Transcriptomics

Dataset Information

2

Global gene expression of Ruegeria pomeroyi DSS-3 during ammonium-limited, ribose phosphate-, methylphosphonate-, or potassium phosphate-excess growth regimes or during potassium phosphate-limited, ammonium-excess regime


ABSTRACT: We used the previously designed oligonucleotide microarrays (Bürgmann et al., 2007, Environmental Microbiology, 9: 2742-2755) to detect the mRNA transcripts of R. pomeroyi DSS-3 when the cells were cultured under steady-state conditions limited with ammonium (NH4Cl, 0.26 mM) but with an excess of D-ribose-5-phosphate (C5H9Na2O8P*2H2O, 0.5 mM), methylphosphonic acid (CH5PO3, 0.5 mM), or potassium phosphate (KH2PO4, 0.5 mM), or during ammonium excess (NH4Cl, 2.8 mM) but were limited with potassium phosphate (KH2PO4, 9.2 μM). A total of 13 microarray hybridizations were performed: three biological replicates each from ribose phosphate, methylphosphonate, or potassium phosphate excess growth regimes, three biological replicates from potassium phosphate limited growth regime, and one technical replicate for the potassium phosphate excess growth regime. Data for the technical replicates were averaged and combined, resulted in a total of 12 samples.

REANALYSIS of: GSE27032

ORGANISM(S): Ruegeria pomeroyi DSS-3  

SUBMITTER: Ryan J Newton   Shalabh Sharma  Leong-Keat Chan  Mary-Ann Moran 

PROVIDER: E-GEOD-38740 | ArrayExpress | 2014-06-02

SECONDARY ACCESSION(S): GSE38740PRJNA168554

REPOSITORIES: GEO, ArrayExpress

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Publications

Transcriptional changes underlying elemental stoichiometry shifts in a marine heterotrophic bacterium.

Chan Leong-Keat LK   Newton Ryan J RJ   Sharma Shalabh S   Smith Christa B CB   Rayapati Pratibha P   Limardo Alexander J AJ   Meile Christof C   Moran Mary Ann MA  

Frontiers in Microbiology 20120516


Marine bacteria drive the biogeochemical processing of oceanic dissolved organic carbon (DOC), a 750-Tg C reservoir that is a critical component of the global C cycle. Catabolism of DOC is thought to be regulated by the biomass composition of heterotrophic bacteria, as cells maintain a C:N:P ratio of ∼50:10:1 during DOC processing. Yet a complicating factor in stoichiometry-based analyses is that bacteria can change the C:N:P ratio of their biomass in response to resource composition. We investi  ...[more]

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