Expression of multiple horizontally acquired genes is a hallmark of both vertebrate and invertebrate genomes.
Expression of multiple horizontally acquired genes is a hallmark of both vertebrate and invertebrate genomes.
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DOI：
10.1186/s13059-015-0607-3
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发表时间：
2015-03-13
期刊：
影响因子：
12.3
通讯作者：
Micklem G
中科院分区：
文献类型：
--
作者：
Crisp A;Boschetti C;Perry M;Tunnacliffe A;Micklem G
生物学的一个基本概念是可遗传的物质，DNA，从父母传给后代，这个过程被称为垂直基因转移。基因获取的另一种机制是通过水平基因转移（HGT），它涉及遗传物质在不同物种之间的移动。HGT在细菌等单细胞生物中是众所周知的，但它在包括动物在内的高等生物中的存在却不太确定，在人类中也存在争议。我们利用最近获得的足够数量的高质量基因组和相关转录组，对26种动物（10种灵长类动物、12种果蝇和4种线虫）的HGT进行了详细检查，并对另外14种脊椎动物进行了简化分析。全基因组比较和系统发育分析表明，动物的HGT通常会产生数十或数百个活跃的“外来”基因，这些基因主要与代谢有关。我们的分析表明，虽然果蝇和线虫在进化过程中不断获得外来基因，但人类和其他灵长类动物自其共同祖先以来获得的基因相对较少。我们还解决了围绕人类HGT先前证据的争议，并提供了至少33个水平获得基因的新例子。我们认为HGT在后生动物中以前所未有的规模发生并继续发生，并且可能在动物进化过程中促进了生化多样化。本文的在线版本（doi:10.1186/s13059-015-0607-3）包含补充材料，仅供授权用户使用。
A fundamental concept in biology is that heritable material, DNA, is passed from parent to offspring, a process called vertical gene transfer. An alternative mechanism of gene acquisition is through horizontal gene transfer (HGT), which involves movement of genetic material between different species. HGT is well-known in single-celled organisms such as bacteria, but its existence in higher organisms, including animals, is less well established, and is controversial in humans. We have taken advantage of the recent availability of a sufficient number of high-quality genomes and associated transcriptomes to carry out a detailed examination of HGT in 26 animal species (10 primates, 12 flies and four nematodes) and a simplified analysis in a further 14 vertebrates. Genome-wide comparative and phylogenetic analyses show that HGT in animals typically gives rise to tens or hundreds of active ‘foreign’ genes, largely concerned with metabolism. Our analyses suggest that while fruit flies and nematodes have continued to acquire foreign genes throughout their evolution, humans and other primates have gained relatively few since their common ancestor. We also resolve the controversy surrounding previous evidence of HGT in humans and provide at least 33 new examples of horizontally acquired genes. We argue that HGT has occurred, and continues to occur, on a previously unsuspected scale in metazoans and is likely to have contributed to biochemical diversification during animal evolution. The online version of this article (doi:10.1186/s13059-015-0607-3) contains supplementary material, which is available to authorized users.
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影响因子：
14.9
作者：
NCBI Resource Coordinators
通讯作者：
NCBI Resource Coordinators
影响因子：
14.9
作者：
Flicek P;Amode MR;Barrell D;Beal K;Billis K;Brent S;Carvalho-Silva D;Clapham P;Coates G;Fitzgerald S;Gil L;Girón CG;Gordon L;Hourlier T;Hunt S;Johnson N;Juettemann T;Kähäri AK;Keenan S;Kulesha E;Martin FJ;Maurel T;McLaren WM;Murphy DN;Nag R;Overduin B;Pignatelli M;Pritchard B;Pritchard E;Riat HS;Ruffier M;Sheppard D;Taylor K;Thormann A;Trevanion SJ;Vullo A;Wilder SP;Wilson M;Zadissa A;Aken BL;Birney E;Cunningham F;Harrow J;Herrero J;Hubbard TJ;Kinsella R;Muffato M;Parker A;Spudich G;Yates A;Zerbino DR;Searle SM
通讯作者：
Searle SM
影响因子：
56.9
作者：
Hotopp, Julie C. Dunning;Clark, Michael E.;Werren, John H.
通讯作者：
Werren, John H.
影响因子：
10.7
作者：
Cohen, Ofir;Gophna, Uri;Pupko, Tal
通讯作者：
Pupko, Tal
影响因子：
11.4
作者：
Hotopp, Julie C. Dunning
通讯作者：
Hotopp, Julie C. Dunning