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Transcriptome analysis of Geobacter sulfurreducens under multiple growth conditions

ABSTRACT: Investigation of comprehensive information about the transcripts (boundary, level, etc.) across the entire G. sulfurreducens genome in mulitple growth conditions, including in biofilm and on electrode. A five array study using total RNA recovered from two separate culture conditions of G. sulfurreducens. G. sulfurreducens were harvested one week after growth on electrode or to form biofilm. The high-density oligonucleotide tiling arrays used consisted of 381,174 oligonucleotide probes spaced 20 bp apart (30-bp overlap between two probes) across the G. sulfurreducens genome (NimbleGen). Experiments were conducted as two (electrode) or three (biofilm) biological replicates (different cultures).

ORGANISM(S): Geobacter sulfurreducens PCA

SUBMITTER: Bernhard Palsson

PROVIDER: E-GEOD-22497 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Structural and operational complexity of the Geobacter sulfurreducens genome.

Qiu Yu Y Cho Byung-Kwan BK Park Young Seoub YS Lovley Derek D Palsson Bernhard Ø BØ Zengler Karsten K

Genome research 20100630 9

Prokaryotic genomes can be annotated based on their structural, operational, and functional properties. These annotations provide the pivotal scaffold for understanding cellular functions on a genome-scale, such as metabolism and transcriptional regulation. Here, we describe a systems approach to simultaneously determine the structural and operational annotation of the Geobacter sulfurreducens genome. Integration of proteomics, transcriptomics, RNA polymerase, and sigma factor-binding informatio ...[more]

PMID: 20592237

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