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Comprehensive evaluation of Toxoplasma gondii VEG and Neospora caninum LIV genomes with tachyzoite stage transcriptome and proteome defines novel transcript features.

Comprehensive evaluation of Toxoplasma gondii VEG and Neospora caninum LIV genomes with tachyzoite stage transcriptome and proteome defines novel transcript features. Thumbnail


Abstract

Toxoplasma gondii is an important protozoan parasite that infects all warm-blooded animals and causes opportunistic infections in immuno-compromised humans. Its closest relative, Neospora caninum, is an important veterinary pathogen that causes spontaneous abortion in livestock. Comparative genomics of these two closely related coccidians has been of particular interest to identify genes that contribute to varied host cell specificity and disease. Here, we describe a manual evaluation of these genomes based on strand-specific RNA sequencing and shotgun proteomics from the invasive tachyzoite stages of these two parasites. We have corrected predicted structures of over one third of the previously annotated gene models and have annotated untranslated regions (UTRs) in over half of the predicted protein-coding genes. We observe distinctly long UTRs in both the organisms, almost four times longer than other model eukaryotes. We have also identified a putative set of cis-natural antisense transcripts (cis-NATs) and long intergenic non-coding RNAs (lincRNAs). We have significantly improved the annotation quality in these genomes that would serve as a manually curated dataset for Toxoplasma and Neospora research communities.

Citation

(2015). Comprehensive evaluation of Toxoplasma gondii VEG and Neospora caninum LIV genomes with tachyzoite stage transcriptome and proteome defines novel transcript features. PloS one, e0124473 - ?. https://doi.org/10.1371/journal.pone.0124473

Acceptance Date Mar 2, 2015
Publication Date Apr 13, 2015
Journal PLoS One
Print ISSN 1932-6203
Publisher Public Library of Science
Pages e0124473 - ?
DOI https://doi.org/10.1371/journal.pone.0124473
Keywords Animals, Coccidiosis, Gene Expression Regulation, Genome, Protozoan, Genomics, High-Throughput Nucleotide Sequencing, Host-Parasite Interactions, Infectious Disease Transmission, Vertical, Neospora, Proteome, RNA, Long Noncoding, Regulatory Sequences, Nuc
Publisher URL http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0124473

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