生物技术通报 ›› 2023, Vol. 39 ›› Issue (10): 292-303.doi: 10.13560/j.cnki.biotech.bull.1985.2023-0281

• 研究报告 • 上一篇    下一篇

基于苯酚降解的粪产碱杆菌Alcaligenes faecalis JF101的全基因组分析

张傲洁1(), 李青云1,2(), 宋文红1, 颜少慧1, 唐爱星1,2, 刘幽燕1,2   

  1. 1.广西大学化学化工学院,南宁 530004
    2.广西生物炼制实验室,南宁 530004
  • 收稿日期:2023-03-27 出版日期:2023-10-26 发布日期:2023-11-28
  • 通讯作者: 李青云,女,博士,讲师,研究方向:环境微生物学;E-mail: qyli@gxu.edu.cn
  • 作者简介:张傲洁,女,硕士研究生,研究方向:化学工程; E-mail: zhangaojieao@163.com
  • 基金资助:
    国家自然科学基金项目(51108098);广西大学科研基金项目(XJZ130360)

Whole Genome Sequencing Analysis of a Phenol-degrading Strain Alcaligenes faecalis JF101

ZHANG Ao-jie1(), LI Qing-yun1,2(), SONG Wen-hong1, YAN Shao-hui1, TANG Ai-xing1,2, LIU You-yan1,2   

  1. 1. College of Chemistry and Chemical Engineering, Guangxi University, Nanning 530004
    2. Laboratory of Biological Refining in Guangxi, Nanning 530004
  • Received:2023-03-27 Published:2023-10-26 Online:2023-11-28

摘要:

粪产碱杆菌属对芳香族类物质表现出广泛的降解能力,本研究对1株粪产碱杆菌(Alcaligenes faecalis)JF101开展苯酚降解基因解析,并进一步挖掘其潜在功能。通过对菌株JF101全基因组测序、组装和功能注释,分析其降解苯酚的功能基因,并与5株近缘菌株开展比较基因组学研究。结果表明,JF101基因组大小为4 143 816 bp,GC含量为 57.44%,含有3 804个编码蛋白基因和55个tRNA、9个rRNA、5个sRNA,在COG、GO、KEGG数据库中分别注释到3 040、2 529、2 415个基因。鉴定了11个苯酚降解基因。比较基因组学表明,菌株JF101没有质粒,与同属的5株菌株有2 008个共有同源基因家族和5个特异基因家族。此外发现菌株JF101含有与相容性溶质转运相关的Trk、Kdp等基因,实验测定了其耐盐能力。通过对菌株JF101全基因组的解析,为进一步阐释其苯酚降解机制及发展实际工程应用奠定了基础。

关键词: 粪产碱杆菌, 苯酚降解, 全基因组测序

Abstract:

The genus Alcaligenes shows extensive degradation capacity for aromatic compounds. In the present study, the phenol-degrading genes in Alcaligenes faecalis JF101 were analyzed and the potential functions were explored. The whole genome of strain JF101 was sequenced, assembled and annotated for analyzing the genes involved in phenol degradation. Moreover, the comparative genomics with five related strains was carried out. Results showed that the whole genome size of strain JF101 was 4 143 816 bp, and the GC content was 57.44%, with 3 804 protein-coding genes, 55 tRNAs genes, 9 rRNAs genes and 5 sRNA. There were 3 040, 2 529 and 2 415 annotated genes in COG, GO and KEGG databases, respectively. Eleven genes involving in phenol degradation were identified. Comparative genomics revealed that strain JF101 had no plasmid, and shared 2 008 common homologous gene families and 5 specific gene families with the five related strains. In addition, the putative gene Trk and Kdp involved in compatible solute transport, were found in strain JF101, and the salt-tolerant ability was confirmed by experiments. The whole-genome analysis of strain JF101 will benefit the further elucidating mechanism of phenol degradation and developing engineering applications.

Key words: Alcaligenes faecalis, phenol degradation, whole genome sequencing