生物学杂志

生物学杂志 ›› 2025, Vol. 42 ›› Issue (4): 101-.doi: 10.3969/j.issn.2095-1736.2025.04.101

• 研究报告 • 上一篇    下一篇

缺陷短波单胞菌DB-19的基因组分析

洪跃辉1, 范红弟2, 吴嘉燕1, 熊群英1, 王江海2,3   

  1. 1. 广东江门中医药职业学院 江门市中药成分及其作用机制重点实验室 江门市健康产品工程技术
    研究中心， 江门 529000； 2. 中山大学 海洋科学学院， 珠海 519082；
    3. 广东省海洋资源与近岸工程重点实验室， 珠海 519082
  • 出版日期:2025-08-18 发布日期:2025-08-14
  • 通讯作者: 王江海，博士，教授，研究方向为海洋环境微生物学，E-mail:wangjhai@mail.sysu.edu.cn
  • 作者简介:洪跃辉，博士，副教授，研究方向为微生物组学，E-mail:yuehuihong@126.com
  • 基金资助:
    广东省普通高校重点领域专项项目（2022ZDZX4116）； 江门市基础与理论科学研究类科技计划项目（126; 2020JC03038）； 广东省海洋资源与近岸工程重点实验室开放基金项目（2021—2022）；广东江门中医药职业学院2023年度院级科研创新团队项目（科创团JMZYYKCT20233001）

Genome analysis of Brevundimonas diminuta DB-19

HONG Yuehui1, FAN Hongdi2, WU Jiayan1, XIONG Qunying1, WANG Jianghai2,3   

  1. 1. Jiangmen Key Laboratory of Traditional Chinese Medicine Ingredients and Their Mechanisms of Action, Jiangmen
    Engineering Technology Research Center of Health Products, Guangdong Jiangmen Chinese Medicine College,
    Jiangmen 529000, China; 2. School of Marine Sciences, Sun Yat-Sen University, Zhuhai 519082, China;
    3. Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Zhuhai 519082, China
  • Online:2025-08-18 Published:2025-08-14

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摘要： 为揭示缺陷短波单胞菌DB-19 (Brevundimonas diminutaDB-19)的遗传背景及其石油烃降解机制，采用Illumina测序、Nanopore测序和生物信息学方法对菌株DB-19的基因组进行分析，获得菌株DB-19的全基因组序列。基因组组装得到1个重叠群，类型为环状染色体，基因组大小为3589837 bp，GC含量为67.38%，一共预测到3609个蛋白质编码基因。使用tRNAscan-SE搜寻到52个tRNA基因，16S rRNA、5S rRNA、23S rRNA和sRNA基因的数目分别为2、2、2和1。基因功能注释显示，在NR、Swiss-Prot、COG、GO、Pfam、PHI、VFDB、ARDB、KEGG、CAZy数据库中获得注释的基因数目分别为3401、2189、2854、1714、2817、812、629、1、3193和89。根据鉴定到的基因推断，菌株DB-19主要通过末端氧化途径降解石油中的正构烷烃，尿黑酸途径和β-ketoadipate途径在菌株DB-19降解芳香族化合物中发挥主要作用。这些结果加深了对缺陷短波单胞菌的认识，有助于设计更有效的方法开展石油污染修复，并为其他微生物的污染物降解机制研究提供重要参考。

关键词: 缺陷短波单胞菌, 基因组, 石油, 烷烃, 芳香烃

Abstract: To reveal the genetic background and the mechanisms of petroleum hydrocarbon degradation inBrevundimonas diminutaDB-19, Illumina sequencing, Nanopore sequencing and bioinformatics methods were used to analyze the genome of strain DB-19. The complete genome sequences of strain DB-19 were obtained. One contig was obtained after genome assembly, and its type was circular chromosome. The genome size was 3589837 bp, and the GC content was 67.38%. A total of 3609 genes coding for proteins were predicted. Fifty-two tRNA genes were found using the tRNAscan-SE. The number of genes coding for 16S rRNA, 5S rRNA, 23S rRNA and sRNA was 2, 2, 2 and 1, respectively. Gene function annotation showed that the number of genes annotated in the NR, Swiss-Prot, COG, GO, Pfam, PHI, VFDB, ARDB, KEGG and CAZy databases was 3401, 2189, 2854, 1714, 2817, 812, 629, 1, 3193 and 89, respectively. According to the identified genes, it was inferred that terminal oxidative pathway was the main pathway for the degradation of n-alkanes in strain DB-19, and that homogentisate pathway and β-ketoadipate pathway played main roles in the degradation of aromatic compounds. These results deepened our understanding ofB. diminuta, contributed to designing more effective methods for the remediation of petroleum pollution, and provided important reference for studying the mechanisms of pollutant degradation in other microorganisms.

Key words: Brevundimonas diminuta, genome, petroleum, alkane, aromatic hydrocarbon

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