的可获得性将对未来保护这种濒临灭绝的大型哺乳动物、研究高海拔适应机制、重建羊亚科动物的进化史以及未来保护马可波罗绵羊具有重要价值。
The Marco Polo Sheep (Ovis ammon polii), a subspecies of argali (Ovis ammon) that is distributed mainly in the Pamir Mountains, provides a mammalian model to study high altitude adaptation mechanisms. Due to over-hunting and subsistence poaching, as well as competition with livestock and habitat loss, O. ammon has been categorized as an endangered species on several lists. It can have fertile offspring with sheep. Hence, a high-quality reference genome of the Marco Polo Sheep will be very helpful in conservation genetics and even in exploiting useful genes in sheep breeding. A total of 1022.43 Gb of raw reads resulting from whole-genome sequencing of a Marco Polo Sheep were generated using an Illumina HiSeq2000 platform. The final genome assembly (2.71 Gb) has an N50 contig size of 30.7 Kb and a scaffold N50 of 5.49 Mb. The repeat sequences identified account for 46.72% of the genome, and 20 336 protein-coding genes were predicted from the masked genome. Phylogenetic analysis indicated a close relationship between Marco Polo Sheep and the domesticated sheep, and the time of their divergence was approximately 2.36 million years ago. We identified 271 expanded gene families and 168 putative positively selected genes in the Marco Polo Sheep lineage. We provide the first genome sequence and gene annotation for the Marco Polo Sheep. The availability of these resources will be of value in the future conservation of this endangered large mammal, for research into high altitude adaptation mechanisms, for reconstructing the evolutionary history of the Caprinae, and for the future conservation of the Marco Polo Sheep.
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DOI：
10.1126/science.1252806
发表时间：
2014-06-06
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Jiang Y;Xie M;Chen W;Talbot R;Maddox JF;Faraut T;Wu C;Muzny DM;Li Y;Zhang W;Stanton JA;Brauning R;Barris WC;Hourlier T;Aken BL;Searle SMJ;Adelson DL;Bian C;Cam GR;Chen Y;Cheng S;DeSilva U;Dixen K;Dong Y;Fan G;Franklin IR;Fu S;Guan R;Highland MA;Holder ME;Huang G;Ingham AB;Jhangiani SN;Kalra D;Kovar CL;Lee SL;Liu W;Liu X;Lu C;Lv T;Mathew T;McWilliam S;Menzies M;Pan S;Robelin D;Servin B;Townley D;Wang W;Wei B;White SN;Yang X;Ye C;Yue Y;Zeng P;Zhou Q;Hansen JB;Kristensen K;Gibbs RA;Flicek P;Warkup CC;Jones HE;Oddy VH;Nicholas FW;McEwan JC;Kijas J;Wang J;Worley KC;Archibald AL;Cockett N;Xu X;Wang W;Dalrymple BP
通讯作者：
Dalrymple BP
影响因子：
14.9
作者：
Parra G;Bradnam K;Ning Z;Keane T;Korf I
通讯作者：
Korf I
影响因子：
4.9
作者：
Bao W;Kojima KK;Kohany O
通讯作者：
Kohany O
影响因子：
--
作者：
Blanco, Enrique;Parra, Genis;Guigo, Roderic
通讯作者：
Guigo, Roderic
影响因子：
64.8
作者：
Li, Heng;Durbin, Richard
通讯作者：
Durbin, Richard