A Novel Pathway of Chlorimuron-Ethyl Biodegradation by <i>Chenggangzhangella methanolivorans</i> Strain CHL1 and Its Molecular Mechanisms
Chlorimuron-ethyl is a widely used herbicide in agriculture. However, uncontrolled chlorimuron-ethyl application causes serious environmental problems. Chlorimuron-ethyl can be effectively degraded by microbes, but the underlying molecular mechanisms are not fully understood. In this study, we ident...
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2022-08-01
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| Series: | International Journal of Molecular Sciences |
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| author | Zhixiong Yu Yumeng Dai Tingting Li Wu Gu Yi Yang Xiang Li Pai Peng Lijie Yang Xinyu Li Jian Wang Zhencheng Su Xu Li Mingkai Xu Huiwen Zhang |
| author_facet | Zhixiong Yu Yumeng Dai Tingting Li Wu Gu Yi Yang Xiang Li Pai Peng Lijie Yang Xinyu Li Jian Wang Zhencheng Su Xu Li Mingkai Xu Huiwen Zhang |
| author_sort | Zhixiong Yu |
| collection | DOAJ |
| description | Chlorimuron-ethyl is a widely used herbicide in agriculture. However, uncontrolled chlorimuron-ethyl application causes serious environmental problems. Chlorimuron-ethyl can be effectively degraded by microbes, but the underlying molecular mechanisms are not fully understood. In this study, we identified the possible pathways and key genes involved in chlorimuron-ethyl degradation by the <i>Chenggangzhangella methanolivorans</i> strain CHL1, a Methylocystaceae strain with the ability to degrade sulfonylurea herbicides. Using a metabolomics method, eight intermediate degradation products were identified, and three pathways, including a novel pyrimidine-ring-opening pathway, were found to be involved in chlorimuron-ethyl degradation by strain CHL1. Transcriptome sequencing indicated that three genes (<i>atzF</i>, <i>atzD</i>, and <i>cysJ</i>) are involved in chlorimuron-ethyl degradation by strain CHL1. The gene knock-out and complementation techniques allowed for the functions of the three genes to be identified, and the enzymes involved in the different steps of chlorimuron-ethyl degradation pathways were preliminary predicted. The results reveal a previously unreported pathway and the key genes of chlorimuron-ethyl degradation by strain CHL1, which have implications for attempts to enrich the biodegradation mechanism of sulfonylurea herbicides and to construct engineered bacteria in order to remove sulfonylurea herbicide residues from environmental media. |
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| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-10T01:44:05Z |
| publishDate | 2022-08-01 |
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| series | International Journal of Molecular Sciences |
| spelling | doaj.art-3a7fc75a204f4de2876f3a9e283aef122023-11-23T13:18:55ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672022-08-012317989010.3390/ijms23179890A Novel Pathway of Chlorimuron-Ethyl Biodegradation by <i>Chenggangzhangella methanolivorans</i> Strain CHL1 and Its Molecular MechanismsZhixiong Yu0Yumeng Dai1Tingting Li2Wu Gu3Yi Yang4Xiang Li5Pai Peng6Lijie Yang7Xinyu Li8Jian Wang9Zhencheng Su10Xu Li11Mingkai Xu12Huiwen Zhang13Key Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, ChinaKey Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, ChinaShenyang Research Institute of Chemical Industry, Shenyang 110021, ChinaKey Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, ChinaKey Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, ChinaKey Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, ChinaShenyang Research Institute of Chemical Industry, Shenyang 110021, ChinaShenyang Research Institute of Chemical Industry, Shenyang 110021, ChinaKey Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, ChinaKey Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, ChinaKey Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, ChinaKey Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, ChinaKey Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, ChinaKey Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110016, ChinaChlorimuron-ethyl is a widely used herbicide in agriculture. However, uncontrolled chlorimuron-ethyl application causes serious environmental problems. Chlorimuron-ethyl can be effectively degraded by microbes, but the underlying molecular mechanisms are not fully understood. In this study, we identified the possible pathways and key genes involved in chlorimuron-ethyl degradation by the <i>Chenggangzhangella methanolivorans</i> strain CHL1, a Methylocystaceae strain with the ability to degrade sulfonylurea herbicides. Using a metabolomics method, eight intermediate degradation products were identified, and three pathways, including a novel pyrimidine-ring-opening pathway, were found to be involved in chlorimuron-ethyl degradation by strain CHL1. Transcriptome sequencing indicated that three genes (<i>atzF</i>, <i>atzD</i>, and <i>cysJ</i>) are involved in chlorimuron-ethyl degradation by strain CHL1. The gene knock-out and complementation techniques allowed for the functions of the three genes to be identified, and the enzymes involved in the different steps of chlorimuron-ethyl degradation pathways were preliminary predicted. The results reveal a previously unreported pathway and the key genes of chlorimuron-ethyl degradation by strain CHL1, which have implications for attempts to enrich the biodegradation mechanism of sulfonylurea herbicides and to construct engineered bacteria in order to remove sulfonylurea herbicide residues from environmental media.https://www.mdpi.com/1422-0067/23/17/9890microorganism degradationsulfonylurea herbicidecontaminated environmenttranscriptomegene editing |
| spellingShingle | Zhixiong Yu Yumeng Dai Tingting Li Wu Gu Yi Yang Xiang Li Pai Peng Lijie Yang Xinyu Li Jian Wang Zhencheng Su Xu Li Mingkai Xu Huiwen Zhang A Novel Pathway of Chlorimuron-Ethyl Biodegradation by <i>Chenggangzhangella methanolivorans</i> Strain CHL1 and Its Molecular Mechanisms International Journal of Molecular Sciences microorganism degradation sulfonylurea herbicide contaminated environment transcriptome gene editing |
| title | A Novel Pathway of Chlorimuron-Ethyl Biodegradation by <i>Chenggangzhangella methanolivorans</i> Strain CHL1 and Its Molecular Mechanisms |
| title_full | A Novel Pathway of Chlorimuron-Ethyl Biodegradation by <i>Chenggangzhangella methanolivorans</i> Strain CHL1 and Its Molecular Mechanisms |
| title_fullStr | A Novel Pathway of Chlorimuron-Ethyl Biodegradation by <i>Chenggangzhangella methanolivorans</i> Strain CHL1 and Its Molecular Mechanisms |
| title_full_unstemmed | A Novel Pathway of Chlorimuron-Ethyl Biodegradation by <i>Chenggangzhangella methanolivorans</i> Strain CHL1 and Its Molecular Mechanisms |
| title_short | A Novel Pathway of Chlorimuron-Ethyl Biodegradation by <i>Chenggangzhangella methanolivorans</i> Strain CHL1 and Its Molecular Mechanisms |
| title_sort | novel pathway of chlorimuron ethyl biodegradation by i chenggangzhangella methanolivorans i strain chl1 and its molecular mechanisms |
| topic | microorganism degradation sulfonylurea herbicide contaminated environment transcriptome gene editing |
| url | https://www.mdpi.com/1422-0067/23/17/9890 |
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