Department of Microbiology and Parasitology, Faculty of Medical Science, Naresuan University, Muang, Phitsanulok, Thailand.
Centre of Excellence in Medical Biotechnology, Faculty of Medical Science, Naresuan University, Muang, Phitsanulok, Thailand.
PeerJ. 2022 Jul 13;10:e13718. doi: 10.7717/peerj.13718. eCollection 2022.
is a major cause of nosocomial infection, and the incidence of extensively drug-resistant (XDRAB) infections has dramatically increased worldwide. In this study, we aimed to explore the complete genome sequence of XDRAB 329, ST1166/98 (Oxford/Pasteur), which is an outbreak clone from a hospital in Thailand. Whole-genome sequencing (WGS) was performed using short-read Illumina and long-read PacBio sequencing, and a conjugation assay of its plasmid was performed. The complete genome sequence of AB329 revealed a circular chromosome 3,948,038 bp in length with 39% GC content. Antibiotic resistance genes (ARGs), including beta-lactam resistance ( , , , , aminoglycoside resistance (-Ia, (3″)-Ib, (6)-Id, A), tetracycline resistance ((B), (R)), macrolide resistance ((E), (E)), and efflux pumps, were found. Mobile genetic elements (MGEs) analysis of AB329 revealed two plasmids (pAB329a and pAB329b), three prophages, 19 genomic islands (GIs), and 33 insertion sequences (ISs). pAB329a is a small circular plasmid of 8,731 bp, and pAB329b is a megaplasmid of 82,120 bp. (3')-VIa was detected in pAB329b, and a major facilitator superfamily (MFS) transporter was detected in the prophage resistance island 4 (AbaR4) harboring tetracycline and aminoglycoside resistance was detected in the genome of AB329. pAB329b, which belongs to Rep-type GR6 (plasmid lineage LN_1), is a conjugative plasmid with the ability to transfer an aminoglycoside resistance gene to sodium azide-resistant This study provides insights into the features of the MGEs of XDRAB which are the main reservoir and source of dissemination of ARGs.
是医院获得性感染的主要原因，广泛耐药的（XDRAB）感染的发生率在全球范围内显著增加。在这项研究中，我们旨在探索来自泰国一家医院的爆发克隆 ST1166/98（牛津/巴斯德）的 XDRAB329 的全基因组序列。使用短读长 Illumina 和长读长 PacBio 测序进行全基因组测序（WGS），并进行了其质粒的接合测定。AB329 的全基因组序列显示一个圆形染色体，长 3948038bp，GC 含量为 39%。发现抗生素耐药基因（ARGs），包括β-内酰胺耐药（、、、、氨基糖苷类耐药（-Ia、（3″）-Ib、（6）-Id、A）、四环素耐药（（B）、（R））、大环内酯类耐药（（E）、（E））和外排泵。AB329 的移动遗传元件（MGEs）分析显示两个质粒（pAB329a 和 pAB329b）、三个前噬菌体、19 个基因组岛（GIs）和 33 个插入序列（ISs）。pAB329a 是一个 8731bp 的小圆形质粒，pAB329b 是一个 82120bp 的大型质粒。在 pAB329b 中检测到（3'）-VIa，在前噬菌体抗性岛 4（AbaR4）中检测到主要易化剂超家族（MFS）转运蛋白，该岛携带四环素和氨基糖苷类耐药基因在 AB329 的基因组中检测到。pAB329b 属于 Rep-type GR6（质粒谱系 LN_1），是一种具有将氨基糖苷类耐药基因转移到叠氮化钠抗性的能力的可接合质粒。这项研究提供了对 XDRAB 的 MGEs 特征的深入了解，MGEs 是 ARGs 的主要储存库和传播源。
