Genomic features of Mycobacterium avium subsp. hominissuis isolated from pigs inJapan.

Tetsuya Komatsu,Kayoko Matsuo,Justice Opare Odoi,Tokuma Yanai,Mikihiko Kawai,Kenji Ohya,Tomotada Iwamoto,Kotaro Sawai,Shiomi Yoshida,Toshihiro Ito,Tetsuo Asai,Fumito Maruyama,Shota Suganuma,Yukiko Nishiuchi,Akemi Hasebe,Hirokazu Yano,Takayuki Wada,Hideto Fukushi,Manabu Ato,Kentaro Arikawa,Akinobu Ota ,Anthony D Baughn

doi:10.46471/gigabyte.33

Abstract

Mycobacterium avium subsp. hominissuis (MAH) is one of the most important agents causing non-tuberculosis mycobacterial infection in humans and pigs. There have been advances in genome analysis of MAH from human isolates, but studies of isolates from pigs are limited despite its potential source of infection to human. Here, we obtained 30 draft genome sequences of MAH from pigs reared in Japan. The 30 draft genomes were 4,848,678-5,620,788bp in length, comprising 4652-5388 coding genes and 46-75 (median: 47) tRNAs. All isolates had restriction modification-associated genes and 185-222 predicted virulence genes. Two isolates had tRNA arrays and one isolate had a clustered regularly interspaced short palindromic repeat (CRISPR) region. Our results will be useful for evaluation of the ecology of MAH by providing a foundation for genome-based epidemiological studies.

Highlights

The method used for bacterial isolation is available in protocols.io [16]
To confirm the existence of mutations detected by Resistance Gene Identifier (RGI), we retrieved the respective drug resistance-associated genes from draft genome sequences, aligned by Molecular Evolutionary Genetics Analysis (MEGA) 7.0, and manually checked for mutations in the nucleotide sequences
We conducted phylogenetic analysis based on hsp65 and rpoB genes retrieved from the draft genome, and all isolates in this study were classified as Mycobacterium avium subsp. hominissuis (MAH) (Figure 3)

Summary

Introduction

The method used for bacterial isolation is available in protocols.io [16]. Mesenteric or mandibular lymph nodes with mycobacterial granulomatous lesions were mixed with 400 μl of 2% NaOH and incubated at room temperature overnight. Isolates positive for MAV were identified by sequencing hsp65 and rpoB genes [19, 20]. Basic Local Alignment Search Tool (BLAST) analysis was conducted using partial sequences of rpoB gene.

Results

Conclusion