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    This is a genome assembly third party annotation of Toxoplasma gondii VEG strain based on strand-specific RNA-sequencing and manual re-annotation identifying novel features of UTRs and non-coding transcripts.

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    Type
    Bioproject
    Dataset
    Authors
    Ramaprasad, Abhinay cc
    Mourier, Tobias
    Naeem, Raeece cc
    Moussa, Ehab
    Vermont, Sarah J.
    Otto, Thomas D.
    Wastling, Jonathan
    Pain, Arnab cc
    Malas, Tareq Majed Yasin cc
    Panigrahi, Aswini Kumar
    KAUST Department
    Bioscience Program
    Biological and Environmental Sciences and Engineering (BESE) Division
    Computer Science Program
    Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
    Bioscience Core Lab
    Date
    2015-02-26
    Permanent link to this record
    http://hdl.handle.net/10754/666442
    
    Metadata
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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. Automated gene prediction tools that were used for gene annotation can lead to inaccurate gene models and lack information on untranslated regions and non-coding transcripts. Here, we describe a manual re-annotation of these genomes based on strand-specific RNA sequencing and shotgun proteomics. We have corrected the structures of over one third of the gene models and have annotated the complete set of untranslated regions (UTRs). We observe distinctly long UTRs in both the ?organisms??, almost four times longer than other eukaryotes?. We have also identified a putative set of cis-natural antisense transcripts (cis-NATs) and long intergenic non-coding RNAs (lincRNAs). With these, we have significantly improved the quality of annotation in the genomes to serve as a manually curated base for future research on these organisms.
    Publisher
    NCBI
    Additional Links
    https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJEB7873
    Relations
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    • [Article]
      Ramaprasad A, Mourier T, Naeem R, Malas TB, Moussa E, et al. (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. doi:10.1371/journal.pone.0124473. DOI: 10.1371/journal.pone.0124473 Handle: 10754/550412
    Collections
    Biological and Environmental Science and Engineering (BESE) Division; Bioscience Program; Computer Science Program; Datasets; Bioscience Core Lab; Computer, Electrical and Mathematical Science and Engineering (CEMSE) Division

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