Zhou Xuerui, Lei Dan, Tang Jie, Wu Min, Ye Hong, Zhang Qing
Key Laboratory of Food Biotechnology, School of Food and Biotechnology, Xihua University, Chengdu, 610039, Sichuan, People's Republic of China.
AMB Express. 2022 May 6;12(1):51. doi: 10.1186/s13568-022-01392-z.
Citrobacter freundii CD-9 is a Gram-negative bacteria sourced from factory sludge that can use fenvalerate as its sole carbon source and has a broad degradation spectrum for pyrethroid pesticides. The whole genome of CD-9 sequenced using Illumina HiSeq PE150 was reported in this study. The CD-9 genome size was 5.33 Mb and the G + C content was 51.55%. A total of 5291 coding genes, 9 5s-rRNA, and 79 tRNA were predicted bioinformatically. 3586 genes annotated to the Kyoto Encyclopedia of Genes and Genomes (KEGG) database that can be involved in 173 metabolic pathways, including various microbial metabolic pathways that degrade exogenous chemicals, especially those that degrade aromatic compounds, and also produce a variety of bioactive substances. Fifty genes related to pyrethroid degradation were identified in the C. freundii CD-9 genome, including 9 dioxygenase, 25 hydrolase, and 16 esterase genes. Notably, RT-qPCR results showed that from the predicted 13 genes related to fenvalerate degradation, the expression of six genes, including esterase, HAD family hydrolase, lipolytic enzyme, and gentisic acid dioxygenase, was induced in the presence of fenvalerate. In this study, the key genes and degradation mechanism of C. freundii CD-9 were analyzed and the results provide scientific evidence to support its application in environmental bioremediation. It can establish application models for different environmental pollution management by constructing genetically engineered bacteria for efficient fenvalerate or developing enzyme formulations that can be industrially produced.
弗氏柠檬酸杆菌CD - 9是一种源自工厂污泥的革兰氏阴性菌，它能够以氰戊菊酯作为唯一碳源，并且对拟除虫菊酯类农药具有广泛的降解谱。本研究报道了使用Illumina HiSeq PE150对CD - 9进行测序得到的全基因组。CD - 9基因组大小为5.33 Mb，G + C含量为51.55%。通过生物信息学预测共得到5291个编码基因、9个5s - rRNA和79个tRNA。3586个基因注释到京都基因与基因组百科全书（KEGG）数据库，可参与173条代谢途径，包括各种降解外源化学物质的微生物代谢途径，尤其是那些降解芳香族化合物的途径，还能产生多种生物活性物质。在弗氏柠檬酸杆菌CD - 9基因组中鉴定出50个与拟除虫菊酯降解相关的基因，包括9个双加氧酶、25个水解酶和16个酯酶基因。值得注意的是，RT - qPCR结果表明，在预测的13个与氰戊菊酯降解相关的基因中，酯酶、HAD家族水解酶、脂肪分解酶和龙胆酸双加氧酶等6个基因的表达在氰戊菊酯存在的情况下被诱导。本研究分析了弗氏柠檬酸杆菌CD - 9的关键基因和降解机制，结果为其在环境生物修复中的应用提供了科学依据。通过构建高效降解氰戊菊酯的基因工程菌或开发可工业化生产的酶制剂，可为不同的环境污染治理建立应用模型。
