The architecture of a scrambled genome reveals massive levels of genomic rearrangement during development.
The architecture of a scrambled genome reveals massive levels of genomic rearrangement during development.
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DOI：
10.1016/j.cell.2014.07.034
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发表时间：
2014-08-28
期刊：
影响因子：
64.5
通讯作者：
Landweber LF
中科院分区：
文献类型：
--
作者：
Chen X;Bracht JR;Goldman AD;Dolzhenko E;Clay DM;Swart EC;Perlman DH;Doak TG;Stuart A;Amemiya CT;Sebra RP;Landweber LF
单细胞真核生物Oxytrichatrifallax在发育过程中程序性DNA重排完全将其生殖细胞重新连接成体细胞核。这种精心设计的RNA介导的途径消除了中断基因位点的非编码DNA序列，并通过倒位和排列重组剩余片段以产生功能基因。在这里，我们报告尖毛藻种系基因组，并将其与体细胞基因组进行比较，以呈现其大规模基因组重排的全球观点。显著加密的基因组结构包含> 3，500个乱序基因，以及>800个预测的生殖系限制基因表达，以及一些在基因组重排期间经过修饰的基因。不同体细胞基因座的基因片段经常相互交织。单个基因片段可以贡献于多个不同的体细胞基因座。来自相邻体细胞基因座的末端前体片段彼此非常接近，经常重叠。这种基因组组装为基因组重排的研究提供了一个强有力的模型。
Programmed DNA rearrangements in the single-celled eukaryote Oxytricha trifallax completely rewire its germline into a somatic nucleus during development. This elaborate, RNA-mediated pathway eliminates noncoding DNA sequences that interrupt gene loci and reorganizes the remaining fragments by inversions and permutations to produce functional genes. Here, we report the Oxytricha germline genome and compare it to the somatic genome to present a global view of its massive scale of genome rearrangements. The remarkably encrypted genome architecture contains >3,500 scrambled genes, as well as >800 predicted germline-limited genes expressed, and some posttranslationally modified, during genome rearrangements. Gene segments for different somatic loci often interweave with each other. Single gene segments can contribute to multiple, distinct somatic loci. Terminal precursor segments from neighboring somatic loci map extremely close to each other, often overlapping. This genome assembly provides a draft of a scrambled genome and a powerful model for studies of genome rearrangement.
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影响因子：
4.5
作者：
de Koning AP;Gu W;Castoe TA;Batzer MA;Pollock DD
通讯作者：
Pollock DD
影响因子：
7
作者：
Harrow J;Frankish A;Gonzalez JM;Tapanari E;Diekhans M;Kokocinski F;Aken BL;Barrell D;Zadissa A;Searle S;Barnes I;Bignell A;Boychenko V;Hunt T;Kay M;Mukherjee G;Rajan J;Despacio-Reyes G;Saunders G;Steward C;Harte R;Lin M;Howald C;Tanzer A;Derrien T;Chrast J;Walters N;Balasubramanian S;Pei B;Tress M;Rodriguez JM;Ezkurdia I;van Baren J;Brent M;Haussler D;Kellis M;Valencia A;Reymond A;Gerstein M;Guigó R;Hubbard TJ
通讯作者：
Hubbard TJ
DOI：
10.1093/bioinformatics/bts565
发表时间：
2012-12-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Fu L;Niu B;Zhu Z;Wu S;Li W
通讯作者：
Li W
影响因子：
64.5
作者：
Fang W;Wang X;Bracht JR;Nowacki M;Landweber LF
通讯作者：
Landweber LF
影响因子：
64.5
作者：
HERRICK, G;CARTINHOUR, S;WILLIAMS, K
通讯作者：
WILLIAMS, K