Kim Eiseul, Jung Hae-In, Park Si Hong, Kim Hae-Yeong, Kim Soo-Ki
Institute of Life Sciences & Resources and Department of Food Science and Biotechnology, Kyung Hee University, Yongin, 17104, Korea.
Department of Animal Sciences and Technology, Konkuk University, Seoul, 05029, Korea.
AMB Express. 2023 Mar 11;13(1):30. doi: 10.1186/s13568-023-01537-8.
The Burkholderia cepacia complex (BCC) is a Gram-negative bacterial, including Burkholderia contaminans species. Although the plain Burkholderia is pervasive from taxonomic and genetic perspectives, a common characteristic is that they may use the quorum-sensing (QS) system. In our previous study, we generated the complete genome sequence of Burkholderia contaminans SK875 isolated from the respiratory tract. To our knowledge, this is the first study to report functional genomic features of B. contaminans SK875 for understanding the pathogenic characteristics. In addition, comparative genomic analysis for five B. contaminans genomes was performed to provide comprehensive information on the disease potential of B. contaminans species. Analysis of average nucleotide identity (ANI) showed that the genome has high similarity (> 96%) with other B. contaminans strains. Five B. contaminans genomes yielded a pangenome of 8832 coding genes, a core genome of 5452 genes, the accessory genome of 2128 genes, and a unique genome of 1252 genes. The 186 genes were specific to B. contaminans SK875, including toxin higB-2, oxygen-dependent choline dehydrogenase, and hypothetical proteins. Genotypic analysis of the antimicrobial resistance of B. contaminans SK875 verified resistance to tetracycline, fluoroquinolone, and aminoglycoside. Compared with the virulence factor database, we identified 79 promising virulence genes such as adhesion system, invasions, antiphagocytic, and secretion systems. Moreover, 45 genes of 57 QS-related genes that were identified in B. contaminans SK875 indicated high sequence homology with other B. contaminans strains. Our results will help to gain insight into virulence, antibiotic resistance, and quorum sensing for B. contaminans species.
洋葱伯克霍尔德菌复合体（BCC）是一种革兰氏阴性菌，包括污染伯克霍尔德菌。尽管普通的伯克霍尔德菌从分类学和遗传学角度来看分布广泛，但它们的一个共同特征是可能使用群体感应（QS）系统。在我们之前的研究中，我们生成了从呼吸道分离出的污染伯克霍尔德菌SK875的完整基因组序列。据我们所知，这是第一项报道污染伯克霍尔德菌SK875功能基因组特征以了解其致病特性的研究。此外，对五个污染伯克霍尔德菌基因组进行了比较基因组分析，以提供关于污染伯克霍尔德菌物种致病潜力的全面信息。平均核苷酸同一性（ANI）分析表明，该基因组与其他污染伯克霍尔德菌菌株具有高度相似性（>96%）。五个污染伯克霍尔德菌基因组产生了一个由8832个编码基因组成的泛基因组、一个由5452个基因组成的核心基因组、一个由2128个基因组成的辅助基因组和一个由1252个基因组成的独特基因组。186个基因是污染伯克霍尔德菌SK875特有的，包括毒素higB-2、氧依赖性胆碱脱氢酶和假定蛋白。对污染伯克霍尔德菌SK875的抗菌耐药性进行的基因型分析证实了其对四环素、氟喹诺酮和氨基糖苷类药物的耐药性。与毒力因子数据库相比，我们鉴定出79个有前景的毒力基因，如黏附系统、侵袭、抗吞噬和分泌系统。此外，在污染伯克霍尔德菌SK875中鉴定出的57个与QS相关的基因中的45个与其他污染伯克霍尔德菌菌株具有高度序列同源性。我们的结果将有助于深入了解污染伯克霍尔德菌的毒力、抗生素耐药性和群体感应。
