Hu Shaohua, Jiang Tao, Zhou Yajun, Ming Desong, Gao Hongzhi, Wang Mingxi
Yun Leung Laboratory for Molecular Diagnostics, School of Biomedical Sciences, Huaqiao University, Xiamen, 361021, Fujian, China.
Department of Clinical Diagnostics, The First Quanzhou Hospital Affiliated to Fujian Medical University, Quanzhou, 362000, Fujian, China.
Mol Genet Genomics. 2017 Feb;292(1):133-144. doi: 10.1007/s00438-016-1261-5. Epub 2016 Oct 28.
Myroides odoratimimus (M. odoratimimus) has been gradually implicated as an important nosocomial pathogen that poses a serious health threat to immunocompromised patients owing to its multi-drug resistance. However, the resistance mechanism is currently unclear. To clarify the antibiotic resistance and infectivity mechanisms of M. odoratimimus, whole genome sequencing was performed on the multi-drug-resistant M. odoratimimus strain PR63039. The genome sequence was completed with single molecule real-time (SMRT) technologies. Then, annotation was performed using RAST and IMG-ER. A number of databases and software programs were used to analyze the genomic characteristics, including GC-Profile, ISfinder, CG viewer, ARDB, CARD, ResFinder, the VFDB database, PHAST and Progressive Mauve. The M. odoratimimus PR63039 genome consisted of a chromosome and a plasmid. The genome contained a large number of resistance genes and virulence factors. The distribution of the resistance genes was distinctive, and a resistance region named MY63039-RR was found. The subsystem features generated by RAST indicated that the annotated genome had 108 genes that were potentially involved in virulence, disease and defense, all of which had strong associations with resistance and pathogenicity. The prophage analysis showed two incomplete prophages in the genome. The genomic analysis of M. odoratimimus PR63039 partially clarified its antibiotic resistance mechanisms and virulence factors. Obtaining a clear understanding of its genomic characteristics will be conducive to the management of multidrug-resistant M. odoratimimus.
气味类志贺氏菌（M. odoratimimus）已逐渐被认为是一种重要的医院病原体，由于其多重耐药性，对免疫功能低下的患者构成严重的健康威胁。然而，目前其耐药机制尚不清楚。为了阐明气味类志贺氏菌的抗生素耐药性和感染机制，对多重耐药的气味类志贺氏菌菌株PR63039进行了全基因组测序。基因组序列采用单分子实时（SMRT）技术完成。然后，使用RAST和IMG-ER进行注释。使用了许多数据库和软件程序来分析基因组特征，包括GC-Profile、ISfinder、CG viewer、ARDB、CARD、ResFinder、VFDB数据库、PHAST和Progressive Mauve。气味类志贺氏菌PR63039基因组由一条染色体和一个质粒组成。该基因组包含大量耐药基因和毒力因子。耐药基因的分布具有独特性，发现了一个名为MY63039-RR的耐药区域。RAST生成的子系统特征表明，注释后的基因组有108个可能参与毒力、疾病和防御的基因，所有这些基因都与耐药性和致病性密切相关。原噬菌体分析显示基因组中有两个不完整的原噬菌体。气味类志贺氏菌PR63039的基因组分析部分阐明了其抗生素耐药机制和毒力因子。清楚了解其基因组特征将有助于对多重耐药的气味类志贺氏菌进行管理。
