Whole genome sequences of Treponema pallidum subsp. endemicum
isolated from Cuban patients: The non-clonal character of
isolates suggests a persistent human infection rather than a
single outbreak

J 2022

Whole genome sequences of Treponema pallidum subsp. endemicum isolated from Cuban patients: The non-clonal character of isolates suggests a persistent human infection rather than a single outbreak

VRBOVÁ, Eliška, Angel A NODA, Linda GRILLOVÁ, Islay RODRIGUEZ, Allyn FORSYTH et. al.

Basic information

Original name

Whole genome sequences of Treponema pallidum subsp. endemicum isolated from Cuban patients: The non-clonal character of isolates suggests a persistent human infection rather than a single outbreak

Authors

VRBOVÁ, Eliška (203 Czech Republic, belonging to the institution), Angel A NODA, Linda GRILLOVÁ (203 Czech Republic, belonging to the institution), Islay RODRIGUEZ, Allyn FORSYTH, Jan OPPELT and David ŠMAJS (203 Czech Republic, belonging to the institution)

Edition

PLoS neglected tropical diseases, San Francisco, Public Library of Science, 2022, 1935-2735

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

30309 Tropical medicine

Country of publisher

United States of America

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

Impact factor

Impact factor: 3.800

RIV identification code

RIV/00216224:14110/22:00129397

Organization unit

Faculty of Medicine

DOI

http://dx.doi.org/10.1371/journal.pntd.0009900

UT WoS

000830263700038

Keywords in English

Treponema pallidum subsp. endemicum; whole genome sequences; Cuban patients

Abstract

V originále

Bejel (endemic syphilis) is a neglected non-venereal disease caused by Treponema pallidum subsp. endemicum (TEN). Although it is mostly present in hot, dry climates, a few cases have been found outside of these areas. The aim of this work was the sequencing and analysis of TEN isolates obtained from "syphilis patients" in Cuba, which is not considered an endemic area for bejel. Genomes were obtained by pool segment genome sequencing or direct sequencing methods, and the bioinformatics analysis was performed according to an established pipeline. We obtained four genomes with 100%, 81.7%, 52.6%, and 21.1% breadth of coverage, respectively. The sequenced genomes revealed a non-clonal character, with nucleotide variability ranging between 0.2-10.3 nucleotide substitutions per 100 kbp among the TEN isolates. Nucleotide changes affected 27 genes, and the analysis of the completely sequenced genome also showed a recombination event between tprC and tprI, in TP0488 as well as in the intergenic region between TP0127-TP0129. Despite limitations in the quality of samples affecting breadth of sequencing coverage, the determined non-clonal character of the isolates suggests a persistent infection in the Cuban population rather than a single outbreak caused by imported case.

Links

GA17-25455S, research and development project

Name: Studium genomů patogenních treponem na základě analýzy jednotlivých buněk

Investor: Czech Science Foundation

Citovat

VRBOVÁ, Eliška, Angel A NODA, Linda GRILLOVÁ, Islay RODRIGUEZ, Allyn FORSYTH, Jan OPPELT and David ŠMAJS. Whole genome sequences of Treponema pallidum subsp. endemicum isolated from Cuban patients: The non-clonal character of isolates suggests a persistent human infection rather than a single outbreak. PLoS neglected tropical diseases. San Francisco: Public Library of Science, 2022, vol. 16, No 6, p. 1-12. ISSN 1935-2735. Available from: https://dx.doi.org/10.1371/journal.pntd.0009900.

@article{2249570,
   author = {Vrbová, Eliška and Noda, Angel A and Grillová, Linda and Rodriguez, Islay and Forsyth, Allyn and Oppelt, Jan and Šmajs, David},
   article_location = {San Francisco},
   article_number = {6},
   doi = {http://dx.doi.org/10.1371/journal.pntd.0009900},
   keywords = {Treponema pallidum subsp. endemicum; whole genome sequences; Cuban patients},
   language = {eng},
   issn = {1935-2735},
   journal = {PLoS neglected tropical diseases},
   title = {Whole genome sequences of Treponema pallidum subsp. endemicum isolated from Cuban patients: The non-clonal character of isolates suggests a persistent human infection rather than a single outbreak},
   url = {https://journals.plos.org/plosntds/article?id=10.1371/journal.pntd.0009900},
   volume = {16},
   year = {2022}
}

TY  - JOUR
ID  - 2249570
AU  - Vrbová, Eliška - Noda, Angel A - Grillová, Linda - Rodriguez, Islay - Forsyth, Allyn - Oppelt, Jan - Šmajs, David
PY  - 2022
TI  - Whole genome sequences of Treponema pallidum subsp. endemicum isolated from Cuban patients: The non-clonal character of isolates suggests a persistent human infection rather than a single outbreak
JF  - PLoS neglected tropical diseases
VL  - 16
IS  - 6
SP  - 1-12
EP  - 1-12
PB  - Public Library of Science
SN  - 19352735
KW  - Treponema pallidum subsp. endemicum
KW  - whole genome sequences
KW  - Cuban patients
UR  - https://journals.plos.org/plosntds/article?id=10.1371/journal.pntd.0009900
N2  - Bejel (endemic syphilis) is a neglected non-venereal disease caused by Treponema pallidum subsp. endemicum (TEN). Although it is mostly present in hot, dry climates, a few cases have been found outside of these areas. The aim of this work was the sequencing and analysis of TEN isolates obtained from "syphilis patients" in Cuba, which is not considered an endemic area for bejel. Genomes were obtained by pool segment genome sequencing or direct sequencing methods, and the bioinformatics analysis was performed according to an established pipeline. We obtained four genomes with 100%, 81.7%, 52.6%, and 21.1% breadth of coverage, respectively. The sequenced genomes revealed a non-clonal character, with nucleotide variability ranging between 0.2-10.3 nucleotide substitutions per 100 kbp among the TEN isolates. Nucleotide changes affected 27 genes, and the analysis of the completely sequenced genome also showed a recombination event between tprC and tprI, in TP0488 as well as in the intergenic region between TP0127-TP0129. Despite limitations in the quality of samples affecting breadth of sequencing coverage, the determined non-clonal character of the isolates suggests a persistent infection in the Cuban population rather than a single outbreak caused by imported case.
ER  -

VRBOVÁ, Eliška, Angel A NODA, Linda GRILLOVÁ, Islay RODRIGUEZ, Allyn FORSYTH, Jan OPPELT and David ŠMAJS. Whole genome sequences of Treponema pallidum subsp. endemicum isolated from Cuban patients: The non-clonal character of isolates suggests a persistent human infection rather than a single outbreak. \textit{PLoS neglected tropical diseases}. San Francisco: Public Library of Science, 2022, vol.~16, No~6, p.~1-12. ISSN~1935-2735. Available from: https://dx.doi.org/10.1371/journal.pntd.0009900.

Detailed Information on Publication Record