Whole Genome Sequencing and Analysis of Chlorimuron-Ethyl Degrading Bacteria Klebsiella pneumoniae 2N3

• Published in: International journal of molecular sciences Vol. 20; no. 12; p. 3053
• Main Authors: Zhang, Cheng, Hao, Qingkai, Zhang, Zhengyi, Zhang, Xianghui, Pan, Hongyu, Zhang, Jiahuan, Zhang, Hao, Sun, Fengjie
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI AG 22-06-2019; MDPI
• Subjects: Amino acid sequence; Amino acids; Annotations; Bacteria; Biodegradation; Bioremediation; Carbohydrate metabolism; Carbohydrates; Carbonyl compounds; Carbonyl groups; Carbonyls; Cell surface; Cell walls; chlorimuron-ethyl degrading bacteria; Communication; Cytochrome; Domains; Enzymes; Esterase; Genes; genome; Genome, Bacterial; Genomes; Herbicides; Hydrolase; Ion transport; Klebsiella; Klebsiella pneumoniae - genetics; Klebsiella pneumoniae - metabolism; Klebsiella pneumoniae 2N3; Metabolism; Microorganisms; Ontology; Phylogenetics; Phylogeny; Pollutants; Protein turnover; Proteins; Pyrimidines - metabolism; Sulfonylurea Compounds - metabolism; third generation of high-throughput DNA sequencing; Transcription; Whole Genome Sequencing; chlorimuron-ethyl degrading bacteria; genome; Klebsiella pneumoniae 2N3; third generation of high-throughput DNA sequencing
• ISSN: 1422-0067; 1661-6596; 1422-0067
• DOI: 10.3390/ijms20123053

2N3 is a strain of gram-negative bacteria that can degrade chlorimuron-ethyl and grow with chlorimuron-ethyl as the sole nitrogen source. The complete genome of
2N3 was sequenced using third generation high-throughput DNA sequencing technology. The genomic size of strain 2N3 was 5.32 Mb with a GC content of 57.33% and a total of 5156 coding genes and 112 non-coding RNAs predicted. Two hydrolases expressed by open reading frames (ORFs) 0934 and 0492 were predicted and experimentally confirmed by gene knockout to be involved in the degradation of chlorimuron-ethyl. Strains of ΔORF 0934, ΔORF 0492, and wild type (WT) reached their highest growth rates after 8-10 hours in incubation. The degradation rates of chlorimuron-ethyl by both ΔORF 0934 and ΔORF 0492 decreased in comparison to the WT during the first 8 hours in culture by 25.60% and 24.74%, respectively, while strains ΔORF 0934, ΔORF 0492, and the WT reached the highest degradation rates of chlorimuron-ethyl in 36 hours of 74.56%, 90.53%, and 95.06%, respectively. This study provides scientific evidence to support the application of
2N3 in bioremediation to control environmental pollution.