Re-annotation of the Theileria parva genome refines 53% of the proteome and uncovers essential components of N-glycosylation, a conserved pathway ... View Full Text


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Article Info

DATE

2020-04-03

AUTHORS

Kyle Tretina, Roger Pelle, Joshua Orvis, Hanzel T. Gotia, Olukemi O. Ifeonu, Priti Kumari, Nicholas C. Palmateer, Shaikh B. A. Iqbal, Lindsay M. Fry, Vishvanath M. Nene, Claudia A. Daubenberger, Richard P. Bishop, Joana C. Silva

ABSTRACT

BackgroundThe 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.ResultsThe 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.ConclusionsThe 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. More... »

PAGES

279

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    http://scigraph.springernature.com/pub.10.1186/s12864-020-6683-0

    DOI

    http://dx.doi.org/10.1186/s12864-020-6683-0

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1126125610

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/32245418


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    372 rdf:type schema:Organization
    373 grid-institutes:grid.6612.3 schema:alternateName University of Basel, Basel, Switzerland
    374 schema:name Swiss Tropical and Public Health Institute, Basel, Switzerland
    375 University of Basel, Basel, Switzerland
    376 rdf:type schema:Organization
     




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