多种菌序列类型数据库Streptococcus agalactiae含有转基因酶基因的虚假等位基因
Swaine L Chen1,2, Suma Tiruvayipati1, Wen Ying Tang3
1Infectious Diseases Translational Research Programme, Department of Medicine, Division of Infectious Diseases, Yong Loo Lin School of Medicine, National University of Singapore, Singapore, Singapore.
Microbiology spectrum
|July 25, 2024
概括
在Streptococcus agalactiae多部位序列类型 (MLST) 数据库中发现了转基因酶 (tkt) 基因中的污染基因. 该等位基因已被删除,以确保为研究和流行病学提供准确的菌株类型.
科学领域:
- 微生物学 微生物学
- 遗传学 是一个遗传学.
- 生物信息学是一种生物信息学.
背景情况:
- 多部位序列类型 (MLST) 对于细菌菌株特征和流行病学至关重要.
- 转基因酶 (tkt) 基因是Streptococcus agalactiae的MLST方案的一个关键组成部分.
- 对于可靠的微生物监测和研究,MLST数据库需要高准确度.
研究的目的:
- 在S. agalactiae MLST.中使用的tkt基因中识别和表征非正规的等位基因.
- 评估这种异常基因对MLST类型准确性的影响.
- 通过删除有问题的tkt等位基因来纠正S. agalactiae MLST数据库.
主要方法:
- 在S. agalactiae MLST数据库中对tkt基因序列的生物信息分析.
- 对比序列身份分析,以区分正规tkt基因与同源序列.
- 数据库修复和删除错误的等位基因序列和相关的序列类型.
主要成果:
- 鉴定出一种污染性等位基因tkt_134,该等位基因来源于一种同源基因 (tktX),这种基因在S. agalactiae中并不普遍存在.
- 带有tkt_134等位基因的菌株也拥有更接近正规tkt基因的序列,表明污染.
- 2021年9月,tkt_134等位基因和所有相关的序列类型从S. agalactiae MLST数据库中删除.
结论:
- 删除tkt_134等位基因纠正了S. agalactiae MLST数据库中的不准确性.
- 这一行动确保了MLST数据的完整性,用于未来的研究,医学和流行病学应用.
- 保持公共微生物数据库的质量至关重要,即使全基因组测序的兴起.
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