Proteome Analysis of Seven Treponema pallidum subsp. pallidum Strains Grown In Vitro

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14110%2F25%3A00142266" target="_blank" >RIV/00216224:14110/25:00142266 - isvavai.cz</a>

Výsledek na webu

<a href="https://pubs.acs.org/doi/10.1021/acs.jproteome.5c00624" target="_blank" >https://pubs.acs.org/doi/10.1021/acs.jproteome.5c00624</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1021/acs.jproteome.5c00624" target="_blank" >10.1021/acs.jproteome.5c00624</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Proteome Analysis of Seven Treponema pallidum subsp. pallidum Strains Grown In Vitro

Popis výsledku v původním jazyce

Treponema pallidum subsp. pallidum (T. pallidum), the fastidious causative agent of syphilis, has become more accessible for research with its recently developed in vitro cultivation method. In this work, the proteomes of seven T. pallidum strains (Nichols-like: DAL-1, Haiti B, and Madras; SS14-like: SS14, Mexico A, Philadelphia 1, and Grady), cultivated in vitro, were analyzed in biological triplicates by liquid chromatography-tandem mass spectrometry (LC-MS/MS). The MS/MS data were processed against their corresponding genomes using various annotation algorithms (DFAST, PGAP, Prodigal, Prokka, RAST, GeneMarkS, and manual GenBank annotation). Additionally, ORFfinder was used to predict all ORFs encoding polypeptides exceeding 50 amino acids. While the RAST algorithm predicted the highest number of genes per genome, GeneMarkS offered the best coverage of annotated genes (up to 88.9%). By combining annotations from seven T. pallidum strains, we identified 911 unique treponemal proteins (74.9% of 1216 predicted sequences). The confidence of protein identifications was high, with 85.5% identified by two or more peptides and 72.4% by three or more peptides. Overall, 51 proteins showed statistically significant quantitative differences in intensity across T. pallidum strains. Furthermore, our proteome analysis revealed detectable quantitative proteomic differences between strains in the Nichols-like and SS14-like groups.

Název v anglickém jazyce

Proteome Analysis of Seven Treponema pallidum subsp. pallidum Strains Grown In Vitro

Popis výsledku anglicky

Treponema pallidum subsp. pallidum (T. pallidum), the fastidious causative agent of syphilis, has become more accessible for research with its recently developed in vitro cultivation method. In this work, the proteomes of seven T. pallidum strains (Nichols-like: DAL-1, Haiti B, and Madras; SS14-like: SS14, Mexico A, Philadelphia 1, and Grady), cultivated in vitro, were analyzed in biological triplicates by liquid chromatography-tandem mass spectrometry (LC-MS/MS). The MS/MS data were processed against their corresponding genomes using various annotation algorithms (DFAST, PGAP, Prodigal, Prokka, RAST, GeneMarkS, and manual GenBank annotation). Additionally, ORFfinder was used to predict all ORFs encoding polypeptides exceeding 50 amino acids. While the RAST algorithm predicted the highest number of genes per genome, GeneMarkS offered the best coverage of annotated genes (up to 88.9%). By combining annotations from seven T. pallidum strains, we identified 911 unique treponemal proteins (74.9% of 1216 predicted sequences). The confidence of protein identifications was high, with 85.5% identified by two or more peptides and 72.4% by three or more peptides. Overall, 51 proteins showed statistically significant quantitative differences in intensity across T. pallidum strains. Furthermore, our proteome analysis revealed detectable quantitative proteomic differences between strains in the Nichols-like and SS14-like groups.

Druh

J_imp - Článek v periodiku v databázi Web of Science

CEP obor

—

OECD FORD obor

10606 - Microbiology

Projekt

Výsledek vznikl pri realizaci vícero projektů. Více informací v záložce Projekty.

Návaznosti

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Rok uplatnění

2025

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název periodika

Journal of Proteome Research

ISSN

1535-3893

e-ISSN

1535-3907

Svazek periodika

24

Číslo periodika v rámci svazku

12

Stát vydavatele periodika

US - Spojené státy americké

Počet stran výsledku

10

Strana od-do

6091-6100

Kód UT WoS článku

001591527500001

EID výsledku v databázi Scopus

2-s2.0-105024020370