title: Large-scale gene expression profiling reveals physiological response to deletion of chaperone dnaKJ in Escherichia coli.
abstract: Chaperone DnaK and its co-chaperone DnaJ plays various essential roles such as in assisting in the folding of nascent peptides, preventing protein aggregation and maintaining cellular protein homeostasis. Global transcriptional changes in vivo associated with deletion of dnaKJ were monitored using DNA microarray to elucidate the role of DnaKJ at the transcriptional level. Microarray profiling and bioinformatics analysis revealed that a few chaperone and protease genes, stress-related genes and genes involved in the tricarboxylic acid cycle and oxidative phosphorylation were up-regulated, whereas various transporter genes, pentose phosphate pathway and transcriptional regulation related genes were down-regulated. This study is the first to systematically analyze the alterations at the transcriptional level in vivo in deletion of dnaKJ. Fatty acid methyl esters analysis indicated that the amount of unsaturated fatty acid sharply increased and subcellular location prediction analysis showed a marked decrease in transcription of inner-membrane protein genes, which might have triggered the development of aberrant cell shape and susceptibility for some antibiotics in the ΔdnaKJ strain.
authors.affiliation: State Key Laboratory of Infectious Disease Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China.
authors.forename: Dongjie
authors.initials: D
authors.lastname: Fan
authors.affiliation: School of Life Science and Technology, Harbin Institute of Technology, 2 Yikuang Street, Harbin 150080, China. Electronic address: liucp74@hotmail.com.
authors.forename: Chuanpeng
authors.initials: C
authors.lastname: Liu
authors.affiliation: Department of Emergency, Beijing Bo'ai Hospital, 10 Jiaomen North Road, Fengtai District, Beijing, 100068, China; China Rehabilitation Research Center, Capital Medical University, Beijing 100068, China.
authors.forename: Lushan
authors.initials: L
authors.lastname: Liu
authors.affiliation: National Research Institute for Family Planning (NRIFP), Beijing 100081, China.
authors.forename: Lingxiang
authors.initials: L
authors.lastname: Zhu
authors.affiliation: China Center for Type Culture Collection (CCTCC), College of Life Sciences, Wuhan University, Wuhan430072, China; Hubei Provincial Cooperative Innovation Center of Industrial Fermentation, Wuhan 430072, China.
authors.forename: Fang
authors.initials: F
authors.lastname: Peng
authors.affiliation: School of Life Science and Technology, Harbin Institute of Technology, 2 Yikuang Street, Harbin 150080, China. Electronic address: zhqm@moon.ibp.ac.cn.
authors.forename: Qiming
authors.initials: Q
authors.lastname: Zhou
mesh_terms: D004926:Escherichia coli / Q000235:genetics* / Q000502:physiology*; D029968:Escherichia coli Proteins; D017353:Gene Deletion; D020869:Gene Expression Profiling; D050956:HSP40 Heat-Shock Proteins / Q000172:deficiency*; D018840:HSP70 Heat-Shock Proteins / Q000172:deficiency*; D046228:Microarray Analysis; D013312:Stress, Physiological; D014158:Transcription, Genetic
chemical_list: C494635:DnaJ protein, E coli; D029968:Escherichia coli Proteins; D050956:HSP40 Heat-Shock Proteins; D018840:HSP70 Heat-Shock Proteins; C063842:dnaK protein, E coli
keywords: Chaperone; Knock out; Metabolism; Microarray