GEO DataSets

(Submitter supplied) CRISPR arrays form the physical memory of CRISPR adaptive immune systems by incorporating foreign DNA as spacers that are often AT-rich and derived from viruses. As promoter elements such as the TATA-box are AT-rich, CRISPR arrays are prone to harbouring cryptic promoters. Sulfolobales harbor extremely long CRISPR arrays spanning several kilobases, a feature that is accompanied by the CRISPR-specific transcription factor Cbp1. more...

Organism:

Saccharolobus islandicus REY15A; Saccharolobus islandicus LAL14/1; Saccharolobus solfataricus P2

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other

7 related Platforms

48 Samples

Download data: BW

(Submitter supplied) Chromatin proteins competes with the transcription machinery for access to genomic DNA and suppress cryptic promoters. CRISPR arrays form the physical memory of CRISPR adaptive immune systems. The incorporation of virus-derived AT-rich DNA into CRISPR arrays renders them prone to harbouring cryptic promoters. Sulfolobales feature extremely long CRISPR arrays spanning several kilobases as well as a CRISPR-specific chromatin protein termed Cbp1. more...

Organism:

Saccharolobus solfataricus P2

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL33185 GPL33184

4 Samples

Download data: BW

(Submitter supplied) Chromatin proteins competes with the transcription machinery for access to genomic DNA and suppress cryptic promoters. CRISPR arrays form the physical memory of CRISPR adaptive immune systems. The incorporation of virus-derived AT-rich DNA into CRISPR arrays renders them prone to harbouring cryptic promoters. Sulfolobales feature extremely long CRISPR arrays spanning several kilobases as well as a CRISPR-specific chromatin protein termed Cbp1. more...

Organism:

Saccharolobus solfataricus P2

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL33184

4 Samples

Download data: BW

(Submitter supplied) Recruitment of RNA polymerase and initiation factors to the promoter is the only known mechanisms for transcription activation and repression in archaea. Whether any of the subsequent steps towards productive transcription elongation is involved in regulation is not known. We characterised how the basal transcription machinery is distributed along genes in the archaeon Sulfolobus solfataricus. We discovered a distinct early elongation phase where RNA polymerases sequentially recruit the elongation factors Spt4/5 and Elf1 to form the transcription elongation complex (TEC) before the TEC escapes into productive transcription. more...

Organism:

Saccharolobus solfataricus P2

Type:

Other

Platform:

GPL28984

2 Samples

Download data: BAM

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Saccharolobus solfataricus; Saccharolobus solfataricus P2

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Other

Platforms:

GPL28984 GPL27828 GPL27815

84 Samples

Download data: BAM, BW

(Submitter supplied) Genome reorganization by large scale indels, gene displacements, and horizontal gene transfers allow an organism to re-organize genes into operons (“operonization”) and explore novel strategies for adapting to its changing environment. We have characterized the process of operonization by mapping and comparing transcriptome structures (TSs) of four phylogenetically diverse exptremophilic archaea: a hydrogenotrophic methanogen (Methanococcus maripaludis S2), an anaerobic thermophile (Pyrococcus furiosis DSM 3638), an acidophilic and aerobic thermophile (Sulfolobus solfataricus P2), and a photoheterotrophic halophile (Halobacterium salinarum NRC-1). more...

Organism:

Pyrococcus furiosus DSM 3638; Saccharolobus solfataricus P2; Methanococcus maripaludis S2

Type:

Expression profiling by genome tiling array

Platforms:

GPL11621 GPL11622 GPL11623

46 Samples

Download data: CSV

(Submitter supplied) Experimentally mapped transcriptome structure of Sulfolobus solfataricus P2 by hybridizing total RNA (including RNA species <200 nt) to genome-wide high-density tiling arrays (60 mer probes tiled every 25 nt).

Organism:

Saccharolobus solfataricus P2

Type:

Expression profiling by genome tiling array

Platform:

GPL11623

16 Samples

Download data: CSV

(Submitter supplied) Organisms of the third domain of life, the Archaea, share molecular characteristics both with bacteria and eukarya. These organisms attract scientific attention as research models for regulation and evolution of processes such as transcription, translation and RNA processing. We have reconstructed the primary transcriptome of Sulfolobus solfataricus P2, one of the most widely studied model archaeal organisms. more...

Organism:

Saccharolobus solfataricus P2

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9463

8 Samples

Download data: TXT

(Submitter supplied) Sulfolobus solfataricus P2 was grown aerobically, with O2 concentrations ranging from 1.5 to 26 % (v/v; gas phase). To gain some insight in control of the respiratory system, transcriptomes of the strain cultivated in different O2 concentrations (1.5 % vs 21 %, 1.5 % vs 26 %) were compared using a DNA microarray approach.

Organism:

Saccharolobus solfataricus P2; Saccharolobus solfataricus

Type:

Expression profiling by array

Platform:

GPL7093

12 Samples

Download data: GPR

(Submitter supplied) Time series of infection of Sulfolobus solfataricus strain 2-2-12 cells infected with STIV are compared with uninfected cells over 32 h.

Organism:

Saccharolobus solfataricus P2; Saccharolobus solfataricus

Type:

Expression profiling by array

Platform:

GPL7093

30 Samples

Download data: GPR

(Submitter supplied) Whole genome tiling array for Sulfolobus solfataricus P2 Agilent designID: 023310 Protocol: 60-mer probes were tiled every 25 nt. Plus extras, random control probes, and replicate probes. See manufacturer's web site at http://www.agilent.com/

Organism:

Saccharolobus solfataricus P2

2 Series

16 Samples

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(Submitter supplied) Oligo probes were designed by Walther, Brouns and van de Werken based on the published genenomes. Oligos were synthesized and cleaned up using an automated process and spotted on to slides. Ocimum Biosolutions produced the slides using their established protocols.

Organism:

Saccharolobus solfataricus P2

2 Series

42 Samples

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