GEO DataSets

(Submitter supplied) Bacteria respond to stimuli in the environment using transcriptional control, but this may not be the case for most marine bacteria having small, streamlined genomes. Candidatus Pelagibacter ubique, a cultivated representative of the SAR11 clade, which is the most abundant clade in the oceans 4, has a small, streamlined genome and possesses an unusually small number of transcriptional regulators. This observation leads to the hypothesis that transcriptional control is low in Pelagibacter and limits its response to environmental conditions. more...

Organism:

gamma proteobacterium HTCC2207; Polaribacter sp. MED152; Candidatus Pelagibacter ubique HTCC1062; Ruegeria pomeroyi DSS-3

Type:

Expression profiling by high throughput sequencing

4 related Platforms

44 Samples

Download data: XLSX

(Submitter supplied) Nitrogen is one of the major nutrients limiting microbial productivity in the ocean, and as a result marine microorganisms have evolved specialized systems for responding to nitrogen stress. The highly abundant alphaproteobacterium Candidatus Pelagibacter ubique lacks the canonical GlnB, GlnD, and NtrB/NtrC genes for regulating nitrogen assimilation. A survey of 127 Alphaproteobacteria genomes found these genes to be highly represented in free-living and pathogenic organisms with large genomes and only missing in a subset of obligate intracellular organisms and other SAR11 strains. more...

Organism:

Candidatus Pelagibacter ubique; Candidatus Pelagibacter ubique HTCC1002; Candidatus Pelagibacter ubique HTCC1062; Candidatus Pelagibacter sp. HTCC7211

Type:

Expression profiling by array

Platform:

GPL7330

12 Samples

Download data: CEL

(Submitter supplied) We investigated the gene expression responses of Candidatus Pelagibacter ubique cultures to iron limitation. Differential expression was observed for genes in iron acquisition and incorporation operons. SfuC in particular was 16 times higher in iron-limited cultures and encodes a periplasmic iron-binding protein.

Organism:

Candidatus Pelagibacter ubique HTCC1002; Candidatus Pelagibacter ubique HTCC1062; Candidatus Pelagibacter sp. HTCC7211

Type:

Expression profiling by array

Platform:

GPL7330

18 Samples

Download data: CEL

(Submitter supplied) The primary goal of this experiment is to examine the transcription profiles of HTCC1062 when grown in the presence or absence of D-glucose (30uM final concentration). Experiment confirmed activity of predicted glycolysis operon.

Organism:

Candidatus Pelagibacter sp. HTCC7211; Candidatus Pelagibacter ubique HTCC1002; Candidatus Pelagibacter ubique HTCC1062

Type:

Expression profiling by array

Platform:

GPL7330

6 Samples

Download data: CEL, CHP

(Submitter supplied) Influence of the constant full-spectrum light and short-to-long wavelengths of the visible spectrum (red, green and blue lights) and the significance of 12 h photoperiod was tested on heterotrophic marine flavobacteria Siansivirga zeaxanthinifaciens CC-SAMT-1T. RNA-seq analysis revealed remarkable qualitative and quantitative variations in terms of gene expression in CC-SAMT-1T with respect to incident lights. more...

Organism:

Siansivirga zeaxanthinifaciens CC-SAMT-1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26505

8 Samples

Download data: XLSX