基于基因组序列的脑膜炎奈瑟菌分型方法

Whole genome sequence-based typing methods for Neisseria meningitidis

摘要:

[目的] 建立并评估1种适宜的脑膜炎奈瑟菌（Neisseria meningitidis，Nm）基因组分子分型方法。[方法] 本研究以125株代表性Nm菌株的基因组序列为对象，建立了基于核心基因SNP的基因组分型方法，并与pubMLST网站公布的MLST和cgMLST分型方法进行比较。[结果] 基于核心基因SNP的基因组分型方法和cgMLST方法对125株Nm菌株的分型结果一致性较高，两种方法均明显优于MLST分型方法。基于SNP的基因组分型方法在认识Nm菌的种群结构、界定克隆群方面具有优势；cgMLST分型方法能够对任一菌株进行分型，但不能进行克隆群的界定和归类。[结论] 基于核心基因SNP的基因组分型方法和cgMLST均明显优于MLST分型方法，未来仍有待进一步整合和提高。

关键词:脑膜炎奈瑟菌;核心基因SNP分型;cgMLST;MLST

Abstract:

[Objective] To find a suitable molecular typing method for Neisseria meningitides. [Methods] We used 125 presentative N. meningitidis strains to develop a new typing method, named core genome single nucleotide polymorphism (SNP) typing, based on the whole genome sequencing. This method was compared to the MLST and cgMLST typing that have been published on pubMLST website. [Results] The genotyping results of 125 N. meningitides strains isolates were consistent between the core genome SNP typing and egMLST, both of which are significantly better than MLST. The core genome SNP typing identified the population structure and defined the clonal complexes. Comparatively, cgMLST could type any strain but cannot define or assign its clonal complex. [Conclusion] Core genome SNP typing showed consistent results with cgMLST and both methods are significantly better than MLST.

Key words:Neisseria meningitidis;core genome SNP typing;cgMLST;MLST