Shpynov S N, Fournier P-E, Pozdnichenko N N, Gumenuk A S, Skiba A A
N.F. Gamaleya NRCEM, Moscow, Russia.
UMR VITROME, Aix-Marseille Université, IRD, Service de Santé des Armées, Assistance Publique-Hôpitaux de Marseille, Institut Hospitalo-Universitaire Méditerranée-Infection, Marseille, France.
New Microbes New Infect. 2018 Mar 30;23:93-102. doi: 10.1016/j.nmni.2018.02.012. eCollection 2018 May.
The development of a formal order analysis (FOA) allowed constructing a classification of 49 genomes of family representatives. Recently FOA has been extended with new tools-'Map of genes,' 'Matrix of similarity' and 'Locality-sensitive hashing'-for a more in-depth study of the structure of rickettsial genomes. The new classification confirmed and supplemented the previously constructed one by determining the position of str. ESF-5, 054, str. IrR/Munich, str. OSU 85-930, str. Khabarovsk, str. 3-7-female6-CWPP and bacterium str. Ac37b. The 'Map of genes' demonstrated the complete genomes and their components in a graphical form. The 'Matrix of similarity' was applied for an in-depth classification to a subtaxonomic category of the strain within the species (11 strains) and (ten strains). The 'Matrix of similarity' determines the degree of homology of complete genomes by pairwise comparison of their components and identification of those being identical and similar in the arrangement of nucleotides. A new genomosystematics approach is proposed for the study of complete genomes and their components through the development and application of FOA tools. Its applications include the development of principles for the classification of microorganisms, based on the analysis of complete genomes and their annotations. This approach may help in the taxonomic classification and characterization of some spp. that are found in large numbers in arthropods worldwide.
正式序分析（FOA）的发展使得构建家族代表的49个基因组的分类成为可能。最近，FOA通过新工具——“基因图谱”、“相似性矩阵”和“局部敏感哈希”得到了扩展，以便更深入地研究立克次氏体基因组的结构。新的分类通过确定str. ESF-5、054、str. IrR/Munich、str. OSU 85-930、str. 哈巴罗夫斯克、str. 3-7-female6-CWPP和细菌str. Ac37b的位置，证实并补充了先前构建的分类。“基因图谱”以图形形式展示了完整基因组及其组成部分。“相似性矩阵”被用于对物种内菌株的亚分类类别进行深入分类（分别为11个菌株和10个菌株）。“相似性矩阵”通过对完整基因组的组成部分进行成对比较并识别核苷酸排列中相同和相似的部分，来确定完整基因组的同源程度。通过开发和应用FOA工具，提出了一种用于研究完整基因组及其组成部分的新的基因组系统学方法。其应用包括基于对完整基因组及其注释的分析，制定微生物分类原则。这种方法可能有助于对在全球节肢动物中大量发现的某些立克次氏体属物种进行分类和特征描述。
