GEO DataSets

(Submitter supplied) Phase separation serves an important role in the three-dimensional chromosome organization and remodeling in eukaryotes. Whether this process is involved in archaeal chromosome organization is unknown. Here we demonstrate that archaeal DNA condensing protein1 (aDCP1) from the hyperthermophilic crenarchaeon Sulfolobus islandicus is able to bridge DNA efficiently and form large protein-DNA condensates with a droplet- or gel-like morphology in vitro. more...

Organism:

Sulfolobus islandicus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL32733

2 Samples

Download data: BW

(Submitter supplied) RNA-seq data for Sulfolobus islandicus REY15A Δcbp1 strain and the parental strain E234

Organism:

Sulfolobus islandicus REY15A

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33142

4 Samples

Download data: BW, TXT

(Submitter supplied) To investigate the putative functions of the ssDNA binding proteins SisSSB and SisDBP in DNA replication, DNA repair and DNA damage response, we constructed Sisssb and Sisdbp deletion mutants of S. islandicus.

Organism:

Sulfolobus islandicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32733

9 Samples

Download data: TXT

(Submitter supplied) To investigate the function of the FHA protein SisFha in the regulation of gene transcription during DNA damage response, we constructed Sisfha deletion mutant of S. islandicus and treated with NQO.

Organism:

Sulfolobus islandicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32733

12 Samples

Download data: TXT

(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:

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

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:

Sulfolobus islandicus LAL14/1

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL32880

12 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:

Sulfolobus islandicus REY15A

Type:

Other

Platform:

GPL33183

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:

Sulfolobus islandicus REY15A

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL24667 GPL23498 GPL33142

20 Samples

Download data: BW

(Submitter supplied) Cell cycle regulation is of paramount importance for all forms of life. Here we report that a conserved and essential cell cycle-specific transcription factor (designated as aCcr1) and its viral homologs control cell division in Sulfolobales. We show that the transcription level of accr1 reaches peak during active cell division (D-phase) subsequent to the expression of CdvA, an archaea-specific cell division protein. more...

Organism:

Sulfolobus islandicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32733

18 Samples

Download data: TXT

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

Organism:

Sulfolobus islandicus

Type:

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

Platform:

GPL32733

9 Samples

Download data: BW

(Submitter supplied) Cell cycle regulation is of paramount importance for all forms of life. Here we report that a conserved and essential cell cycle-specific transcription factor (designated as aCcr1) and its viral homologs control cell division in Sulfolobales. We show that the transcription level of accr1 reaches peak during active cell division (D-phase) subsequent to the expression of CdvA, an archaea-specific cell division protein. more...

Organism:

Sulfolobus islandicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32733

6 Samples

Download data: XLS

(Submitter supplied) Cell cycle regulation is of paramount importance for all forms of life. Here we report that a conserved and essential cell cycle-specific transcription factor (designated as aCcr1) and its viral homologs control cell division in Sulfolobales. We show that the transcription level of accr1 reaches peak during active cell division (D-phase) subsequent to the expression of CdvA, an archaea-specific cell division protein. more...

Organism:

Sulfolobus islandicus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL32733

3 Samples

Download data: BW

(Submitter supplied) To identify putative target genes in S. islandicus LAL14/1 of the viral transcriptional regulator SIRV2 gp21

Organism:

Sulfolobus islandicus LAL14/1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32880

12 Samples

Download data: TXT

(Submitter supplied) Chromosome conformation capture (3C) technologies have identified topologically associating domains (TADs) and larger A/B compartments as two salient structural features of eukaryotic chromosomes. These structures are sculpted by the combined actions of transcription and structural maintenance of chromosomes (SMC) superfamily proteins. Bacterial chromosomes fold into TAD-like chromosomal interaction domains (CIDs) but do not display A/B compartment-type organization. more...

Organism:

Sulfolobus islandicus; Sulfolobus acidocaldarius

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL26275 GPL26274

31 Samples

Download data: TXT

(Submitter supplied) We report Over-expression of the wild type SisEndoMS in S. islandicus resulted in retarded growth and abnormal cell morphology. Transcriptomic analysis revealed that SisEndoMS overexpression led to upregulation of distinct sets of genes including the CRISPR-Cas IIIB system, methytransferases, and glycosyltransferases, which are mainly localized to a specific segment in the chromosome.

Organism:

Sulfolobus islandicus REY15A

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24667

6 Samples

Download data: TXT, XLSX

(Submitter supplied) The three-dimensional organization of chromosomes can have a profound impact on their replication and expression. The chromosomes of higher eukaryotes possess discrete compartments that are characterized by differing transcriptional activities. Contrastingly, most bacterial chromosomes have simpler organization with local domains, the boundaries of which are influenced by gene expression. Numerous studies have revealed that the higher-order architectures of bacterial and eukaryotic chromosomes are dependent on the actions of Structural Maintenance of Chromosomes (SMC) superfamily protein complexes, in particular the near-universal condensin complex. more...

Organism:

Sulfolobus acidocaldarius; Sulfolobus islandicus

Type:

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

4 related Platforms

94 Samples

Download data: TXT

(Submitter supplied) Transcriptome sequencing was carried out on an Illumina HiSeq platform to investigate CRISPR-Cas and DNA repair systems by Csa3b in Sulfolobus islandicus Rey15A. We compared the differently expressed genes in Sulfolobus islandicus Rey15A strain with csa3a overexpression vs. Sulfolobus islandicus Rey15A strain carrying an empty expression vector,We find thatcmr-α (SiRe_0890 ~ SiRe_0895) and cmr-β (SiRe_0597 ~ SiRe_0603)、the DNA double strand break (DSB)repair genes, including nurA, rad50, mre11, and herA (SiRe_0061 ~ SiRe_0064), as well as two subunits of DNA polymerase II (SiRe_0615 and SiRe_0617) that function in DNA repair, were significantly up-regulated. more...

Organism:

Sulfolobus islandicus REY15A

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23497

4 Samples

Download data: TXT

(Submitter supplied) Transcriptome sequencing was carried out with an Illumina HiSeq platform to investigate the differently expressed genes in wild type strain E233S1 and cdc6-2 deletion mutant ∆cdc6-2 with or without 2 µM NQO treatment for 6 hours

Organism:

Sulfolobus islandicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23820

4 Samples

Download data: XLS

(Submitter supplied) Transcriptome sequencing was carried out with an Illumina HiSeq platform to investigate the differently expressed genes in wide type strain E233S1 and tfb3 gene deletion mutant ∆tfb3 with or without 2 µM NQO treatment for 6 hours.

Organism:

Sulfolobus islandicus REY15A

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24667

4 Samples

Download data: XLSX

(Submitter supplied) Transcriptome sequencing was carried out on an Illumina HiSeq platform to investigate the activation of CRISPR-Cas and DNA repair systems by Csa3a in Sulfolobus islandicus Rey15A. We compared the differently expressed genes in Sulfolobus islandicus Rey15A strain with csa3a overexpression vs. Sulfolobus islandicus Rey15A strain carrying an empty expression vector, cas1 deletion strain with csa3a overexpression vs. more...

Organism:

Sulfolobus islandicus REY15A

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23497 GPL23498

12 Samples

Download data: XLS