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Ubiquitous and multifaceted: SIT53 spoligotype does not correlate with any particular family of Mycobacterium tuberculosis
Tuberculosis ( IF 2.8 ) Pub Date : 2021-01-01 , DOI: 10.1016/j.tube.2020.102024
Igor Mokrousov 1
Affiliation  

Euro-American lineage (Lineage 4) of Mycobacterium tuberculosis comprises genetically and geographically diverse families that differ in their clinical and/or epidemiological capacities. Due to the characteristic structure of the CRISPR locus (presence of almost all 43 classical spacers except for deleted signals 33-36), spoligotype SIT53 takes the basal position in the evolution of this lineage. In the SITVIT database, it is assigned to the "ill-defined" T family and T1 subfamily. Here, I analyzed the phylogenetic diversity of SIT53 isolates and discussed interconnected terminological issues concerning M. tuberculosis population structure. The 24-MIRU-VNTR profiles of 266 SIT53 isolates from Europe, Asia, Africa, and South America were submitted to the phylogenetic analysis jointly with reference profiles of different families from MIRU-VNTRplus database. Under this analysis, SIT53 isolates were clustered within different and distant families such as Ghana, NEW-1 (L4.5), TUR (L4.2.2.1), etc whereas many remained unclassified within L4. This confirms the evolutionarily basal position of this spoligotype and in its turn, this demonstrates that SIT53 does not correspond to any particular family of M. tuberculosis. Instead, different SIT53 subpopulations with evolutionarily stable and unchanged CRISPR locus gave rise to different and distant families that in many instances evolved through long-term allopatric evolution.

中文翻译:

无处不在和多方面:SIT53 spoligotype 与任何特定的结核分枝杆菌家族无关

结核分枝杆菌的欧美谱系(谱系 4)包括基因和地理上不同的家族,它们的临床和/或流行病学能力不同。由于 CRISPR 基因座的特征结构(存在几乎所有 43 个经典间隔区,除了删除的信号 33-36),spoligotype SIT53 在该谱系的进化中占据基础位置。在 SITVIT 数据库中,它被分配到“不明确”的 T 家族和 T1 亚家族。在这里,我分析了 SIT53 分离株的系统发育多样性,并讨论了有关结核分枝杆菌种群结构的相互关联的术语问题。来自欧洲、亚洲、非洲的 266 株 SIT53 分离株的 24-MIRU-VNTR 和南美洲与来自 MIRU-VNTRplus 数据库的不同科的参考谱一起提交系统发育分析。根据该分析,SIT53 分离株聚集在不同的远距离家族中,例如加纳、NEW-1 (L4.5)、TUR (L4.2.2.1) 等,而许多在 L4 中仍未分类。这证实了这种 spoligotype 的进化基础位置,反过来,这表明 SIT53 不对应于任何特定的结核分枝杆菌家族。相反,具有进化稳定和未改变的 CRISPR 基因座的不同 SIT53 亚群产生了不同和遥远的家族,这些家族在许多情况下是通过长期的异域进化进化而来的。TUR (L4.2.2.1) 等,而许多在 L4 中仍未分类。这证实了这种 spoligotype 的进化基础位置,反过来,这表明 SIT53 不对应于任何特定的结核分枝杆菌家族。相反,具有进化稳定和未改变的 CRISPR 基因座的不同 SIT53 亚群产生了不同和遥远的家族,这些家族在许多情况下是通过长期的异域进化进化而来的。TUR (L4.2.2.1) 等,而许多在 L4 中仍未分类。这证实了这种 spoligotype 的进化基础位置,反过来,这表明 SIT53 不对应于任何特定的结核分枝杆菌家族。相反,具有进化稳定和未改变的 CRISPR 基因座的不同 SIT53 亚群产生了不同和遥远的家族,这些家族在许多情况下是通过长期的异域进化进化而来的。
更新日期:2021-01-01
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