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
cg.contributor.affiliationUniversity of Marylanden
cg.contributor.affiliationUnited States Department of Agricultureen
cg.contributor.affiliationWashington State Universityen
cg.contributor.affiliationInternational Livestock Research Instituteen
cg.contributor.affiliationSwiss Tropical and Public Health Instituteen
cg.contributor.affiliationUniversity of Baselen
cg.contributor.crpLivestock
cg.contributor.donorBill & Melinda Gates Foundationen
cg.contributor.donorUnited States Department of Agricultureen
cg.coverage.regionAfrica
cg.coverage.regionSub-Saharan Africa
cg.coverage.regionEastern Africa
cg.coverage.regionSouthern Africa
cg.creator.identifierRoger Pelle: 0000-0003-1053-085X
cg.creator.identifierVishvanath Nene: 0000-0001-7066-4169
cg.creator.identifierRichard Bishop: 0000-0002-3720-9970
cg.creator.identifierClaudia Daubenberger: 0000-0001-7136-0642
cg.howPublishedFormally Publisheden
cg.identifier.doihttps://doi.org/10.1186/s12864-020-6683-0en
cg.isijournalISI Journalen
cg.issn1471-2164en
cg.issue1en
cg.journalBMC Genomicsen
cg.reviewStatusPeer Reviewen
cg.speciesTheileria parvaen
cg.subject.ilriANIMAL DISEASESen
cg.subject.ilriCATTLEen
cg.subject.ilriDISEASE CONTROLen
cg.subject.ilriECFen
cg.subject.ilriLIVESTOCKen
cg.subject.ilriVACCINESen
cg.volume21en
dc.contributor.authorTretina, Kyleen
dc.contributor.authorPelle, Rogeren
dc.contributor.authorOrvis, J.en
dc.contributor.authorGotia, H.T.en
dc.contributor.authorIfeonu, O.O.en
dc.contributor.authorKumari, P.en
dc.contributor.authorPalmateer, N.C.en
dc.contributor.authorIqbal, S.B.A.en
dc.contributor.authorFry, Lindsay M.en
dc.contributor.authorNene, Vishvanath M.en
dc.contributor.authorDaubenberger, C.A.en
dc.contributor.authorBishop, Richard P.en
dc.contributor.authorSilva, Joana C.en
dc.date.accessioned2020-05-01T18:29:15Zen
dc.date.available2020-05-01T18:29:15Zen
dc.identifier.urihttps://hdl.handle.net/10568/108127
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
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
dcterms.accessRightsOpen Access
dcterms.audienceScientistsen
dcterms.available2020-04-03
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
dcterms.issued2020-12
dcterms.languageen
dcterms.licenseCC-BY-4.0
dcterms.publisherSpringeren
dcterms.subjecttheileriaen
dcterms.subjectcattleen
dcterms.subjectanimal diseasesen
dcterms.subjectvaccinesen
dcterms.subjectdisease controlen
dcterms.subjecteast coast feveren
dcterms.typeJournal Article

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