Global Gene Expression Patterns in Clostridium thermocellum as Determined by Microarray Analysis of Chemostat Cultures on Cellulose or Cellobiose

A microarray study of chemostat growth on insoluble cellulose or soluble cellobiose has provided substantial new information on Clostridium thermocellum gene expression. This is the first comprehensive examination of gene expression in C. thermocellum under defined growth conditions. Expression was...

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Bibliographic Details
Published in:Applied and Environmental Microbiology 2011-02, Vol.77 (4), p.1243-1253
Main Authors: Riederer, Allison, Takasuka, Taichi E, Makino, Shin-ichi, Stevenson, David M, Bukhman, Yury V, Elsen, Nathaniel L, Fox, Brian G
Format: Article
Language:English
Subjects:
Bacteria
Bacterial Proteins - genetics
Bacterial Proteins - metabolism
Biological and medical sciences
Biotechnology
Carrier Proteins - genetics
Cell culture
Cell growth
Cellobiose - metabolism
Cellulase - genetics
Cellulose
Cellulose - metabolism
Clostridium thermocellum
Clostridium thermocellum - enzymology
Clostridium thermocellum - genetics
Clostridium thermocellum - growth & development
Clostridium thermocellum - metabolism
Culture Media
Enzymes
Ethanol - metabolism
Fermentation - genetics
Fundamental and applied biological sciences. Psychology
Gene expression
Gene Expression Profiling
Gene Expression Regulation, Bacterial
Glycolysis
Microarray Analysis
Microbiology
Multienzyme Complexes - genetics
Multigene Family
Proteins
Regulatory Elements, Transcriptional
Sigma Factor - genetics
Signal Transduction
Transcription, Genetic
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Summary:A microarray study of chemostat growth on insoluble cellulose or soluble cellobiose has provided substantial new information on Clostridium thermocellum gene expression. This is the first comprehensive examination of gene expression in C. thermocellum under defined growth conditions. Expression was detected from 2,846 of 3,189 genes, and regression analysis revealed 348 genes whose changes in expression patterns were growth rate and/or substrate dependent. Successfully modeled genes included those for scaffoldin and cellulosomal enzymes, intracellular metabolic enzymes, transcriptional regulators, sigma factors, signal transducers, transporters, and hypothetical proteins. Unique genes encoding glycolytic pathway and ethanol fermentation enzymes expressed at high levels simultaneously with previously established maximal ethanol production were also identified. Ranking of normalized expression intensities revealed significant changes in transcriptional levels of these genes. The pattern of expression of transcriptional regulators, sigma factors, and signal transducers indicates that response to growth rate is the dominant global mechanism used for control of gene expression in C. thermocellum.
ISSN:0099-2240
1098-5336
1098-6596
DOI:10.1128/AEM.02008-10