Data of de novo genome assembly of the Chlamydia psittaci strain isolated from the livestock in Volga Region, Russian Federation

Valentina A Feodorova; Sergey S Zaitsev; Mariya A Khizhnyakova; Yury V Saltykov; Vitaliy V Evstifeev; Fidail M Khusainov; Sergey I Yakovlev; Olga S Larionova; Vladimir L Motin

doi:10.1016/j.dib.2020.105190

Data of de novo genome assembly of the Chlamydia psittaci strain isolated from the livestock in Volga Region, Russian Federation

Data Brief. 2020 Jan 27:29:105190. doi: 10.1016/j.dib.2020.105190. eCollection 2020 Apr.

Authors

Valentina A Feodorova¹, Sergey S Zaitsev¹, Mariya A Khizhnyakova¹, Yury V Saltykov¹, Vitaliy V Evstifeev², Fidail M Khusainov², Sergey I Yakovlev², Olga S Larionova³, Vladimir L Motin⁴

Affiliations

¹ Laboratory for Molecular Biology and NanoBiotechnology, Federal Research Center for Virology and Microbiology (FRCViM), Branch in Saratov, 410028, Saratov, Russia.
² Laboratory of Viral and Chlamydial Infections, Federal Center for Toxicological, Radiation and Biological Safety, 420074, Kazan, Republic of Tatarstan, Russia.
³ Department for Microbiology, Biotechnology and Chemistry, Saratov State Agrarian University, 410003, Saratov, Russia.
⁴ Department of Pathology, Department of Microbiology & Immunology, University of Texas Medical Branch (UTMB), Galveston, TX 77555, USA.

Abstract

Chlamydiae are obligate intracellular bacteria globally widespread across humans, wildlife, and domesticated animals. Chlamydia psittaci is a primarily zoonotic pathogen with multiple hosts, which can be transmitted to humans, resulting in psittacosis or ornithosis. Since this pathogen is a well-recognized threat to human and animal health, it is critical to unravel in detail the genetic make-up of this microorganism. Though many genomes of C. psittaci have been studied to date, little is known about the variants of chlamydial organisms causing infection in Russian livestock. This research is the first de novo genome assembly of the C. psittaci strain Rostinovo-70 of zoonotic origin that was isolated in Russian Federation. The results were obtained by using standard protocols of sequencing with the Illumina HiSeq 2500 and Oxford Nanopore MinION technology that generated 3.88 GB and 3.08 GB of raw data, respectively. The data obtained are available in NCBI DataBase (GenBank accession numbers are CP041038.1 & CP041039.1). The Multi-Locus Sequence Typing (MLST) showed that the strain Rostinovo-70 together with C. psittaci GR9 and C. psittaci WS/RT/E30 belong to the sequence type (ST)28 that could be further separated into two different clades. Despite C. psittaci Rostinovo-70 and C. psittaci GR9 formed a single clade, the latter strain did not contain a cryptic plasmid characteristis to Rostinovo-70. Moreover, the genomes of two strains differed significantly in the cluster of 30 genes that in Rostinovo-70 were closer to Chlamydia abortus rather than C. psittaci. The alignment of the genomes of C. psittaci and C. abortus in this area revealed the exact boarders of homologous recombination that occurred between two Chlamydia species. These findings provide evidence for the first time of genetic exchange between closely related Chlamydia species.

Keywords: Chlamydia psittaci; Genome assembly; Illumina HiSeq 2500 platform; Oxford Nanopore MinION; Rostinovo-70; de novo genome.