Alkhidir, AAI;
Holland, MJ;
Elhag, WI;
Williams, CA;
Breuer, J;
Elemam, AE;
El Hussain, KMK;
... Pickering, H; + view all
(2019)
Whole-genome sequencing of ocular Chlamydia trachomatis isolates from Gadarif State, Sudan.
Parasites and Vectors
, 12
, Article 518. 10.1186/s13071-019-3770-7.
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Abstract
Background: Trachoma, caused by ocular Chlamydia trachomatis, is the leading infectious cause of blindness worldwide. Sudan first reported trachoma in the 1930s and has since been consistently endemic. Ocular C. trachomatis previously isolated from trachoma patients in Sudan in 1963 was antigenically identical to an isolate from Saudi Arabia (A/SA1). No contemporary ocular C. trachomatis whole genome sequences have been reported from Sudan. Methods: This study sequenced twenty ocular C. trachomatis isolates to improve understanding of pathogen diversity in North-East Africa and examine for genomic variation specific to Sudan, possibly related to the persistence of trachoma in surveyed communities. High quality, whole genome sequences were obtained from 12/20 isolates. Results: All isolates were serovar A and had tarP and trpA sequences typical of classical, ocular C. trachomatis isolates. The Sudanese isolates formed a closely related subclade within the T2-trachoma clade of C. trachomatis phylogeny distinct from geographically disparate ocular isolates, with little intra-population diversity. We found 333 SNPs that were conserved in Sudanese ocular isolates but rare compared to other ocular C. trachomatis populations, which were focused in two genomic loci (CTA0172-CTA0173 and CTA0482). Conclusions: Limited intra-population diversity and geographical clustering of ocular C. trachomatis suggests minimal transmission between and slow diversification within trachoma-endemic communities. However, diversity may have been higher pre-treatment in these communities. Over-representation of Sudan-specific SNPs in three genes suggests they may have an impact on C. trachomatis growth and transmission in this population.
| Type: | Article |
|---|---|
| Title: | Whole-genome sequencing of ocular Chlamydia trachomatis isolates from Gadarif State, Sudan |
| Open access status: | An open access version is available from UCL Discovery |
| DOI: | 10.1186/s13071-019-3770-7 |
| Publisher version: | https://doi.org/10.1186/s13071-019-3770-7 |
| Language: | English |
| Additional information: | This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creat iveco mmons .org/licen ses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/ publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
| Keywords: | Science & Technology, Life Sciences & Biomedicine, Parasitology, Tropical Medicine, Trachoma, Ocular, Chlamydia trachomatis, Genomics, Whole-genome sequencing, OUTER-MEMBRANE PROTEIN, OBLIGATE INTRACELLULAR PATHOGEN, PCR DIAGNOSTIC ASSAY, PHYLOGENETIC ANALYSIS, MASS TREATMENT, CELL EPITOPES, MOMP EPITOPES, T-CELLS, IDENTIFICATION, RESISTANCE |
| UCL classification: | UCL UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Population Health Sciences > UCL GOS Institute of Child Health UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Population Health Sciences > UCL GOS Institute of Child Health > Genetics and Genomic Medicine Dept |
| URI: | https://discovery.ucl.ac.uk/id/eprint/10091613 |
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