Evolutionary genomics of Borrelia burgdorferi sensu lato: findings, hypotheses, and the rise of hybrids.
Evolutionary genomics of Borrelia burgdorferi sensu lato: findings, hypotheses, and the rise of hybrids.
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DOI：
10.1016/j.meegid.2014.03.025
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发表时间：
2014-10
期刊：
影响因子：
--
通讯作者：
Martin CL
中科院分区：
文献类型：
--
作者：
Qiu WG;Martin CL
以莱姆病病原体为代表的伯氏疏螺旋体（Borrelia burgdorferi s.l.）是原核生物中基因组结构最复杂、最多变的一类细菌。伯氏疏螺旋体基因组显示出在地理种群内频繁的重组和有限的基因流动，为研究种群内和种群间水平的细菌进化过程提供了一个很好的窗口。伯氏疏螺旋体基因组的比较分析揭示了一个高度动态的质粒组成，但保守的基因库。基因复制和丢失以及编码表面定位脂蛋白的位点（如PF54基因）的序列变异与物种间的适应性差异密切相关。有许多保守的基因间间隔序列是顺式调控元件和非编码rna的候选序列。共存菌株之间的重组率大约是突变率的三倍。伯氏疏螺旋体种群中大量基因组群的共存可能是由免疫介导的针对主要抗原位点的多样化选择以及对多种宿主物种的适应所驱动的。关于伯氏疏螺旋体不断扩大范围的生态原因（如气候变化、宿主运动或新的适应）以及与其生态和临床变异相关的基因组变异，仍然存在问题。预计从物种内和物种间取样的伯氏疏螺旋体基因组数量将呈爆炸式增长，我们提出了基于基因组的方法来测试适应机制并确定表型变异的分子基础。基因组测序对于监测北美和其他地方以前分离的物种和种群的持续遗传混合也是必要的。
Borrelia burgdorferi sensu lato (B. burgdorferi s.l.), the group of bacterial species represented by Lyme Disease pathogens, has one of the most complex and variable genomic architectures among prokaryotes. Showing frequent recombination within and limited gene flow among geographic populations, the B. burgdorferi s.l. genomes provides an excellent window into the processes of bacterial evolution at both within- and between-population levels. Comparative analyses of B. burgdorferi s.l. genomes revealed a highly dynamic plasmid composition but a conservative gene repertoire. Gene duplication and loss as well as sequence variations at loci encoding surface-localized lipoproteins (e.g., the PF54 genes) are strongly associated with adaptive differences between species. There are a great many conserved intergenic spacer sequences that are candidates for cis-regulatory elements and non-coding RNAs. Recombination among coexisting strains occurs at a rate approximately three times the mutation rate. The coexistence of a large number of genomic groups within local B. burgdorferi s.l. populations may be driven by immune-mediated diversifying selection targeting major antigen loci as well as by adaptation to multiple host species. Questions remain regarding the ecological causes (e.g., climate change, host movements, or new adaptations) of the ongoing range expansion of B. burgdorferi s.l. and on the genomic variations associated with its ecological and clinical variability. Anticipating an explosive growth of the number of B. burgdorferi s.l. genomes sampled from both within and among species, we propose genome-based methods to test adaptive mechanisms and to identify molecular bases of phenotypic variations. Genome sequencing is also necessary to monitor the ongoing genetic admixture of previously isolated species and populations in North America and elsewhere.
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DOI：
10.1093/bioinformatics/btp250
发表时间：
2009-08-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
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DOI：
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发表时间：
2012-02-01
影响因子：
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