俄罗斯及其邻国炭疽芽孢杆菌分离株的系统发育分析。
Phylogenetics of Bacillus anthracis isolates from Russia and bordering countries.
机构信息
Federal Government Health Institution «Stavropol Plague Control Research Institute» of the Federal Service for Surveillance in the Sphere of Consumers Rights Protection and Human Welfare, 13-15 Sovetskaya Str, 355035 Stavropol, Russian Federation.
Federal Government Health Institution «Stavropol Plague Control Research Institute» of the Federal Service for Surveillance in the Sphere of Consumers Rights Protection and Human Welfare, 13-15 Sovetskaya Str, 355035 Stavropol, Russian Federation.
出版信息
Infect Genet Evol. 2021 Aug;92:104890. doi: 10.1016/j.meegid.2021.104890. Epub 2021 May 5.
Anthrax is a concern for public health and veterinary medicine in Russia. The available phylogenetic data on isolates from Russia and neighboring CIS countries are clearly not enough to gain a better understanding of their position in the global phylogenetic population structure of this pathogen. In this study, we analyzed the genomes of 66 Bacillus anthracis strains, which were isolated between 1935 and 2019 from different sources in Russia, as well as in Ukraine, Azerbaijan, Georgia, Armenia and Moldova. Whole genome SNP analysis of genomes of 66 strains obtained in this study along with 222 B. anthracis genomes available in the GenBank database revealed 7242 SNPs used to construct a phylogenetic reconstruction with the method of Maximum Likelihood. Studied strains belong to 6 different genetic groups: A.Br.008(A.Br.008/009), A.Br.081(Ames), A.Br.014(A.Br.Aust94), A.Br.082(A.Br.001/002), A.Br.034(A.Br.005/006, Ancient A) and B.Br.002 (B.Br.001/002). Within the group A.Br.014(A.Br.Aust94) a subcluster A.Br.029 of strains isolated in Georgia, Armenia, Azerbaijan, Russia (Republic of Dagestan) and Turkey, named Caucasus-East Anatolia (CEA), was identified. In the subgroup A.Br.105(Tsiankovskii) the cluster A.Br.117 of strains from Russia, Ukraine and Slovakia are assigned, in the subgroup A.Br118 (STI) - cluster A.Br.123 with strains from Russia and Georgia and cluster A.Br.125 with strains from Republic of Dagestan. New subclusters B.Br.017("EUROPE") were identified in the B.Br.002(B.Br.001/002) cluster, represented by strains from the European part of Russia, as well as from South Korea and Finland. For 8 clusters and subclusters, the SNP markers were identified. The study confirmed a significant genetic diversity of the strains isolated in Russia and border countries and clarified their position in the phylogenetic structure of the global B. anthracis population. New genetic clusters A.Br.029 (CEA), A.Br.117, A.Br.123, A.Br.125, and B.Br.017 («EUROPE») were defined. 96 marker SNPs specific for these clusters were identified.
炭疽是俄罗斯公共卫生和兽医领域关注的问题。目前，有关俄罗斯和独联体国家分离株的可用系统发育数据，显然不足以更好地了解它们在该病原体全球系统发育种群结构中的位置。在这项研究中，我们分析了 1935 年至 2019 年间从俄罗斯不同来源以及乌克兰、阿塞拜疆、格鲁吉亚、亚美尼亚和摩尔多瓦分离的 66 株炭疽杆菌菌株的基因组。对本研究中获得的 66 株菌株的全基因组 SNP 分析以及 GenBank 数据库中 222 株炭疽杆菌基因组进行分析，共发现 7242 个 SNP 用于构建最大似然法的系统发育重建。研究菌株属于 6 个不同的遗传群：A.Br.008(A.Br.008/009)、A.Br.081(Ames)、A.Br.014(A.Br.Aust94)、A.Br.082(A.Br.001/002)、A.Br.034(A.Br.005/006、古 A)和 B.Br.002 (B.Br.001/002)。在 A.Br.014(A.Br.Aust94)群内，鉴定出了一个在格鲁吉亚、亚美尼亚、阿塞拜疆、俄罗斯(达吉斯坦共和国)和土耳其分离的菌株亚群 A.Br.029，命名为高加索-东安纳托利亚(CEA)。在 A.Br.105(Tsiankovskii)亚群中，鉴定出了来自俄罗斯、乌克兰和斯洛伐克的菌株聚类 A.Br.117，在 A.Br.118(STI)亚群中，鉴定出了来自俄罗斯和格鲁吉亚的菌株聚类 A.Br.123 和来自达吉斯坦共和国的菌株聚类 A.Br.125。在 B.Br.002(B.Br.001/002)聚类中，还鉴定出了新的 B.Br.017(“EUROPE”)亚群，代表菌株来自俄罗斯的欧洲部分，以及韩国和芬兰。确定了 8 个聚类和亚群的 SNP 标记。该研究证实了在俄罗斯和边境国家分离的菌株具有显著的遗传多样性，并阐明了它们在炭疽杆菌全球种群系统发育结构中的位置。定义了新的遗传聚类 A.Br.029(CEA)、A.Br.117、A.Br.123、A.Br.125 和 B.Br.017(“EUROPE”)。鉴定出了 96 个针对这些聚类的特异性标记 SNP。
Zotero 插件