J 2018

Complete genome sequences of two strains of Treponema pallidum subsp pertenue from Indonesia: Modular structure of several treponemal genes

STROUHAL, Michal, Lenka PAŠTĚKOVÁ, Jan HAVIERNIK, Sascha KNAUF, Sylvia BRUISTEN et. al.

Basic information

Original name

Complete genome sequences of two strains of Treponema pallidum subsp pertenue from Indonesia: Modular structure of several treponemal genes

Authors

STROUHAL, Michal (203 Czech Republic, belonging to the institution), Lenka PAŠTĚKOVÁ (203 Czech Republic, belonging to the institution), Jan HAVIERNIK (203 Czech Republic, belonging to the institution), Sascha KNAUF (276 Germany), Sylvia BRUISTEN (528 Netherlands), Gerda T. NOORDHOEK (528 Netherlands), Jan OPPELT (203 Czech Republic, belonging to the institution), Darina ČEJKOVÁ (203 Czech Republic) and David ŠMAJS (203 Czech Republic, guarantor, belonging to the institution)

Edition

PLoS neglected tropical diseases, San Francisco, Public Library of Science, 2018, 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:

Impact factor

Impact factor: 4.487

RIV identification code

RIV/00216224:14110/18:00101497

Organization unit

Faculty of Medicine

DOI

UT WoS

000449318100059

Keywords in English

Treponema pallidum subsp. pertenue

Tags

Tags

International impact, Reviewed
Změněno: 30/4/2019 09:22, Soňa Böhmová

Abstract

V originále

Background Treponema pallidum subsp. pertenue (TPE) is the causative agent of yaws, a multistage disease endemic in tropical regions in Africa, Asia, Oceania, and South America. To date, seven TPE strains have been completely sequenced and analyzed including five TPE strains of human origin (CDC-2, CDC 2575, Gauthier, Ghana-051, and Samoa D) and two TPE strains isolated from the baboons (Fribourg-Blanc and LMNP-1). This study revealed the complete genome sequences of two TPE strains, Kampung Dalan K363 and Sei Geringging K403, isolated in 1990 from villages in the Pariaman region of Sumatra, Indonesia and compared these genome sequences with other known TPE genomes. Methodology/principal findings The genomes were determined using the pooled segment genome sequencing method combined with the Illumina sequencing platform resulting in an average coverage depth of 1,021x and 644x for the TPE Kampung Dalan K363 and TPE Sei Geringging K403 genomes, respectively. Both Indonesian TPE strains were genetically related to each other and were more distantly related to other, previously characterized TPE strains. The modular character of several genes, including TP0136 and TP0858 gene orthologs, was identified by analysis of the corresponding sequences. To systematically detect genes potentially having a modular genetic structure, we performed a whole genome analysis-of-occurrence of direct or inverted repeats of 17 or more nucleotides in length. Besides in tpr genes, a frequent presence of repeats was found in the genetic regions spanning TP0126-TP0136, TP0856-TP0858, and TP0896 genes. Conclusions/significance Comparisons of genome sequences of TPE Kampung Dalan K363 and Sei Geringging K403 with other TPE strains revealed a modular structure of several genomic loci including the TP0136, TP0856, and TP0858 genes. Diversification of TPE genomes appears to be facilitated by intra-strain genome recombination events.

Links

GA17-25455S, research and development project
Name: Studium genomů patogenních treponem na základě analýzy jednotlivých buněk
Investor: Czech Science Foundation
GJ17-25589Y, research and development project
Name: Kmeny způsobující syfilis: jsou geneticky odlišné kmeny odlišné i v průběhu experimentální infekce?
Investor: Czech Science Foundation
LM2015043, research and development project
Name: Česká infrastruktura pro integrativní strukturní biologii (Acronym: CIISB)
Investor: Ministry of Education, Youth and Sports of the CR