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dc.contributor.authorRamaprasad, Abhinay
dc.contributor.authorMourier, Tobias
dc.contributor.authorNaeem, Raeece
dc.contributor.authorMoussa, Ehab
dc.contributor.authorVermont, Sarah J.
dc.contributor.authorOtto, Thomas D.
dc.contributor.authorWastling, Jonathan
dc.contributor.authorPain, Arnab
dc.contributor.authorMalas, Tareq Majed Yasin
dc.contributor.authorPanigrahi, Aswini Kumar
dc.date.accessioned2020-12-17T08:37:51Z
dc.date.available2020-12-17T08:37:51Z
dc.date.issued2015-02-26
dc.identifier.urihttp://hdl.handle.net/10754/666442
dc.description.abstractToxoplasma 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.
dc.publisherNCBI
dc.relation.urlhttps://www.ncbi.nlm.nih.gov/bioproject/?term=PRJEB7873
dc.titleThis 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.
dc.typeBioproject
dc.typeDataset
dc.contributor.departmentBioscience Program
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
dc.contributor.departmentComputer Science Program
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
dc.contributor.departmentBioscience Core Lab
dc.contributor.institutionCentre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
dc.contributor.institutionInstitute of Infection and Global Health and School of Veterinary Science, Faculty of Health and Life Sciences, University of Liverpool, Liverpool, Merseyside, United Kingdom
dc.contributor.institutionParasite Genomics Group, Wellcome Trust Sanger Institute (WTSI), Genome Campus, Hinxton, Cambridge, United Kingdom
kaust.personRamaprasad, Abhinay
kaust.personNaeem, Raeece
kaust.personMoussa, Ehab
kaust.personPain, Arnab
kaust.personMalas, Tareq Majed Yasin
kaust.personPanigrahi, Aswini Kumar
dwc.taxon.scientificNameToxoplasma gondii VEG
dc.relation.issupplementtoDOI:10.1371/journal.pone.0124473
display.relations<b>Is Supplement To:</b><br/> <ul><li><i>[Article]</i> <br/> 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: <a href="https://doi.org/10.1371/journal.pone.0124473" >10.1371/journal.pone.0124473</a> Handle: <a href="http://hdl.handle.net/10754/550412" >10754/550412</a></a></li></ul>
dc.identifier.bioprojectPRJEB7873


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