Author:
Le Hang Nguyen Thi,Hijikata Minako,Maeda Shinji,Miyabayashi Akiko,Wakabayashi Keiko,Seto Shintaro,Diem Nguyen Thi Kieu,Yen Nguyen Thi Thanh,Van Duc Le,Thuong Pham Huu,Van Huan Hoang,Hoang Nguyen Phuong,Mitarai Satoshi,Keicho Naoto,Kato Seiya
Abstract
AbstractMycobacterium tuberculosis (Mtb) has different features depending on different geographic areas. We collected Mtb strains from patients with smear-positive pulmonary tuberculosis in Da Nang, central Vietnam. Using a whole genome sequencing platform, including genome assembly complemented by long-read-sequencing data, genomic characteristics were studied. Of 181 Mtb isolates, predominant Vietnamese EAI4_VNM and EAI4-like spoligotypes (31.5%), ZERO strains (5.0%), and part of EAI5 (11.1%) were included in a lineage-1 (L1) sublineage, i.e., L1.1.1.1. These strains were found less often in younger people, and they genetically clustered less frequently than other modern strains. Patients infected with ZERO strains demonstrated less lung infiltration. A region in RD2bcg spanning six loci, i.e., PE_PGRS35, cfp21, Rv1985c, Rv1986, Rv1987, and erm(37), was deleted in EAI4_VNM, EAI4-like, and ZERO strains, whereas another 118 bp deletion in furA was specific only to ZERO strains. L1.1.1.1-sublineage-specific deletions in PE_PGRS4 and PE_PGRS22 were also identified. RD900, seen in ancestral lineages, was present in majority of the L1 members. All strains without IS6110 (5.0%) had the ZERO spoligo-pattern. Distinctive features of the ancestral L1 strains provide a basis for investigation of the modern versus ancestral Mtb lineages and allow consideration of countermeasures against this heterogeneous pathogen.
Funder
Ministry of Science and Technology
Japan Agency for Medical Research and Development
Publisher
Springer Science and Business Media LLC
Cited by
3 articles.
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