Transcriptomics

Dataset Information

3

Characterization of anaerobic catabolism of p-coumarate in Rhodopseudomonas palustris


ABSTRACT: To address the question of how photosynthetic bacterium Rhodopseudomonas palustris metabolize lignin derived compound p-coumarate, transcriptomics and quantitative proteomics were combined to characterize gene expression profiles at both the mRNA level and protein level in Rhodopseudomonas palustris grown with succinate, benzoate, and p-coumarate as the carbon source. Transcriptome profiles among Rhodopseudomonas palustris cells grown with succinate, benzoate, and p-coumarate as the carbon source were compared.

ORGANISM(S): Rhodopseudomonas palustris  

SUBMITTER: Yasuhiro Oda   Caroline S Harwood  Chongle Pan  Robert L Hettich  Patricia K Lankford  Dale A Pelletier  Nagiza F Samatova  Bing Zhang  Yasuhiro Oda 

PROVIDER: E-GEOD-6221 | ArrayExpress | 2008-05-07

SECONDARY ACCESSION(S): GSE6221PRJNA97539

REPOSITORIES: GEO, ArrayExpress

altmetric image

Publications

Characterization of anaerobic catabolism of p-coumarate in Rhodopseudomonas palustris by integrating transcriptomics and quantitative proteomics.

Pan Chongle C   Oda Yasuhiro Y   Lankford Patricia K PK   Zhang Bing B   Samatova Nagiza F NF   Pelletier Dale A DA   Harwood Caroline S CS   Hettich Robert L RL  

Molecular & cellular proteomics : MCP 20071220 5


In this study, the pathway for anaerobic catabolism of p-coumarate by a model bacterium, Rhodopseudomonas palustris, was characterized by comparing the gene expression profiles of cultures grown in the presence of p-coumarate, benzoate, or succinate as the sole carbon sources. Gene expression was quantified at the mRNA level with transcriptomics and at the protein level with quantitative proteomics using (15)N metabolic labeling. Protein relative abundances, along with their confidence intervals  ...[more]

Similar Datasets

2012-03-15 | E-GEOD-32292 | ArrayExpress
2014-02-04 | E-GEOD-51825 | ArrayExpress
2010-05-25 | E-GEOD-10642 | ArrayExpress
2010-12-13 | E-GEOD-19093 | ArrayExpress
2015-03-01 | E-GEOD-59544 | ArrayExpress
2012-12-12 | PXD000025 | Pride
2010-08-15 | E-GEOD-6742 | ArrayExpress
| PRJNA261062 | ENA
2010-06-10 | E-GEOD-5194 | ArrayExpress
| GSE84950 | GEO