Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
13
datasets available to search
ShareScore release 0.9.0
Dataset results
13 results for “bacterial cell cycle”
Data from: Transcriptome and proteome dynamics of a light-dark synchronized bacterial cell cycle
BACKGROUND: Growth of the ocean's most abundant primary producer, the cyanobacterium Prochlorococcus, is tightly synchronized to the natural 24-hour light-dark cycle. We sought to quantify the relationship between transcriptome and proteome dynamics that underlie this obligate photoautotroph's highly choreographed response to the daily oscillation in energy supply. METHODOLOGY/PRINCIPAL FINDINGS: Using Illumina RNA-sequencing transcriptomics and mass spectrometry-based quantitative proteomics, we measured timecourses of paired mRNA-protein abundances for 312 genes every 2 hours over a light-dark cycle. These temporal expression patterns reveal strong oscillations in transcript abundance that are broadly damped at the protein level, with mRNA levels varying on average 2.3 times more than the corresponding protein. The single strongest observed protein-level oscillation is in a ribonucleotide reductase, which may reflect a defense strategy against phage infection. The peak in abundance of most proteins also lags that of their transcript by 2-8 hours, and the two are completely antiphase for some genes. While abundant antisense RNA was detected, it apparently does not account for the observed divergences between expression levels. The redirection of flux through central carbon metabolism from daytime carbon fixation to nighttime respiration is associated with quite small changes in relative enzyme abundances. CONCLUSIONS/SIGNIFICANCE: Our results indicate that expression responses to periodic stimuli that are common in natural ecosystems (such as the diel cycle) can diverge significantly between the mRNA and protein levels. Protein expression patterns that are distinct from those of cognate mRNA have implications for the interpretation of transcriptome and metatranscriptome data in terms of cellular metabolism and its biogeochemical impact.
Codes and datasets for "Cell cycle-dependent organization of a bacterial centromere through multi-layered regulation of the ParABS system"
<p>Matlab and R codes and datasets related to the publication entitled "Cell cycle-dependent organization of a bacterial centromere through multi-layered regulation of the ParABS system"</p>
Data from: Transcriptome and proteome dynamics of a light-dark synchronized bacterial cell cycle
Open the record for dataset details and reuse information.
Transcriptomic and phylogenetic analysis of a bacterial cell cycle reveals strong associations between gene co-expression and evolution
GEO Series GSE46915. Caulobacter vibrioides. 15 samples. Type: Expression profiling by high throughput sequencing.
Conserved local hypomethylation control during the bacterial cell cycle and by superimposed environmental cues
GEO Series GSE79880. Caulobacter vibrioides; Vibrio cholerae O1 biovar El Tor; Caulobacter vibrioides NA1000; Sinorhizobium meliloti; Escherichia coli str. K-12 substr. MG1655. 16 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Methylation profiling by high throughput sequencing.
A quantitative model for the transcriptional landscape of the bacterial cell cycle
GEO Series GSE217715. Escherichia coli; Staphylococcus aureus; Bacillus subtilis. 88 samples. Type: Expression profiling by high throughput sequencing.
Developmental switch within the bacterial cell cycle regulator CtrA
GEO Series GSE134017. Caulobacter vibrioides NA1000. 10 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
The DUF1013 protein TrcR tracks with RNA polymerase to control bacterial cell cycle and protection against antibiotics
GEO Series GSE148654. Caulobacter vibrioides NA1000; Sinorhizobium meliloti 2011. 20 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
Regulation of bacterial cell cycle progression by redundant phosphatases
GEO Series GSE152025. Caulobacter vibrioides. 3 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
The DUF1013 protein TrcR tracks with RNA polymerase to control bacterial cell cycle and protection against antibiotics (ChIP-seq dataset)
GEO Series GSE148652. Caulobacter vibrioides NA1000; Sinorhizobium meliloti 2011. 16 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
A kinase-phosphatase switch transduces environmental information into a bacterial cell cycle circuit
GEO Series GSE90030. Caulobacter vibrioides. 7 samples. Type: Expression profiling by high throughput sequencing.
The bacterial cell-cycle regulator GcrA is a σ70 co-factor that drives gene expression from a subset of methylated promoters.
GEO Series GSE73925. Caulobacter vibrioides. 10 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
The DUF1013 protein TrcR tracks with RNA polymerase to control bacterial cell cycle and protection against antibiotics (RNA-seq dataset)
GEO Series GSE148653. Caulobacter vibrioides NA1000. 4 samples. Type: Expression profiling by high throughput sequencing.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.