中文摘要：本研究提出了一种经济、快速的基于PCR的MLST分析技术，该技术可以在不经过预先分离的情况下区分出不同的人型支原体，可直接应用于临床。应用该技术对人型支原体进行基因组分析结果表明，人型支原体遗传变异程度高；该结果为MLST分型技术能够应用于流行病学和病原传播研究，并能准确揭示病原遗传发育关系提供了佐证。
外文摘要：Mycoplasma hominis is an opportunistic human pathogen, associated with clinically diverse disease. Currently, there is no standardised method for typing M. hominis, which would aid in understanding pathogen epidemiology and transmission. Due to availability and costs of whole genome sequencing and the challenges in obtaining adequate M. hominis DNA, the use of whole genome sequence analysis to provide clinical guidance is unpractical for this bacterial species as well as other fastidious organisms. Results: This study identified pan-genome set of 700 genes found to be present in four published reference genomes. A subset of 417 genes was identified to be core genome for 18 isolates and 1 reference. Leave-one-out analysis of the core genes highlighted set of 48 genes that are required to recapture the original phylogenetic relationships observed using whole genome SNP analysis. Three 7-locus MLST schemas with high diversity index (97%) and low dN/dS ratios (0.1, 0.13, and 0.11) were derived that could be used to confer good discrimination between strains and could be of practical use in future studies direct on clinical specimens. Conclusions: The genes proposed in this study could be utilised to design a cost-effective and rapid PCR-based MLST assay that could be applied directly to clinical isolates, without prior isolation. This study includes additional genomic analysis revealing high levels of genetic heterogeneity among this species. This provides a novel and evidence based approach for the development of MLST schema that accurately represent genomic phylogeny for use in epidemiology and transmission studies.
外文关键词：Genomics;Mycoplasma hominis;Snp analysis;Typing schema
作者： Jironkin, A; Brown, RJ; Underwood, A; Chalker, VJ; Spiller, OB
作者单位：英国公共卫生局
期刊名称：BMC GENOMICS
期刊影响因子：3.867
出版年份：2016
出版刊次：11
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