Re-annotation of the Theileria parva genome refines 53% of the proteome and uncovers essential components of N-glycosylation, a conserved pathway in many organisms

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cg.authorship.typesCGIAR and advanced research instituteen_US
cg.contributor.affiliationUniversity of Marylanden_US
cg.contributor.affiliationUnited States Department of Agricultureen_US
cg.contributor.affiliationWashington State Universityen_US
cg.contributor.affiliationInternational Livestock Research Instituteen_US
cg.contributor.affiliationSwiss Tropical and Public Health Instituteen_US
cg.contributor.affiliationUniversity of Baselen_US
cg.contributor.crpLivestocken_US
cg.contributor.donorBill & Melinda Gates Foundationen_US
cg.contributor.donorUnited States Department of Agricultureen_US
cg.coverage.regionAfricaen_US
cg.coverage.regionSub-Saharan Africaen_US
cg.coverage.regionEastern Africaen_US
cg.coverage.regionSouthern Africaen_US
cg.creator.identifierRoger Pelle: 0000-0003-1053-085Xen_US
cg.creator.identifierVishvanath Nene: 0000-0001-7066-4169en_US
cg.creator.identifierRichard Bishop: 0000-0002-3720-9970en_US
cg.creator.identifierClaudia Daubenberger: 0000-0001-7136-0642en_US
cg.howPublishedFormally Publisheden_US
cg.identifier.doihttps://doi.org/10.1186/s12864-020-6683-0en_US
cg.isijournalISI Journalen_US
cg.issn1471-2164en_US
cg.issue1en_US
cg.journalBMC Genomicsen_US
cg.reviewStatusPeer Reviewen_US
cg.speciesTheileria parvaen_US
cg.subject.ilriANIMAL DISEASESen_US
cg.subject.ilriCATTLEen_US
cg.subject.ilriDISEASE CONTROLen_US
cg.subject.ilriECFen_US
cg.subject.ilriLIVESTOCKen_US
cg.subject.ilriVACCINESen_US
cg.volume21en_US
dc.contributor.authorTretina, Kyleen_US
dc.contributor.authorPelle, Rogeren_US
dc.contributor.authorOrvis, J.en_US
dc.contributor.authorGotia, H.T.en_US
dc.contributor.authorIfeonu, O.O.en_US
dc.contributor.authorKumari, P.en_US
dc.contributor.authorPalmateer, N.C.en_US
dc.contributor.authorIqbal, S.B.A.en_US
dc.contributor.authorFry, Lindsay M.en_US
dc.contributor.authorNene, Vishvanath M.en_US
dc.contributor.authorDaubenberger, C.A.en_US
dc.contributor.authorBishop, Richard P.en_US
dc.contributor.authorSilva, Joana C.en_US
dc.date.accessioned2020-05-01T18:29:15Zen_US
dc.date.available2020-05-01T18:29:15Zen_US
dc.identifier.urihttps://hdl.handle.net/10568/108127en_US
dc.titleRe-annotation of the Theileria parva genome refines 53% of the proteome and uncovers essential components of N-glycosylation, a conserved pathway in many organismsen_US
dcterms.abstractBackground The apicomplexan parasite Theileria parva causes a livestock disease called East coast fever (ECF), with millions of animals at risk in sub-Saharan East and Southern Africa, the geographic distribution of T. parva. Over a million bovines die each year of ECF, with a tremendous economic burden to pastoralists in endemic countries. Comprehensive, accurate parasite genome annotation can facilitate the discovery of novel chemotherapeutic targets for disease treatment, as well as elucidate the biology of the parasite. However, genome annotation remains a significant challenge because of limitations in the quality and quantity of the data being used to inform the location and function of protein-coding genes and, when RNA data are used, the underlying biological complexity of the processes involved in gene expression. Here, we apply our recently published RNAseq dataset derived from the schizont life-cycle stage of T. parva to update structural and functional gene annotations across the entire nuclear genome. Results The re-annotation effort lead to evidence-supported updates in over half of all protein-coding sequence (CDS) predictions, including exon changes, gene merges and gene splitting, an increase in average CDS length of approximately 50 base pairs, and the identification of 128 new genes. Among the new genes identified were those involved in N-glycosylation, a process previously thought not to exist in this organism and a potentially new chemotherapeutic target pathway for treating ECF. Alternatively-spliced genes were identified, and antisense and multi-gene family transcription were extensively characterized. Conclusions The process of re-annotation led to novel insights into the organization and expression profiles of protein-coding sequences in this parasite, and uncovered a minimal N-glycosylation pathway that changes our current understanding of the evolution of this post-translational modification in apicomplexan parasites.en_US
dcterms.accessRightsOpen Accessen_US
dcterms.audienceScientistsen_US
dcterms.available2020-04-03en_US
dcterms.bibliographicCitationTretina, K., Pelle, R., Orvis, J., Gotia, H.T., Ifeonu, O.O., Kumari, P., Palmateer, N.C., Iqbal, S.B.A., Fry, L.M., Nene, V.M., Daubenberger, C.A., Bishop, R.P. and Silva, J.C. 2020. Re-annotation of the Theileria parva genome refines 53% of the proteome and uncovers essential components of N-glycosylation, a conserved pathway in many organisms. BMC Genomics 21: 279.en_US
dcterms.issued2020-12en_US
dcterms.languageenen_US
dcterms.licenseCC-BY-4.0en_US
dcterms.publisherSpringeren_US
dcterms.subjecttheileriaen_US
dcterms.subjectcattleen_US
dcterms.subjectanimal diseasesen_US
dcterms.subjectvaccinesen_US
dcterms.subjectdisease controlen_US
dcterms.subjecteast coast feveren_US
dcterms.typeJournal Articleen_US

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Improved vaccines for the control of East Coast fever in cattle in Africa