Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Dual RNAseq analysis of THP1 macrophages infected by AIEC LF82 bacteria

ABSTRACT: Dual RNAseq analysis of THP1 macrophages infected by AIEC LF82 bacteria

PROVIDER: PRJNA646949 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR12248376_1.fastq.gz	Fastqsanger.gz
	SRR12248376_2.fastq.gz	Fastqsanger.gz
	SRR12248377_1.fastq.gz	Fastqsanger.gz
	SRR12248377_2.fastq.gz	Fastqsanger.gz
	SRR12248378_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 28

Similar Datasets

Dual RNAseq analysis of THP1 macrophages infected by AIEC LF82 bacteria

Project description:AIEC are crohn disease related bacteria, they can survive and growth within macrophages mature lysosomes. To characterise the Human and bacterial pathways involved in this adaptation we performed Dual RNAseq

2020-10-01 | GSE154648 | GEO

A single rare sigma 70 variant establishes a different gene expression pattern in the E.coli pathobiont LF82

Project description:LF82, an adherent invasive Escherichia coli (AIEC) pathobiont, is associated with Crohn’s disease, an inflammatory bowel disease of unknown etiology. No genetic features have been identified that distinguish AIEC strains, such as LF82, from “commensal” or pathogenic E. coli. We investigated an extremely rare single nucleotide polymorphism (SNP) within the highly conserved rpoD gene, encoding sigma70 [primary sigma factor, RNA polymerase (RNAP)]. We demonstrate that sigma70 D445V results in transcriptome and phenotypic changes consistent with LF82 phenotypes, including increased biofilm formation and antibiotic resistance. The position of D445V within RNAP is predicted to affect spacer interaction; in vitro transcriptions reveal that the variant increases transcription from several promoters with a 16 bp spacer and a -14G:C. Our work demonstrates that a single SNP within the bacterial primary sigma can lead to myriad gene expression changes/ new phenotypes and suggests an underrecognized mechanism by which pathobionts and other strain variants can emerge.

2024-09-30 | GSE253924 | GEO

Identification of candidate adherent-invasive E. coli signature transcripts by genomic/transcriptomic analysis

Project description:Our aim was to identify candidate transcripts that distinguish AIEC from non-invasive E. coli (NIEC) strains and might be useful for rapid and accurate identification of AIEC by culture-independent technology. We performed comparative RNA-Sequence (RNASeq) analysis using AIEC strain LF82 and NIEC strain HS during exponential and stationary growth.

2017-02-09 | GSE69020 | GEO

Escherichia coli LF82

Project description:Gut colonization of AIEC

| PRJDB10678 | ENA

ChIP-seq of Thp1-mono, Thp1-macro, and Thp1-M.tb

Project description:Next Generation Sequencing data of ChIP-seq library of Thp1-mono, Thp1-macro, and Thp1-M.tb

2022-09-06 | GSE208043 | GEO

ATAC-seq of Thp1-mono, Thp1-macro, and Thp1-M.tb

Project description:Next Generation Sequencing data of ATAC-Seq library of Thp1-mono, Thp1-macro, and Thp1-M.tb

2022-09-06 | GSE208044 | GEO

ATAC-seq of Thp1-mono, Thp1-macro, and Thp1-M.tb

Project description:ATAC-seq of Thp1-mono, Thp1-macro, and Thp1-M.tb