Jiangsu Co-Innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou University, Yangzhou 225009, PR China.
Jiangsu Key Laboratory of Zoonosis, Yangzhou University, Yangzhou 225009, PR China.
Microb Genom. 2022 Apr;8(4). doi: 10.1099/mgen.0.000817.
Although Derby ST71 strains have been recognized as poultry-specific by previous studies, multiple swine-associated . Derby ST71 strains were identified in this long-term, multi-site epidemic study. Here, 15 representative swine-associated . Derby ST71 strains were sequenced and compared with 65 (one swine-associated and 64 poultry-associated) . Derby ST71 strains available in the NCBI database at a pangenomic level through comparative genomics analysis to identify genomic features related to the differentiation of swine-associated strains and previously reported poultry-associated strains. The distribution patterns of known pathogenicity islands (SPIs) and virulence factor (VF) encoding genes were not capable of differentiating between the two strain groups. The results demonstrated that the . Derby ST71 population harbours an open pan-genome, and swine-associated ST71 strains contain many more genes than the poultry-associated strains, mainly attributed to the prophage sequence contents in the genomes. The numbers of prophage sequences identified in the swine-associated strains were higher than those in the poultry-associated strains. Prophages specifically harboured by the swine-associated strains were found to contain genes that facilitate niche adaptation for the bacterial hosts. Gene deletion experiments revealed that the gene specifically present in the prophage of the swine-associated strains is important for . Derby to adhere onto the host cells. This study provides novel insights into the roles of prophages during the genome differentiation of .
虽然以前的研究已经将德比 ST71 菌株认定为家禽特异性的，但在这项长期的多地点流行性病学研究中，鉴定出了多株与猪相关的德比 ST71 菌株。在此，对 15 株具有代表性的与猪相关的德比 ST71 菌株进行了测序，并与 NCBI 数据库中 65 株（1 株与猪相关，64 株与家禽相关）德比 ST71 菌株进行了比较，通过比较基因组学分析在全基因组水平上比较了它们的基因组特征，以确定与猪相关菌株和先前报道的家禽相关菌株分化相关的基因组特征。已知毒力岛（SPIs）和编码毒力因子（VF）的分布模式无法区分这两组菌株。结果表明，德比 ST71 种群拥有一个开放的泛基因组，与家禽相关的 ST71 菌株比与猪相关的菌株包含更多的基因，主要归因于基因组中的噬菌体序列内容。与猪相关的菌株中鉴定出的噬菌体序列数量高于与家禽相关的菌株。发现专门存在于与猪相关的菌株中的噬菌体含有有助于细菌宿主适应小生境的基因。基因缺失实验表明，与猪相关的菌株中噬菌体特有的基因对于德比 ST71 黏附到宿主细胞是重要的。本研究为噬菌体在德比 ST71 基因组分化过程中的作用提供了新的见解。
