Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Unveiling the regulatory network controlling natural transformation in lactococci

ABSTRACT: Unveiling the regulatory network controlling natural transformation in lactococci

PROVIDER: PRJNA1076222 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR27960690_1.fastq.gz	Fastqsanger.gz
	SRR27960690_2.fastq.gz	Fastqsanger.gz
	SRR27960691_1.fastq.gz	Fastqsanger.gz
	SRR27960691_2.fastq.gz	Fastqsanger.gz
	SRR27960692_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

Unveiling the regulatory network controlling natural transformation in lactococci

Project description:Lactococcus lactis is a lactic acid bacterium of major importance for food fermentation and biotechnological applications. The ability to manipulate its genome quickly and easily through competence for DNA transformation would accelerate its general use as a platform for a variety of applications. Natural transformation in this species requires the activation of the master regulator ComX. However, the growth conditions that lead to spontaneous transformation, as well as the regulators that control ComX production, are unknown. Here, we identified the carbon source, nitrogen supply, and pH as key factors controlling competence development in this species. Notably, we showed that these conditions are sensed by three global regulators (i.e., CcpA, CodY, and CovR), which repress comX transcription directly. Furthermore, our systematic inactivation of known signaling systems suggests that classical pheromone-sensing regulators are not involved. Finally, we discovered that the ComX-degrading MecA-ClpCP machinery plays a predominant role based on the identification of a single amino-acid substitution in the adaptor protein MecA of a highly transformable strain. Contrasting with closely-related streptococci, the master competence regulator in L. lactis is regulated both proximally by general sensors and distantly by the Clp degradation machinery. This study not only highlights the diversity of regulatory networks for competence control in Gram-positive bacteria, but it also paves the way for the use of natural transformation as a tool to manipulate this biotechnologically important bacterium.

2024-06-13 | GSE255719 | GEO

Natural Transformation of Bacteria by Damaged DNA

Project description:Bacterial Natural Transformation by Highly Fragmented and Damaged DNA

| PRJEB4698 | ENA

Diversity in natural transformation frequencies and regulation across Vibrio species

Project description:In marine Vibrio species, chitin-induced natural transformation enables bacteria to take up DNA from the external environment and integrate it into their genome via homologous recombination. Expression of the master competence regulator TfoX bypasses the need for chitin induction and drives expression of the genes required for competence in several Vibrio species. Here, we show that TfoX expression in two Vibrio campbellii strains, DS40M4 and NBRC 15631, enables high frequencies of natural transformation. Conversely, transformation was not achieved in the model quorum-sensing strain V. campbellii BB120 (previously classified as Vibrio harveyi). Surprisingly, we find that quorum sensing is not required for transformation in V. campbellii DS40M4. This result is in contrast to Vibrio cholerae that requires the quorum-sensing regulator HapR to activate the competence regulator QstR. However, similar to V. cholerae, QstR is necessary for transformation in DS40M4. To investigate the difference in transformation frequencies between BB120 and DS40M4, we used previously studied V. cholerae competence genes to inform a comparative genomics analysis coupled with transcriptomics. BB120 encodes homologs of all known competence genes, but most of these genes were not induced by ectopic expression of TfoX, which likely accounts for the non-functional natural transformation in this strain. Comparison of transformation frequencies among Vibrio species indicates a wide disparity among even closely related strains, with Vibrio vulnificus having the lowest functional transformation frequency. We show that ectopic expression of both TfoX and QstR is sufficient to produce a significant increase in transformation frequency in Vibrio vulnificus.

2019-11-14 | GSE136941 | GEO

Global Regulatory Network Controlling Human Somatic Cell Reprogramming

Project description:Global Regulatory Network Controlling Human Somatic Cell Reprogramming

| PRJNA282451 | ENA

Diverse conjugative elements silence natural transformation in Legionella species

Project description:Diverse conjugative elements silence natural transformation in Legionella species

| PRJEB31835 | ENA

Regulatory network controlling tumor-promoting inflammation in human cancers

Project description:Regulatory network controlling tumor-promoting inflammation in human cancers

| PRJNA475548 | ENA

Unveiling the signaling network of FLT3-ITD AML improves drug sensitivity prediction

Project description:Unveiling the signaling network of FLT3-ITD AML improves drug sensitivity prediction

| PRJNA1038767 | ENA

Diversity in natural transformation frequencies and regulation across Vibrio species

Project description:Diversity in natural transformation frequencies and regulation across Vibrio species

| PRJNA564094 | ENA

Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells [scRNA-seq]

Project description:Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells.

2020-05-06 | GSE146684 | GEO

Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells [RNA-Seq]

Project description:Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells

2020-05-06 | GSE135600 | GEO

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