Laboratory of Infectious Diseases, Graduate School of Infection Control Sciences & Ōmura Satoshi Memorial Institute, Kitasato University, Tokyo, Japan.
Bioresources Collection and Research Division, Bioresources Collection and Bioinformation Department, Nakdonggang National Institute of Biological Resources (NNIBR), Sangju, Korea.
Ann Lab Med. 2024 Jan 1;44(1):47-55. doi: 10.3343/alm.2024.44.1.47. Epub 2023 Sep 4.
Staphylococcal cassette chromosome type V (SCC V) methicillin-resistant (MRSA) has been recovered from patients and livestock. Using comparative genomic analyses, we evaluated the phylogenetic emergence of SCC V after transmission from overseas donor strains to Korean recipient strains.
Sixty-three complete MRSA SCC V genomes (including six Korean clinical isolates) were used to construct a phylogenetic tree. Single-nucleotide polymorphisms were identified using Snippy, and a maximum-likelihood-based phylogenetic tree was constructed using RAxML. The possible emergence of the most common ancestor was estimated using BactDating. To estimate horizontal gene transfer (HGT) events, Ranger-dtl was applied to 818 SCC V strains using publicly available whole-genome data.
The phylogenetic tree showed five major clades. German strains formed a major clade; their possible origin was traced to the 1980s. The emergence of Korean SCC V clinical isolates was traced to 2000-2010. HGT events in spp. were identified in seven strains. P7 (Hong Kong outbreak strain) served as the donor strain for two Korean sequence type (ST) 59 strains, whereas the other five recipient strains emerged from different SCC V donors.
Most Korean SCC V strains may have emerged during 2000-2010. A unique MRSA SCC V strain, ST72 (a Korean common type of community-associated MRSA), was also identified. The genomic dynamics of this clone with a zoonotic background should be monitored to accurately understand MRSA evolution.
已从患者和牲畜中分离出葡萄球菌盒式染色体类型 V（SCC V）耐甲氧西林金黄色葡萄球菌（MRSA）。我们通过比较基因组分析，评估了 SCC V 从海外供体菌株传播到韩国受主菌株后的系统发育出现情况。
使用 63 个完整的 MRSA SCC V 基因组（包括 6 个韩国临床分离株）构建系统发育树。使用 Snippy 鉴定单核苷酸多态性，使用 RAxML 构建基于最大似然的系统发育树。使用 BactDating 估计最常见祖先的可能出现时间。为了估计水平基因转移（HGT）事件，使用 Ranger-dtl 对 818 个 SCC V 株系应用了公开的全基因组数据。
系统发育树显示了五个主要的分支。德国菌株形成了一个主要分支，它们的可能起源可以追溯到 20 世纪 80 年代。韩国 SCC V 临床分离株的出现可以追溯到 2000-2010 年。在 spp.中发现了 7 株 HGT 事件。P7（香港暴发株）是两个韩国序列型（ST）59 株系的供体株，而其他五个受主株系则来自不同的 SCC V 供体株。
大多数韩国 SCC V 株系可能在 2000-2010 年间出现。还鉴定了一种独特的 MRSA SCC V 株系 ST72（一种韩国常见的社区相关 MRSA）。应监测具有动物源性背景的这种克隆的基因组动态，以准确了解 MRSA 的进化。
