Genome alignment, evolution of prokaryotic genome organization, and prediction of gene function using genomic context
Genome alignment, evolution of prokaryotic genome organization, and prediction of gene function using genomic context
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DOI：
10.1101/gr.gr-1619r
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发表时间：
2001-03-01
期刊：
影响因子：
7
通讯作者：
Koonin, EV
中科院分区：
文献类型：
--
作者：
Wolf, YI;Rogozin, IB;Koonin, EV
原核生物中的基因顺序比蛋白质序列较小得多。在所有或大多数细菌和古细菌基因组中，只有几个操纵子，主要是用于物理相互作用的蛋白质代码的操纵子。然而，即使是被观察到的呼叫的操纵组织的有限保护，也可以通过多个基因组比较提供有价值的进化和功能线索。开发了一个用于构建两个基因组中保守基因字符串的局部比分的程序。使用蒙特卡洛模拟评估了局部比对的统计显着性。为所有完全测序的细菌和古细菌基因组生成了一组局部比分，对于每个基因组，构建了模板锚定的多个比对。在大多数成对基因组比较中，
Gene order in prokaryotes is conserved to a much lesser extent than protein sequences. Only several operons, primarily those that code for physically interacting proteins, are conserved in all or most of the bacterial and archaeal genomes. Nevertheless, even the limited conservation of operon organization that is observed call provide valuable evolutionary and functional clues through multiple genome comparisons. A program for constructing gapped local alignments of conserved gene strings in two genomes was developed. The statistical significance of the local alignments was assessed using Monte Carlo simulations. Sets of local alignments were generated for all pairs of completely sequenced bacterial and archaeal genomes, and for each genome a template-anchored multiple alignment was constructed. In most pairwise genome comparisons,