{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,21]],"date-time":"2026-07-21T09:08:09Z","timestamp":1784624889675,"version":"3.55.0"},"reference-count":48,"publisher":"MDPI AG","issue":"21","license":[{"start":{"date-parts":[[2019,11,5]],"date-time":"2019-11-05T00:00:00Z","timestamp":1572912000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Zhikui Hao","award":["No.1801gy24; HX2019069; HX2019078"],"award-info":[{"award-number":["No.1801gy24; HX2019069; HX2019078"]}]},{"name":"Xiangru Liao","award":["BY2014023-28;CLE01N1310"],"award-info":[{"award-number":["BY2014023-28;CLE01N1310"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Molecules"],"abstract":"<jats:p>Phoxim, a type of organophosphorus pesticide (OP), is widely used in both agriculture and fisheries. The persistence of phoxim has caused serious environmental pollution problems. In this study, Bacillus amyloliquefaciens YP6 (YP6), which is capable of promoting plant growth and degrading broad-spectrum OPs, was used to study phoxim degradation. Different culture media were applied to evaluate the growth and phoxim degradation of YP6. YP6 can grow rapidly and degrade phoxim efficiently in Luria\u2013Bertani broth (LB broth) medium. Furthermore, it can also utilize phoxim as the sole phosphorus source in a mineral salt medium. Response surface methodology was performed to optimize the degradation conditions of phoxim by YP6 in LB broth medium. The optimum biodegradation conditions were 40 \u00b0C, pH 7.20, and an inoculum size of 4.17% (v\/v). The phoxim metabolites, O,O-diethylthiophosphoric ester, phoxom, and \u03b1-cyanobenzylideneaminooxy phosphonic acid, were confirmed by liquid chromatography\u2013mass spectrometry. Meanwhile, transcriptome analysis and qRT-PCR were performed to give insight into the phoxim-stress response at the transcriptome level. The hydrolase-, oxidase-, and NADPH-cytochrome P450 reductase-encoding genes were significantly upregulated for phoxim hydrolysis, sulfoxidation, and o-dealkylation. Furthermore, the phoxim biodegradation pathways by YP6 were proposed, for the first time, based on transcriptomic data and product analysis.<\/jats:p>","DOI":"10.3390\/molecules24213997","type":"journal-article","created":{"date-parts":[[2019,11,5]],"date-time":"2019-11-05T06:47:57Z","timestamp":1572936477000},"page":"3997","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":26,"title":["Evaluation of the Strain Bacillus amyloliquefaciens YP6 in Phoxim Degradation via Transcriptomic Data and Product Analysis"],"prefix":"10.3390","volume":"24","author":[{"given":"Di","family":"Meng","sequence":"first","affiliation":[{"name":"The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Liyuan","family":"Zhang","sequence":"additional","affiliation":[{"name":"The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jie","family":"Meng","sequence":"additional","affiliation":[{"name":"Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forest and Landscape Architecture, South China Agricultural University, Guangzhou 510642, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qiaopeng","family":"Tian","sequence":"additional","affiliation":[{"name":"The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lixin","family":"Zhai","sequence":"additional","affiliation":[{"name":"The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhikui","family":"Hao","sequence":"additional","affiliation":[{"name":"Institute of Applied Biotechnology, Taizhou Vocational &amp; Technical College, Taizhou 318000, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhengbing","family":"Guan","sequence":"additional","affiliation":[{"name":"The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yujie","family":"Cai","sequence":"additional","affiliation":[{"name":"The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiangru","family":"Liao","sequence":"additional","affiliation":[{"name":"The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi 214122, China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2019,11,5]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"312","DOI":"10.1021\/jf1029459","article-title":"Degradation mechanisms of phoxim in river water","volume":"59","author":"Lin","year":"2011","journal-title":"J. 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