Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Treponema pallidum subsp. pallidum

ABSTRACT: Profile of the tprK gene in primary syphilis patients based on next-generation sequencing

PROVIDER: PRJNA498982 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8139240_1.fastq.gz	Fastqsanger.gz
	SRR8139240_2.fastq.gz	Fastqsanger.gz
	SRR8139241_1.fastq.gz	Fastqsanger.gz
	SRR8139241_2.fastq.gz	Fastqsanger.gz
	SRR8139242_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 28

Similar Datasets

Treponema pallidum subsp. pallidum

Project description:Insights into the mysterious genetic variation profile of tprK in Treponema pallidum under the development of natural human syphilis infection

| PRJNA512914 | ENA

Treponema pallidum subsp. pallidum

Project description:Raw sequence reads for longitudinal TprK of T.pallidum

| PRJNA734645 | ENA

Treponema pallidum subsp. pallidum

Project description:PacBio long-read sequencing of the tprK gene

| PRJNA902035 | ENA

Treponema pallidum subsp. pallidum

Project description:Sequencing of tprK in Treponema pallidum subsp. pallidum

| PRJNA589065 | ENA

Treponema pallidum subsp. pallidum str. Nichols

Project description:Causative agent of syphilis

| PRJNA5 | ENA

Treponema pallidum subsp. pallidum str. Nichols

Project description:Causative agent of syphilis

| PRJNA30655 | ENA

Treponema pallidum subsp. pallidum SS14

Project description:Isolated from a patient with secondary syphilis

| PRJNA20067 | ENA

Treponema pallidum subsp. pallidum DAL-1 strain:Dallas1

Project description:Causative agent of syphilis

| PRJNA30649 | ENA

Gene expression of Treponema pallidum: in vitro vs. in vivo

Project description:Treponema pallidum ssp. pallidum, the causative agent of syphilis, can now be cultured continuously in vitro utilizing a tissue culture system, and the multiplication rates are similar to those obtained in experimental infection of rabbits. In this study, the RNA transcript profiles of the T. pallidum Nichols during in vitro culture and rabbit infection were compared to examine whether gene expression patterns differed in these two environments. To this end, RNA preparations were converted to cDNA and subjected to RNA-seq using high throughput Illumina sequencing; reverse transcriptase quantitative PCR was also performed on selected genes for validation of results. The transcript profiles in the in vivo and in vitro environments were remarkably similar, exhibiting a high degree of concordance overall. However, transcript levels of 94 genes (9%) out of the 1,063 predicted genes in the T. pallidum genome were significantly different during rabbit infection versus in vitro culture, varying by up to 8-fold in the two environments. Genes that exhibited significantly higher transcript levels during rabbit infection included those encoding multiple ribosomal proteins, several prominent membrane proteins, glycolysis-associated enzymes, replication initiator DnaA, rubredoxin, thioredoxin, two putative regulatory proteins, and proteins associated with solute transport. In vitro cultured T. pallidum had higher transcript levels of DNA repair proteins, cofactor synthesis enzymes, and several hypothetical proteins. The overall concordance of the transcript profiles may indicate that these environments are highly similar in terms of their effects on T. pallidum physiology and growth, and may also reflect a relatively low level of transcriptional regulation in this reduced genome organism.

2021-10-12 | GSE185709 | GEO

Treponema pallidum SS14 global proteomics

Project description:Raw data files (RAW and mzML) and Scaffold search engine files corresponding to the whole proteome analyses of the syphilis spirochete, Treponema pallidum ssp. pallidum, strain SS14.

| MSV000095818 | MassIVE

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