基于基因型定型方法的Brucella abortus种群结构的比较,分辨率不同
Carine R Pereira1, Raquel C Neia2, Saulo B Silva3
1Faculdade de Zootecnia e Medicina Veterinária, Universidade Federal de Lavras, Lavras, Minas Gerais, Brazil.
Journal of microbiological methods
|June 21, 2023
概括
通过比较Brucella abortus的基因型鉴定方法,像SNP和核心基因组MLST这样的全基因组测序 (WGS) 技术为爆发调查提供了更高的分辨率,而基于VNTR的方法则适用于高流行情况.
科学领域:
- 微生物学 微生物学
- 遗传学 是一个遗传学.
- 流行病学 流行病学
背景情况:
- 乳病传播动态对全球公共卫生至关重要.
- 了解Brucella abortus的种群结构有助于疾病控制.
- 存在各种基因型化技术,分辨率和成本各不相同.
研究的目的:
- 为了比较巴西Brucella abortus分离物种的种群结构.
- 评估八种不同的基因型定型方法的歧视力.
- 确定流行病学调查中最有效的技术.
主要方法:
- 53个Brucella abortus分离物的全基因组测序.
- 使用多个位置变量数串重复分析 (MLVA),多位置序列类型化 (MLST),核心基因组MLST (cgMLST) 和单核酸多态 (SNP) 检测 (parSNP,NASP) 的分析.
- 使用基于平均距离的等级分组对基因型化结果进行比较.
主要成果:
- MLST方法 (MLST9,MLST21) 显示出最低的分辨率 (4种基因型).
- MLVA方法 (MLVA8,MLVA11,MLVA16) 显示分辨率增加 (6,16,44个基因型).
- cgMLST (45种基因型) 和SNP方法 (44种基因型) 提供了最高的分辨率,结果与近乎一致.
结论:
- 基因型化技术的选择显著影响流行病学结论.
- 基于VNTR的技术适用于高患病率兽病情景.
- 全基因组测序方法 (SNP,cgMLST) 为疫情调查提供了优越的区分能力.
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