生物技术通报2024，Vol.40Issue(7)：235-246,12.DOI:10.13560/j.cnki.biotech.bull.1985.2024-0158
黄栌枯萎病拮抗细菌CCBC3-3-1的全基因组测序及比较基因组分析
Whole Genome Sequencing and Comparative Genomic Analysis of Antagonistic Bacterium CCBC3-3-1 against Verticillium dahlia
摘要
Abstract
[Objective]A bacterial strain CCBC3-3-1 isolated from the branch of Cotinus coggygria,has strong growth inhibition activity on the causal agent of Verticillium wilt of Cotinus coggygria.Gaining further understanding about the antagonistic mechanism of this strain at the genomic level will provide theoretical basis for developing a new biocontrol agent.[Method]PacBio RS sequencing platform was used to have the whole genome sequencing of CCBC3-3-1,a phylogenetic tree was constructed based on 16S rDNA sequences,comparative genomic analysis with genetically closed species was carried out,and LC-MS based untargeted metabolomics analysis were performed.[Result]The genome size of CCBC3-3-1 was 5.16 Mb with a GC content of 48.08%,and it contained a circular chromosome and three circular plasmids.A total of 5 013 coding DNA sequences(CDSs)were predicted.Through antiSMASH prediction,it was found that there were eight antibiotic and secondary metabolite gene clusters in the genome of CCBC3-3-1,two of which clusters had low similarity with the known ones,and five others had unknown functions.Six known antibiotics were identified in the fermentation broth of CCBC3-3-1.The results of comparative genomic analysis showed that there were significant differences between the genome of CCBC3-3-1 and other four closely related Pantoea species.CCBC3-3-1 strain formed a relatively independent branch on the 16S rDNA phylogenetic tree.[Conclusion]CCBC3-3-1 strain is a new variant species of Pantoea genus,which can produce various antibiotics.It has important application potential in the biological control of the Verticillium wilt of C.coggygria.关键词
黄栌/大丽轮枝菌/泛菌/拮抗作用/全基因组测序Key words
Cotinus coggygria/Verticillium dahlia/Pantoea/antagonism/whole genome sequencing引用本文复制引用
周江鸿,车少臣,夏菲,仲丽,仇兰芬,李广,刘倩,张国锋,邵金丽,李娜..黄栌枯萎病拮抗细菌CCBC3-3-1的全基因组测序及比较基因组分析[J].生物技术通报,2024,40(7):235-246,12.基金项目
北京市公园管理中心科技课题(ZX2018016) （ZX2018016）
