title: Transcriptome and metabolome responses of Shewanella oneidensis MR-1 to methyl orange under microaerophilic and aerobic conditions.
abstract: Shewanella oneidensis MR-1 degrades various azo dyes under microaerophilic and anaerobic conditions, but this process is inhibited under aerobic conditions. The mechanisms underlying azo dye biodegradation and inhibition remain unknown. Therefore, we investigated metabolic and transcriptional changes in strain MR-1, which was cultured under different conditions, to elucidate these mechanisms. At the transcriptional level, genes involved in certain metabolic processes, particularly the tricarboxylic acid (TCA) cycle, amino acid biodegradation, and the electron transfer system, were significantly altered (M ≧ 2, p > 0.8 ) in the presence of methyl orange (MO). Moreover, a high concentration of dissolved oxygen heavily impacted the expression levels of genes involved in fatty acid biodegradation. Metabolome analysis revealed significant alteration (p < 0.05) in the concentrations of nine metabolites when strain MR-1 was cultured under aerobic conditions; the majority of these metabolites were closely associated with amino acid metabolism and DNA replication. Accordingly, we propose a possible pathway for MO biodegradation and discuss the most likely causes of biodegradation inhibition due to dissolved oxygen.
authors.affiliation: Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China.|University of Chinese Academy of Sciences, Beijing, 100049, China.
authors.forename: Xinhua
authors.initials: X
authors.lastname: Cao
authors.affiliation: Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China.|University of Chinese Academy of Sciences, Beijing, 100049, China.
authors.forename: Yueling
authors.initials: Y
authors.lastname: Qi
authors.affiliation: Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China.|University of Chinese Academy of Sciences, Beijing, 100049, China.
authors.forename: Chen
authors.initials: C
authors.lastname: Xu
authors.affiliation: Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China. yangyy@wbgcas.cn.
authors.forename: Yuyi
authors.initials: Y
authors.lastname: Yang
authors.affiliation: Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China. wangjun@wbgcas.cn.|Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China. wangjun@wbgcas.cn.
authors.forename: Jun
authors.initials: J
authors.lastname: Wang
mesh_terms: D000693:Anaerobiosis; D001391:Azo Compounds / Q000378:metabolism* / Q000494:pharmacology*; D001673:Biodegradation, Environmental; D002952:Citric Acid Cycle / Q000502:physiology; D004579:Electron Transport / Q000235:genetics; D055442:Metabolome; D010100:Oxygen / Q000378:metabolism*; D020592:Shewanella / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism*; D059467:Transcriptome
chemical_list: D001391:Azo Compounds; C100258:methyl orange; D010100:Oxygen
keywords: Azo dye; Biodegradation mechanism; Dissolved oxygen; Metabolome; Transcriptome