Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1299292 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Syphilis, caused by Treponema pallidum subsp. pallidum, is an urgent global public health threat. Syphilis vaccine development has been impeded by limited understanding of the molecular mechanisms that enable T. pallidum to establish and maintain infection. The vascular endothelium is critical for T. pallidum attachment, dissemination, and host immune response initiation; however, the molecular details of T. pallidum-endothelial interactions are incompletely understood. To enhance understanding, we performed time-course transcriptomic profiling on T. pallidum-exposed brain microvascular endothelial cells. These analyses showed T. pallidum exposure alters pathways related to extracellular matrix, growth factors, integrins, and Rho GTPases. The induced transcriptional response was consistent with endothelial to mesenchymal transition, a key process involved in fetal development and vascular dysfunction. This study provides a comprehensive understanding of the molecular response of endothelial cells to T. pallidum and identifies the host pathways that may cause syphilis disease symptoms, information that could aid syphilis vaccine design.
2025-09-29 | GSE281329 | GEO
Project description:Proteome-wide analysis of the syphilis spirochete, Treponema pallidum ssp. pallidum (Nichols strain). Treponemes were in vitro-cultured.
2023-12-07 | MSV000093603 | MassIVE
Project description:Treponema pallidum subspecies pallidum (T. pallidum) infection induces significant immune responses, resulting in tissue damage. Gene expression plays an essential role in regulating the progression of syphilis infection. However, little is known about the regulatory role of miRNAs in the immune response to T. pallidum infection. Here, we analyze the differential expression of miRNAs in peripheral blood mononuclear cells (PBMCs) between secondary syphilis (SS) patients and healthy controls and study the correlation between miRNAs expression and clinical features with bioinformatics.
2020-08-19 | GSE156421 | GEO
Project description:Proteome-wide analysis of the syphilis spirochete, Treponema pallidum ssp. pallidum (Nichols strain). Treponemes were cultured in, and isolated from, New Zealand white rabbits.
2023-05-24 | MSV000092028 | MassIVE
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
Project description:Treponema pallidum (Tp) infection evokes vigorous immune responses, resulting in tissue damage. The immune mechanism after Treponema pallidum infection is still not clear. MicroRNAs (miRNAs) have been shown, however, to influence immune cell function and consequently the generation of antibody responses during other microbe infections, but these values are unknown for Tp. In this study, we performed a comprehensive analysis of differentially expressed miRNAs in healthy persons, untreated patients with syphilis, patients in the serofast state, and serologically cured patients. MiRNAs were profiled from patient peripheral blood obtained at the time of serological diagnosis. There were 89 differentially regulated miRNA identified in total. Then both the target sequence analysis on these different miRNAs and pathway analysis were performed to identify important immune and cell signaling pathways. Following RT-qPCR confirmation, three miRNAs (hsa-miR-195-5p, hsa-miR-223-3p, hsa-miR-589-3p) showed significant difference among serofast state, and serological cure (P<0.05). Two miRNAs (hsa-miR-195-5p, hsa-miR-1204) showed significant differences among untreated patients and healthy individuals. This is the first study of miRNA expression difference in PBMC in different stages of T. pallium infection. Our study suggests that the combination of three miRNAs has great potential to serve as non-invasive biomarkers of Treponema pallidum infections, which will facilitate better diagnosis and treat of T. pallium infections.
2019-12-28 | GSE142676 | GEO
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
Project description:In this work, proteomes of seven Treponema pallidum subsp. pallidum (TPA) strains including Nichols-like strains (DAL-1, Haiti B, Madras) and SS14-like strains (SS14, Philadelphia 1, Grady, Mexico A), grown under in vitro conditions, were analyzed in biological triplicates. Digestion peptides during proteome analyses (LC-MS/MS) were detected with different annotation algorithms (DFAST, PGAP, Prodigal, Prokka, RAST, GeneMarkS, and a manual GenBank annotation) of the corresponding genomes. In addition, ORFfinder was used to predict all ORFs encoding polypeptides longer than 50 amino acid residues. Altogether, 10,823 unique peptides of treponemal origin were detected during analyses. The number of detected peptides per strain varied between 2117 and 7455 with the highest number of detected peptides found for TPA DAL-1 strain. To determine the extent of detected proteins, seven different annotations of seven TPA strains were combined together and only unique protein annotations were kept. Altogether, 1216 predicted protein sequences were searched in the database of detected peptides and 911 individual proteins were identified (74.9%). From individual annotation algorithms, the highest percentage coverage of annotated proteins was detected by GeneMarkS algorithm reaching up to 88.9% of detected proteins out of GeneMarkS-annotated proteins in TPA Haiti B. The support for detected proteins was quite robust with 85.5% of detected proteins identified by two or more peptides and almost three quarters of proteins identified by three and more peptides (72.4%). Altogether, a set of 51 proteins out of 1,053 RAST-annotated proteins (4.8%) showed statistically significant quantitative differences in the proteome signals among different TPA strains. Despite the previously found differences in the growth rates of several TPA strains, proteome analysis revealed only a limited number of detectable quantitative differences in the proteomes.
2025-11-01 | PXD065022 | Pride
Project description:Culture-independent targeted-WGS of the syphilis-causing agent Treponema pallidum directly from clinical samples
| PRJNA322283 | ENA
Project description:In this project, we investigated whether diverse spirochete species contain lysinoalanine cross-linkages between conserved residues in their flagellar hook proteins (FlgE). We examined the following species: Treponema denticola¸ Borreliella burgdorferi, Treponema phagedenis, Treponema pallidum, Brachyspira hyodysenteriae, Leptospira interrogans. For each bacterial species, we examined a variety of different sample types, including recombinantly produced FlgE, polyhooks purified from flik knock-out strains, and wild-type periplasmic filaments. Overall, our data suggests that lysinoalanine crosslinking in a conserved FlgE post-translational modification in spirochetes and is required for the unique motility of these organisms. For more information, please see the following manuscript: https://doi.org/10.1101/2023.06.13.544825.
2024-01-26 | PXD045997 | Pride