GEO DataSets

(Submitter supplied) Prochlorococcus is a genus of abundant and ecologically important marine cyanobacteria. Here, we present the comprehensive comparison of the structure and composition of the transcriptomes of two closely related Prochlorococcus strains, which, despite their similarities, have adapted their gene pool to specific environmental constraints. We used large-scale strand-specific cDNA sequencing, microarray RNA profiling and computational analyses to characterize the transcriptomes of Prochlorococcus sp. more...

Organism:

Prochlorococcus phage P-SSM4; Tiamatvirus PSSP7; Prochlorococcus marinus subsp. pastoris str. CCMP1986; Prochlorococcus marinus str. MIT 9313

Type:

Expression profiling by array

Platform:

GPL8853

5 Samples

Download data: CEL, TXT

(Submitter supplied) Prochlorococcus contributes significantly to ocean primary productivity. The link between primary productivity and iron in specific ocean regions is well established and iron limitation of Prochlorococcus cell division rates in these regions has been shown. However, the extent of ecotypic variation in iron metabolism among Prochlorococcus and the molecular basis for differences is not understood. Here, we examine the growth and transcriptional response of Prochlorococcus strains, MED4 and MIT9313, to changing iron concentrations. more...

Organism:

Prochlorococcus marinus str. MIT 9313; Tiamatvirus PSSP7; Prochlorococcus marinus subsp. pastoris str. CCMP1986; Prochlorococcus phage P-SSM4

Type:

Expression profiling by array

Platform:

GPL11412

39 Samples

Download data: CEL

(Submitter supplied) RNA decay was measured in Prochlorococcus after inhibition of transcription by rifampicin using customized Affymetrix gene expression arrays. RNA turnover plays an important role in the gene regulation of microorganisms and influences their speed of acclimation to environmental changes. We investigated whole-genome RNA stability of Prochlorococcus, a relatively slow-growing marine cyanobacterium doubling approximately once a day, which is extremely abundant in the oceans. more...

Organism:

Prochlorococcus marinus str. MIT 9313; Prochlorococcus marinus subsp. pastoris str. CCMP1986; Tiamatvirus PSSP7; Prochlorococcus phage P-SSM4

Type:

Expression profiling by array

Platform:

GPL8853

20 Samples

Download data: CEL

(Submitter supplied) Microarrays are useful tools for detecting and quantifying specific functional and phylogenetic genes in natural microbial communities. In order to track uncultivated microbial genotypes and their close relatives in an environmental context, we designed and implemented a “genome proxy” microarray that targets microbial genome fragments recovered directly from the environment. Fragments consisted of sequenced clones from large-insert genomic libraries from microbial communities in Monterey Bay, the Hawaii Ocean Time-series station ALOHA, and Antarctic coastal waters. more...

Organism:

uncultured marine alpha proteobacterium; uncultured Pseudomonadota bacterium; uncultured crenarchaeote 74A4; uncultured proteobacterium 65D09; uncultured marine group II euryarchaeote EF100_57A08; uncultured marine bacterium EB000_55B11; uncultured marine group II euryarchaeote 37F11; uncultured marine bacterium 440; uncultured marine bacterium 583; marine metagenome; Prochlorococcus marinus str. MIT 9313; Prochlorococcus marinus str. MIT 9515; uncultured marine bacterium 577; uncultured gamma proteobacterium eBACHOT4E07; uncultured crenarchaeote 4B7; Prochlorococcus marinus subsp. pastoris str. CCMP1986; Prochlorococcus marinus str. MIT 9312; uncultured marine gamma proteobacterium EBAC31A08; uncultured marine bacterium EB0_41B09; uncultured proteobacterium 60D04

Type:

Other

Platform:

GPL6012

28 Samples

Download data: GPR

(Submitter supplied) We used microarray analysis to investigate whole genome transcriptome dynamics of the marine cyanobacterium Prochlorococcus sp. strain MED4 and the T7-like podovirus P-SSP7 over a time course during the 8 hour latent period of lytic infection prior to cell lysis. Manuscript Summary: Interactions between bacterial hosts and their viruses (phages) lead to reciprocal genome evolution through a dynamic co-evolutionary process1-5. more...

Organism:

Prochlorococcus marinus str. MIT 9313; Prochlorococcus marinus subsp. pastoris str. CCMP1986; Prochlorococcus phage P-SSM4; Tiamatvirus PSSP7

Type:

Expression profiling by array

Platform:

GPL5471

45 Samples

Download data: CEL

(Submitter supplied) see manufacturer's website

Organism:

Prochlorococcus marinus subsp. pastoris str. CCMP1986; Prochlorococcus marinus str. MIT 9313; Prochlorococcus phage P-SSM4; Tiamatvirus PSSP7

1 Series

39 Samples

Download data: CDF, TXT

(Submitter supplied) The MD4-9313 array (MD4-9313a520062) is a custom-made high density antisense Affymetrix array. This array detects labeled cDNA that is antisense to the original RNA. It contains probes for the genomes of two cyanobacterial strains, Prochlorococcus MED4 and Prochlorococcus MIT9313. The array contains probe sets to detect all predicted open reading frames with probe pairs approximately every 80 bases. more...

Organism:

Prochlorococcus marinus subsp. pastoris str. CCMP1986; Prochlorococcus marinus str. MIT 9313; Prochlorococcus phage P-SSM4; Tiamatvirus PSSP7

2 Series

25 Samples

Download data: CDF, TXT

(Submitter supplied) Array format - Midi; Synthesis area - 8.1 mm; Feature size - 18 micron Protocol: The MD4-9313 array (MD4-9313a520062) is a custom-made high density antisense Affymetrix array. This array detects labeled cDNA that is antisense to the original RNA. It contains probes for the genomes of two cyanobacterial strains, Prochlorococcus MED4 and Prochlorococcus MIT9313, as well as two dsDNA phages that infect Prochlorococcus MED4 – the podovirus P-SSP7 and the myovirus P-SSM4. more...

Organism:

Prochlorococcus marinus subsp. pastoris str. CCMP1986; Prochlorococcus marinus str. MIT 9313; Prochlorococcus phage P-SSM4; Tiamatvirus PSSP7

1 Series

45 Samples

Download data: CDF