Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Haloferax volcanii oxsR deletion and oxsRHA strain sequencing

PROVIDER: PRJNA806939 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR18017101_1.fastq.gz	Fastqsanger.gz
	SRR18017101_2.fastq.gz	Fastqsanger.gz
	SRR18017102_1.fastq.gz	Fastqsanger.gz
	SRR18017102_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 4 of 4

Similar Datasets

Structural and functional adaptation of Haloferax volcanii TFEα/β

Project description:Purpose: The Haloferax volcanii ∆tfeB strain provided a unique opportunity to study a putative role of TFEβ in the regulation of gene expression. Results: The deletion of the tfeB gene in H. volcanii results in the aberrant expression of approximately one third of all genes, consistent with its function as a basal transcription initiation factor. Interestingly, tfeB deletion particularly affects foreign genes including a prophage region. Conclusions: Our results confirm the dual function of TFE as basal factor and regulator of transcription

2017-12-08 | GSE101134 | GEO

Accelerated growth in the absence of DNA replication origins

Project description:DNA replication initiates at defined sites called origins, which serve as binding sites for initiator proteins that recruit the replicative machinery. Origins differ in number and structure across the three domains of life1 and their properties determine the dynamics of chromosome replication. Bacteria and some archaea replicate from single origins, whilst most archaea and all eukaryotes replicate using multiple origins. Initiation mechanisms that rely on homologous recombination operate in some viruses. Here we show that such mechanisms also operate in archaea. We have used deep sequencing to study replication in Haloferax volcanii. Four chromosomal origins of differing activity were identified. Deletion of individual origins resulted in perturbed replication dynamics and reduced growth. However, a strain lacking all origins has no apparent defects and grows significantly faster than wild-type. Origin-less cells initiate replication at dispersed sites rather than at discrete origins and have an absolute requirement for the recombinase RadA, unlike strains lacking individual origins. Our results demonstrate that homologous recombination alone can efficiently initiate the replication of an entire cellular genome. This raises the question of what purpose replication origins serve and why they have evolved. Measurement of replication dynamics (marker frequency analysis; MFA) for Haloferax volcanii strains, including wild-type, the laboratory strain, individual and combinations of replication origin deletions.

2013-11-03 | E-GEOD-41961 | biostudies-arrayexpress

Transcription analysis for the growth of Haloferax volcanii on L-alanine and ammonium chloride

Project description:Identification of global gene expression profiling when Haloferax volcanii H26 strain is grown in minimal medium supplemented with two nitrogen sources, 10 mM L-alanine and 10 mM ammonium chloride.

2019-08-21 | GSE130934 | GEO

A small RNA and its involvement in zinc transport

Project description:The function and mode of action of small regulatory RNAs is currently still understudied in archaea. In the halophilic archaeon H. volcanii a plethora of sRNAs have been identified, however, in-depth functional analysis is missing for most of them. We selected a small RNA (s479) from H. volcanii for detailed characterization. The sRNA gene is encoded between a CRISPR RNA locus and the Cas protein gene cluster, the s479 deletion strain is viable and was characterized in detail. Transcriptome studies of wild type Haloferax cells and the deletion mutant revealed up-regulation of six genes in the deletion strain, showing that the sRNA has a distinct cellular function. Proteome comparison of wild type and deletion strains further expanded the regulon of s479 deeply rooting this sRNA within the metabolism of H. volcanii especially the regulation of transporter abundance.

2021-08-10 | PXD022750 | Pride

Checking the origin utilisation of Haloferax mediterranei H13 through high-throughput DNA sequencing

Project description:A potential origin that appears to stay dormant in its native host Haloferax volcanii lacking the main active origins becomes activated and competent for replication of the entire chromosome when integrated into the chromosome of the origin-deleted H. mediterranei. Measurement of replication dynamics (marker frequency analysis; MFA) for Haloferax mediterranei H13

2015-07-10 | E-GEOD-70592 | biostudies-arrayexpress

Characterization of the zinc finger µ-protein HVO_0758 from Haloferax volcanii: biological roles, zinc binding, and NMR solution structure

Project description:Transcriptome analysis based on total RNA-seq was performed on different Haloferax volcanii strains including mutants strains iincluding deletion strains for two small proteins. Differential expression analysis showed that a subset of genes were found to be regulated in the absence of the small proteins.

2023-11-13 | GSE228855 | GEO

Haloferax volcanii strain:wsp1

Project description:Haloferax volcanii strain:wsp1 Genome sequencing

| PRJNA590472 | ENA

Project description:Haloferax volcanii trmB deletion and suppressor strains (tbsP)

| PRJNA846725 | ENA

Haloferax volcanii s479 transcriptome analysis

Project description:Transcriptome analysis of Haloferax volcanii deletion strain s479 vs wildtype H66

| PRJEB41379 | ENA

Impact of KsgA/Dim1 on proteostasis in Haloferax volcanii and Escherichia coli

Project description:Shotgun label-free analysis of Haloferax volcanii wildtype cells in comparison to strains deleted and catalytically impaired of the almost universally conserved ribosomal RNA dimethyltransferase KsgA/Dim1and of Escherichia coli wildtype strain in comparison to KsgA/Dim1 deleted strain.

2021-01-25 | PXD021827 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data