Emergence and evolution of inter-specific segregating retrocopies in cynomolgus monkey (Macaca fascicularis) and rhesus macaque (Macaca mulatta).
Emergence and evolution of inter-specific segregating retrocopies in cynomolgus monkey (Macaca fascicularis) and rhesus macaque (Macaca mulatta).
复制标题
食蟹猴（Macaca fasciculis）和恒河猴（Macaca mulatta）种间分离逆转录的出现和进化
DOI：
10.1038/srep32598
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发表时间：
2016-09-07
影响因子：
4.6
通讯作者：
Su B
中科院分区：
文献类型：
--
作者：
Zhang X;Zhang Q;Su B
逆转录是一种RNA介导的基因复制机制，被认为在包括灵长类在内的各种物种的基因组进化和表型适应中起重要作用。先前的研究表明，恒河猴基因组中最近的逆转录速率升高。为了更好地了解大约300 - 600万年前经历了适应性辐射的猕猴物种对逆转录的影响，我们开发了一个生物信息学管道来识别食蟹猴中最近衍生的逆转录。因此，我们确定了七个实验验证的年轻的逆转录病毒，所有这些都是多态性的食蟹猴。令人意想不到的是，其中五种也存在于恒河猴中，并且仍在分离。分子进化分析表明，所观察到的种间多态性是由于祖先的多态性。进一步的群体遗传学分析提供了强有力的证据，证明在两个物种中至少有一个案例（食蟹猴retrocopy 6，或CER 6）是平衡选择的。CER 6与免疫球蛋白相关基因相邻，可能参与宿主-病原体相互作用，这是平衡选择的一个众所周知的靶标。总之，我们的数据支持，逆转录是一个重要的力量，塑造基因组进化和物种适应。
Retroposition is an RNA-mediated mechanism to generate gene duplication, and is believed to play an important role in genome evolution and phenotypic adaptation in various species including primates. Previous studies suggested an elevated rate of recent retroposition in the rhesus macaque genome. To better understand the impact of retroposition on macaque species which have undergone an adaptive radiation approximately 3–6 million years ago, we developed a bioinformatics pipeline to identify recently derived retrocopies in cynomolgus monkeys. As a result, we identified seven experimentally validated young retrocopies, all of which are polymorphic in cynomolgus monkeys. Unexpectedly, five of them are also present in rhesus monkeys and are still segregating. Molecular evolutionary analysis indicates that the observed inter-specific polymorphism is attribute to ancestral polymorphism. Further population genetics analysis provided strong evidence of balancing selection on at least one case (Crab-eating monkey retrocopy 6, or CER6) in both species. CER6 is in adjacent with an immunoglobulin related gene and may be involved in host-pathogen interaction, a well-known target of balancing selection. Altogether, our data support that retroposition is an important force to shape genome evolution and species adaptation.
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影响因子：
10.7
作者：
Hedges SB;Marin J;Suleski M;Paymer M;Kumar S
通讯作者：
Kumar S
影响因子：
14.9
作者：
Flicek P;Ahmed I;Amode MR;Barrell D;Beal K;Brent S;Carvalho-Silva D;Clapham P;Coates G;Fairley S;Fitzgerald S;Gil L;García-Girón C;Gordon L;Hourlier T;Hunt S;Juettemann T;Kähäri AK;Keenan S;Komorowska M;Kulesha E;Longden I;Maurel T;McLaren WM;Muffato M;Nag R;Overduin B;Pignatelli M;Pritchard B;Pritchard E;Riat HS;Ritchie GR;Ruffier M;Schuster M;Sheppard D;Sobral D;Taylor K;Thormann A;Trevanion S;White S;Wilder SP;Aken BL;Birney E;Cunningham F;Dunham I;Harrow J;Herrero J;Hubbard TJ;Johnson N;Kinsella R;Parker A;Spudich G;Yates A;Zadissa A;Searle SM
通讯作者：
Searle SM
影响因子：
3.7
作者：
Fujikane R;Sanada M;Sekiguchi M;Hidaka M
通讯作者：
Hidaka M
影响因子：
64.8
作者：
通讯作者：
--
影响因子：
56.9
作者：
Gibbs, Richard A.;Rogers, Jeffrey;Zwieg, Ann S.
通讯作者：
Zwieg, Ann S.