Laboratory of Molecular Microbiology, Institute of Biotechnology, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Street, Cau Giay District, Hanoi, Vietnam.
Laboratory of Microbiology, Military Institute of Preventive Medicine, 21 Trung Liet Street, Dong Da District, Hanoi, Vietnam.
Ann Clin Microbiol Antimicrob. 2019 May 6;18(1):16. doi: 10.1186/s12941-019-0315-z.
Invasive meningococcal disease (IMD) persists in military units in Vietnam despite the availability of antibiotics and vaccines. A hindrance to reducing the incidence of IMD in Vietnam is a lack of molecular data from isolates of the causative agent, Neisseria meningitidis from this country. Here, we characterized key genetic and epidemiological features of an invasive N. meningitidis isolate from a military unit in Vietnam using whole-genome sequencing.
Neisseria meningitidis was isolated from a conscript admitted for meningitis and tested against seven antibiotics. DNA from the isolate was extracted and sequenced using the Illumina HiSeq platform. Denovo assembly and scaffolding were performed to construct a draft genome assembly, from which genes were predicted and functionally annotated. Genome analysis included epidemiological characterization, genomic composition and identification of antibiotic resistance genes.
Susceptibility testing of the isolate showed high levels of resistance to chloramphenicol and diminished susceptibility to ampicillin and rifampicin. A draft genome of ~ 2.1 Mb was assembled, containing 2451 protein coding sequences, 49 tRNAs and 3 rRNAs. Fifteen coding sequences sharing ≥ 84% identity with known antibiotic resistance genes were identified. Genome analysis revealed abundant repetitive DNAs and two prophages. Epidemiological typing revealed newly described sequence type, antigenic finetype and Bexsero Antigen Sequence Typing (BAST). The BAST profile showed no coverage by either Bexsero or Trumenba.
Our results present the first genome assembly of an invasive N. meningitidis isolate from a military unit in Vietnam. This study illustrates the usefulness of whole genome sequencing (WGS) analysis for epidemiological and antibiotic resistance studies and surveillance of IMD in Vietnam.
尽管有抗生素和疫苗可用，但侵袭性脑膜炎奈瑟菌病（IMD）在越南的军事单位中仍然存在。阻碍越南降低 IMD 发病率的一个因素是缺乏该国引起这种疾病的病原体脑膜炎奈瑟菌分离株的分子数据。在这里，我们使用全基因组测序技术对来自越南一个军事单位的侵袭性脑膜炎奈瑟菌分离株的关键遗传和流行病学特征进行了描述。
从一名因脑膜炎入院的新兵中分离出脑膜炎奈瑟菌，并对其进行了七种抗生素的药敏试验。从分离株中提取 DNA，使用 Illumina HiSeq 平台进行测序。进行从头组装和支架构建，以构建基因组草图组装，从中预测和功能注释基因。基因组分析包括流行病学特征描述、基因组组成和抗生素耐药基因鉴定。
分离株的药敏试验显示对氯霉素高度耐药，对氨苄西林和利福平的敏感性降低。组装了一个约 2.1Mb 的基因组草图，其中包含 2451 个编码序列、49 个 tRNA 和 3 个 rRNA。鉴定出 15 个编码序列与已知抗生素耐药基因的相似度≥84%。基因组分析显示大量重复 DNA 和两个前噬菌体。流行病学分型显示了新描述的序列型、抗原型和 Bexsero 抗原序列分型（BAST）。BAST 图谱未被 Bexsero 或 Trumenba 覆盖。
我们的研究结果提供了来自越南一个军事单位的侵袭性脑膜炎奈瑟菌分离株的首个基因组组装。本研究说明了全基因组测序（WGS）分析在流行病学和抗生素耐药性研究以及越南 IMD 监测中的有用性。
