Gene expression profiling by DNA microarrays and metabolic fluxes in Escherichia coli

Min-Kyu Oh, James C. Liao

Research output: Contribution to journalArticle

118 Citations (Scopus)

Abstract

DNA microarray technology was applied to detect differential transcription profiles of a subset of the Escherichia coli genome. A total of 111 E. coli genes, including those in central metabolism, key biosyntheses, and some regulatory functions, were cloned, amplified, and used as probes for detecting the level of transcripts. An E. coli strain was grown in glucose, acetate, and glycerol media, and the transcript levels of the selected genes were detected. Despite extensive studies on E. coli physiology, many new features were found in the regulation of these genes. For example, several genes were unexpectedly up-regulated, such as pps, ilvG, aroF, secA, and dsbA in acetate and asnA and asnB in glycerol, or down-regulated, such as ackA, pta, and adhE in acetate. These genes were regulated with no apparent reasons by unknown mechanisms. Meanwhile, many genes were regulated for apparent purposes but by unknown mechanisms. For example, the glucose transport genes (ptsHI, ptsG, crr) in both acetate and glycerol media were down-regulated, and the ppc, glycolytic, and biosynthetic genes in acetate were also down-regulated because of the reduced fluxes. However, their molecular mechanisms remain to be elucidated. Furthermore, a group of genes were regulated by known mechanisms, but the physiological roles of such regulation remain unclear. This group includes pckA and aspA, which are up-regulated in glycerol, and gnd and aspA, which are down- and up-regulated, respectively, in acetate. The DNA microarray technology demonstrated here is a powerful yet economical tool for characterizing gene regulation and will prove to be useful for strain improvement and bioprocess development.

Original languageEnglish
Pages (from-to)278-286
Number of pages9
JournalBiotechnology Progress
Volume16
Issue number2
DOIs
Publication statusPublished - 2000 May 10
Externally publishedYes

Fingerprint

Gene Expression Profiling
Oligonucleotide Array Sequence Analysis
Escherichia coli
gene expression
Acetates
Genes
acetates
genes
Glycerol
glycerol
microarray technology
DNA microarrays
Technology
Glucose
glucose
physiology
transcription (genetics)
biosynthesis
Genome
metabolism

ASJC Scopus subject areas

  • Food Science
  • Biotechnology
  • Microbiology

Cite this

Gene expression profiling by DNA microarrays and metabolic fluxes in Escherichia coli. / Oh, Min-Kyu; Liao, James C.

In: Biotechnology Progress, Vol. 16, No. 2, 10.05.2000, p. 278-286.

Research output: Contribution to journalArticle

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