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dc.contributor.authorPhelan, Jody
dc.contributor.authorColl, Francesc
dc.contributor.authorBergval, Indra
dc.contributor.authorAnthony, Richard
dc.contributor.authorWarren, Rob
dc.contributor.authorSampson, Samantha
dc.contributor.authorPittius, Nicolaas Gey van
dc.contributor.authorGlynn, Judith R.
dc.contributor.authorCrampin, Amelia
dc.contributor.authorAlves, Adriana
dc.contributor.authorBessa, Theolis
dc.contributor.authorCampino, Susana
dc.contributor.authorDheda, Keertan
dc.contributor.authorGrandjean, Louis
dc.contributor.authorHasan, Rumina
dc.contributor.authorHasan, Zahra
dc.contributor.authorMiranda, Anabela
dc.contributor.authorMoore, David J.
dc.contributor.authorPanaiotov, Stefan
dc.contributor.authorPerdigao, Joao
dc.contributor.authorPortugal, Isabel
dc.contributor.authorSheen, Patricia
dc.contributor.authorSousa, Erivelton de Oliveira
dc.contributor.authorStreicher, Elizabeth
dc.contributor.authorHelden, Paul van
dc.contributor.authorViveiros, Miguel
dc.contributor.authorHibberd, Martin L.
dc.contributor.authorPain, Arnab
dc.contributor.authorMcNerney, Ruth
dc.contributor.authorClark, Taane G.
dc.date.accessioned2017-06-06T07:44:33Z
dc.date.available2017-06-06T07:44:33Z
dc.date.created2016-12-16
dc.date.issued2016
dc.identifier.citationPhelan, J., Coll, F., Bergval, I., Anthony, R., Warren, R., Sampson, S., … Taane Clark. (2016). Recombination in pe/ppe genes contributes to genetic variation in Mycobacterium tuberculosis lineages. Figshare. https://doi.org/10.6084/m9.figshare.c.3645272
dc.identifier.doi10.6084/m9.figshare.c.3645272
dc.identifier.urihttp://hdl.handle.net/10754/624142
dc.description.abstractAbstract Background Approximately 10 % of the Mycobacterium tuberculosis genome is made up of two families of genes that are poorly characterized due to their high GC content and highly repetitive nature. The PE and PPE families are typified by their highly conserved N-terminal domains that incorporate proline-glutamate (PE) and proline-proline-glutamate (PPE) signature motifs. They are hypothesised to be important virulence factors involved with host-pathogen interactions, but their high genetic variability and complexity of analysis means they are typically disregarded in genome studies. Results To elucidate the structure of these genes, 518 genomes from a diverse international collection of clinical isolates were de novo assembled. A further 21 reference M. tuberculosis complex genomes and long read sequence data were used to validate the approach. SNP analysis revealed that variation in the majority of the 168 pe/ppe genes studied was consistent with lineage. Several recombination hotspots were identified, notably pe_pgrs3 and pe_pgrs17. Evidence of positive selection was revealed in 65 pe/ppe genes, including epitopes potentially binding to major histocompatibility complex molecules. Conclusions This, the first comprehensive study of the pe and ppe genes, provides important insight into M. tuberculosis diversity and has significant implications for vaccine development.
dc.publisherFigshare
dc.rightsCC BY
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/
dc.subjectMedicine
dc.subjectMicrobiology
dc.subjectCell Biology
dc.subjectGenetics
dc.subjectMolecular Biology
dc.subjectImmunology
dc.subjectInfectious Diseases
dc.subjectVirology
dc.titleSupplementary Material for: Recombination in pe/ppe genes contributes to genetic variation in Mycobacterium tuberculosis lineages
dc.typeDataset
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
kaust.personPain, Arnab
dc.type.resourceCollection
dc.relation.isSupplementToRecombination in pe/ppe genes contributes to genetic variation in Mycobacterium tuberculosis lineages 2016, 17 (1) BMC Genomics
dc.relation.isSupplementToDOI:10.1186/s12864-016-2467-y
dc.relation.isSupplementToHANDLE:http://hdl.handle.net/10754/600452


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