Unraveling the skatole biodegradation process in an enrichment consortium using integrated omics and culture-dependent strategies  

作　　者：Qiao Ma Nan Meng Jiancheng Su Yujie Li Jiazheng Gu Yidi Wang Jingwei Wang Yuanyuan Qu Zelong Zhao Yeqing Sun 

机构地区：[1]Institute of Environmental Systems Biology,College of Environmental Science and Engineering,Dalian Maritime University,Dalian 116026,China [2]Liaoning Key Lab of Germplasm Improvement and Fine Seed Breeding of Marine Aquatic Animals,Liaoning Ocean and Fisheries Science Research Institute,Dalian 116023,China [3]Key Laboratory of Industrial Ecology and Environmental Engineering(Ministry of Education),School of Environmental Science and Technology,Dalian University of Technology,Dalian 116024,China

出　　处：《Journal of Environmental Sciences》2023年第5期688-699,共12页环境科学学报（英文版）

基　　金：supported by the National Natural Science Foundation of China(No.32170121);the Fundamental Research Funds for the Central Universities(No.3132022159).

摘　　要：3-Methylindole(skatole)is regarded as one of the most offensive compounds in odor emission.Biodegradation is feasible for skatole removal but the functional species and genes responsible for skatole degradation remain enigmatic.In this study,an efficient aerobic skatole-degrading consortium was obtained.Rhodococcus and Pseudomonas were identified as the two major and active populations by integrated metagenomic and metatranscriptomic analyses.Bioinformatic analyses indicated that the skatole downstream degradation wasmainly via the catechol pathway,and upstream degradation was likely catalyzed by the aromatic ring-hydroxylating oxygenase and flavin monooxygenase.Genome binning and gene analyses indicated that Pseudomonas,Pseudoclavibacter,and Raineyella should cooperate with Rhodococcus for the skatole degradation process.Moreover,a pure strain Rhodococcus sp.DMU1 was successfully obtained which could utilize skatole as the sole carbon source.Complete genome sequencing showed that strain DMU1 was the predominant population in the consortium.Further crude enzyme and RT-qPCR assays indicated that strain DMU1 degraded skatole through the catechol ortho-cleavage pathway.Collectively,our results suggested that synergistic degradation of skatole in the consortium should be performed by diverse bacteria with Rhodococcus as the primary degrader,and the degradation mainly proceeded via the catechol pathway.

关 键 词：SKATOLE Biodegradation Bacterial consortium Metagenomics and METATRANSCRIPTOMICS RHODOCOCCUS 

分 类 号：X172[环境科学与工程—环境科学]