Ramaprasad, A and Mourier, T and Naeem, R and Malas, TB and Moussa, E and Panigrahi, A and Vermont, SJ and Otto, TD and Wastling, J and Pain, A (2015) Comprehensive evaluation of Toxoplasma gondii VEG and Neospora caninum LIV genomes with tachyzoite stage transcriptome and proteome defines novel transcript features. PLoS One, 10 (4). e0124473 - ?. ISSN 1932-6203

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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.

Item Type: Article
Uncontrolled 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, Nucleic Acid, Toxoplasma, Toxoplasmosis, Animal, Transcriptome, Virulence
Subjects: ?? Animals ??
?? Coccidiosis ??
?? Gene Expression Regulation ??
?? Genome, Protozoan ??
?? Genomics ??
?? High-Throughput Nucleotide Sequencing ??
?? Host-Parasite Interactions ??
?? Infectious Disease Transmission, Vertical ??
?? Neospora ??
?? Proteome ??
Q Science > QH Natural history
?? RNA, Long Noncoding ??
?? Regulatory Sequences, Nucleic Acid ??
?? Toxoplasma ??
?? Toxoplasmosis, Animal ??
?? Transcriptome ??
?? Virulence ??
Divisions: Faculty of Natural Sciences > School of Life Sciences
Related URLs:
Depositing User: Symplectic
Date Deposited: 11 May 2017 10:28
Last Modified: 11 May 2017 10:28
URI: http://eprints.keele.ac.uk/id/eprint/3406

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