發(fā)布者：抗性基因網(wǎng) 時間：2023-06-12 瀏覽量：321
摘要
目的建立一種核心基因組多點序列分型（cgMLST）方案，對奇異變形桿菌進行基因分型和潛在風險克隆群的鑒定。方法在這項工作中，我們提出了一個公開可用的奇異紫外藻cgMLST方案，使用咀嚼BBACA。在總共72個代表該物種多樣性的完整奇異紫茉莉基因組中，建立了一個針對1842個基因的cgMLST方案，635個未完成的（重疊群、染色體和支架）基因組用于其驗證。
結(jié)果我們從695株奇異紫外菌株中共鑒定出205個具有區(qū)域分布特征的CGs。其中，159個獨特的CG分布在16個國家。CG20和CG3攜帶大量共享和獨特的抗生素抗性基因。與引起嚴重尿路感染的P菌毛操縱子相關(guān)的9個毒力基因（papC、papD、papE、papF、papG、papH、papI、papJ和papK）僅在CG20中發(fā)現(xiàn)。由于存在潛在風險，這些CG需要引起注意。結(jié)論本研究創(chuàng)新性地利用全基因組測序技術(shù)結(jié)合生物信息學(xué)管道（chewBBACA）對奇異紫外藻進行了高分辨率分子分型。我們發(fā)現(xiàn)奇異紫茉莉的CGs表現(xiàn)出區(qū)域分布差異。我們希望我們的研究將有助于建立奇異紫外藻的cgMLST
Abstract
Objective A core genome multilocus sequence typing (cgMLST) scheme to genotype and identify
potential risk clonal groups (CGs) in Proteus mirabilis.
Methods In this work, we propose a publicly available cgMLST scheme for P. mirabilis using
chewBBACA. In total 72 complete P. mirabilis genomes, representing the diversity of this species, were
used to set up a cgMLST scheme targeting 1,842 genes, 635 unfinished (contig, chromosome, and
scaffold) genomes were used for its validation.
Results We identified a total of 205 CGs from 695 P. mirabilis strains with regional distribution
characteristics. Of these, 159 unique CGs were distributed in 16 countries. CG20 and CG3 carried large
numbers of shared and unique antibiotic resistance genes. Nine virulence genes (papC, papD, papE,
papF, papG, papH, papI, papJ, and papK) related to the P fimbrial operon that cause severe urinary tract
infections were only found in CG20. These CGs require attention due to potential risks.
Conclusion This research innovatively performs high-resolution molecular typing of P. mirabilis using
whole-genome sequencing technology combined with a bioinformatics pipeline (chewBBACA). We
found that the CGs of P. mirabilis showed regional distribution differences. We expect that our research
will contribute to the establishment of cgMLST for P. mirabilis
https://www.besjournal.com/fileSWYXYHJKX/journal/article/swyxyhjkx/2023/4/PDF/22263.pdf