Transcriptomics

Dataset Information

15

Specific growth rate dependent transcriptome profiling of Escherichia coli K12 MG1655 in accelerostat cultures


ABSTRACT: Specific growth rate dependent gene expression changes of Escherichia coli K12 MG1655 were determined by microarray and real time PCR analyses. The bacteria were cultivated on glucose limited minimal medium using the accelerostat method (A-stat), where starting from steady state conditions in a chemostat culture, dilution rate is constantly increased. At specific growth rate (μ) 0.47 h-1, E. coli had focused its metabolism to glucose utilization by down-regulation of alternative substrate transporters expression compared to μ = 0.3 h-1. It was found that acetic acid accumulation began at μ = 0.34 ± 0.01 h-1 and two acetate synthesis pathways (phosphotransacetylase-acetate kinase (pta-ackA) and pyruvate oxidase (poxB)) contributed to the synthesis at the beginning of overflow metabolism, i.e. onset of acetate excretion. On the other hand, poxB, pta and ackA expression patterns suggest that pyruvate oxidase may be the only enzyme synthesizing acetate at μ = 0.47 h-1. Down-regulation of acs-yjcH-actP operon, the resulting loss of glucose and acetate co-utilization between specific growth rates 0.3 h-1 – 0.42 h-1 and acetic acid accumulation from μ = 0.34 ± 0.01 h-1 allows one to surmise that the acetate utilization operon expression might play an important role in overflow metabolism. DNA microarray analysis was performed from three A-stat cultivations, for which one has a technical replicate.

ORGANISM(S): Escherichia coli  

SUBMITTER: Sten Erm   Ranno Nahku  Petri-Jaan Lahtvee  Raivo Vilu  Kaspar Valgepea  Kristo Abner  Kaarel Adamberg 

PROVIDER: E-GEOD-18183 | ArrayExpress | 2010-05-22

SECONDARY ACCESSION(S): GSE18183PRJNA119543

REPOSITORIES: GEO, ArrayExpress

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Publications

Specific growth rate dependent transcriptome profiling of Escherichia coli K12 MG1655 in accelerostat cultures.

Nahku Ranno R   Valgepea Kaspar K   Lahtvee Petri-Jaan PJ   Erm Sten S   Abner Kristo K   Adamberg Kaarel K   Vilu Raivo R  

Journal of biotechnology 20100101 1


Specific growth rate dependent gene expression changes of Escherichia coli K12 MG1655 were studied by microarray and real-time PCR analyses. The bacteria were cultivated on glucose limited minimal medium using the accelerostat method (A-stat) where starting from steady state conditions (chemostat culture) dilution rate is constantly increased. At specific growth rate (mu) 0.47h(-1), E. coli had focused its metabolism to glucose utilization by down-regulation of alternative substrate transporters  ...[more]

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