title: Comparative whole genome transcriptome and metabolome analyses of five Klebsiella pneumonia strains.
abstract: The integration of transcriptomics and metabolomics can provide precise information on gene-to-metabolite networks for identifying the function of novel genes. The goal of this study was to identify novel gene functions involved in 2,3-butanediol (2,3-BDO) biosynthesis by a comprehensive analysis of the transcriptome and metabolome of five mutated Klebsiella pneumonia strains (∆wabG = SGSB100, ∆wabG∆budA = SGSB106, ∆wabG∆budB = SGSB107, ∆wabG∆budC = SGSB108, ∆wabG∆budABC = SGSB109). First, the transcriptomes of all five mutants were analyzed and the genes exhibiting reproducible changes in expression were determined. The transcriptome was well conserved among the five strains, and differences in gene expression occurred mainly in genes coding for 2,3-BDO biosynthesis (budA, budB, and budC) and the genes involved in the degradation of reactive oxygen, biosynthesis and transport of arginine, cysteine biosynthesis, sulfur metabolism, oxidoreductase reaction, and formate dehydrogenase reaction. Second, differences in the metabolome (estimated by carbon distribution, CO2 emission, and redox balance) among the five mutant strains due to gene alteration of the 2,3-BDO operon were detected. The functional genomics approach integrating metabolomics and transcriptomics in K. Pneumonia presented here provides an innovative means of identifying novel gene functions involved in 2,3-BDO biosynthesis metabolism and whole cell metabolism.
authors: Department of Chemical and Biomolecular Engineering, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul, 121-742, South Korea.
authors: Soojin
authors: S
authors: Lee
authors: Department of Chemical and Biomolecular Engineering, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul, 121-742, South Korea.
authors: Borim
authors: B
authors: Kim
authors: Department of Chemical and Biomolecular Engineering, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul, 121-742, South Korea.
authors: Jeongmo
authors: J
authors: Yang
authors: Department of Chemical and Biomolecular Engineering, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul, 121-742, South Korea.
authors: Daun
authors: D
authors: Jeong
authors: Department of Chemical and Biomolecular Engineering, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul, 121-742, South Korea.
authors: Soohyun
authors: S
authors: Park
authors: Macrogen Inc., 254 Beotkkot-ro, Geumcheon-gu, Seoul, South Korea.
authors: Sang Heum
authors: SH
authors: Shin
authors: Macrogen Inc., 254 Beotkkot-ro, Geumcheon-gu, Seoul, South Korea.
authors: Jun Ho
authors: JH
authors: Kook
authors: Macrogen Inc., 254 Beotkkot-ro, Geumcheon-gu, Seoul, South Korea.
authors: Kap-Seok
authors: KS
authors: Yang
authors: Department of Chemical and Biomolecular Engineering, Sogang University, 35 Baekbeom-ro, Mapo-gu, Seoul, 121-742, South Korea. jinwonlee@sogang.ac.kr.
authors: Jinwon
authors: J
authors: Lee
mesh_terms: D001426:Bacterial Proteins / Q000235:genetics / Q000378:metabolism*; D002072:Butylene Glycols / Q000378:metabolism; D016680:Genome, Bacterial / Q000502:physiology*; D007711:Klebsiella pneumoniae / Q000235:genetics / Q000378:metabolism*; D055442:Metabolome / Q000502:physiology*; D009154:Mutation; D059467:Transcriptome / Q000502:physiology*
chemical_list: D001426:Bacterial Proteins; D002072:Butylene Glycols; C026978:2,3-butylene glycol
keywords: 2,3-butanediol; Carbon distribution analysis; Metabolome analysis; Transcriptome analysis; budBAC gene or operon