The C-savignyi genetic map and its integration with the reference sequence facilitates insights into chordate genome evolution
The C-savignyi genetic map and its integration with the reference sequence facilitates insights into chordate genome evolution
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DOI：
10.1101/gr.078576.108
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发表时间：
2008-08-01
期刊：
影响因子：
7
通讯作者：
Sidow, Arend
中科院分区：
文献类型：
--
作者：
Hill, Matthew M.;Broman, Karl W.;Sidow, Arend
uroChordate ciona savignyi是一种用于研究核核进化，发育和基因调节的新兴模型生物。人群中多态性的极端水平激发了基因组组装中的新颖方法，我们在这里继续发展。具体而言，我们通过开发全面的遗传图，而没有物理图中间，我们介绍了所有C. savignyi染色体的重建。所得的遗传图是完整的，为14个染色体中的每一个都有一个连锁组。涵盖了83％的参考基因组序列。染色体的重建使我们能够通过将C. savignyi的基因组与其不同的姐妹物种Ciona Intestinalis进行比较，研究高度多态性物种中基因组结构的演变。这两个基因组都通过内骨体内重排广泛重塑。染色体变化极为罕见。这与在脊椎动物中观察到的情况形成鲜明对比，脊椎动物互色体事件很常见。当考虑到中性理论时，这些结果表明，具有较大种群和小种群的动物物种的进化方式根本不同。
The urochordate Ciona savignyi is an emerging model organism for the study of chordate evolution, development, and gene regulation. The extreme level of polymorphism in its population has inspired novel approaches in genome assembly, which we here continue to develop. Specifically, we present the reconstruction of all of C. savignyi's chromosomes via the development of a comprehensive genetic map, without a physical map intermediate. The resulting genetic map is complete, having one linkage group for each one of the 14 chromosomes. Eighty-three percent of the reference genome sequence is covered. The chromosomal reconstruction allowed us to investigate the evolution of genome structure in highly polymorphic species, by comparing the genome of C. savignyi to its divergent sister species, Ciona intestinalis. Both genomes have been extensively reshaped by intrachromosomal rearrangements. Interchromosomal changes have been extremely rare. This is in striking contrast to what has been observed in vertebrates, where interchromosomal events are commonplace. These results, when considered in light of the neutral theory, suggest fundamentally different modes of evolution of animal species with large versus small population sizes.