{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,17]],"date-time":"2026-06-17T01:14:30Z","timestamp":1781658870379,"version":"3.54.5"},"reference-count":63,"publisher":"SAGE Publications","issue":"9","license":[{"start":{"date-parts":[[2021,9,1]],"date-time":"2021-09-01T00:00:00Z","timestamp":1630454400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.sagepub.com\/page\/policies\/text-and-data-mining-license"}],"content-domain":{"domain":["journals.sagepub.com"],"crossmark-restriction":true},"short-container-title":["OMICS: A Journal of Integrative Biology"],"published-print":{"date-parts":[[2021,9]]},"abstract":"<jats:p>\n                    <jats:italic toggle=\"yes\">Toxoplasma gondii<\/jats:italic>\n                    is one of the most widespread parasites of great relevance to planetary health. It infects approximately one-third of the world population.\n                    <jats:italic toggle=\"yes\">T. gondii<\/jats:italic>\n                    establishes itself in warm-blooded animals and causes adverse health outcomes, particularly in immunocompromised patients.\n                    <jats:italic toggle=\"yes\">T. gondii<\/jats:italic>\n                    is also widely used as a model organism to study other related apicomplexan parasites, which requires a deeper understanding of its molecular biology. Type I strains (GT1 and RH) of\n                    <jats:italic toggle=\"yes\">T. gondii<\/jats:italic>\n                    are considered the most virulent forms. The whole-genome sequencing of\n                    <jats:italic toggle=\"yes\">T. gondii<\/jats:italic>\n                    annotated 8460 predicted gene models in the parasite. To this end, the proteogenomics technology allows harnessing of mass spectrometry (MS)-derived proteomic data to unravel new protein-coding genes, not to mention validation and correction of the existing gene models. In this study using the proteogenomic approach, we report the identification of 31 novel protein-coding genes while reannotating 88 existing gene models. Notably, the genome annotations were corrected for genes, such as\n                    <jats:italic toggle=\"yes\">SAG5C<\/jats:italic>\n                    ,\n                    <jats:italic toggle=\"yes\">GRA6<\/jats:italic>\n                    ,\n                    <jats:italic toggle=\"yes\">ROP4<\/jats:italic>\n                    ,\n                    <jats:italic toggle=\"yes\">ROP5<\/jats:italic>\n                    , and\n                    <jats:italic toggle=\"yes\">ROP26<\/jats:italic>\n                    . The associated proteins are known to play important roles in host\u2013parasite interactions, particularly in relation to parasite virulence, suppression of host immune response, and distinctively pertinent for the survival of the parasite inside the host system. These new findings offer new insights, informing planetary health broadly and the knowledge base on\n                    <jats:italic toggle=\"yes\">T. gondii<\/jats:italic>\n                    virulence specifically. The proteogenomics approach also provides a concrete example to study related apicomplexan organisms of relevance to planetary health, and so as to develop new diagnostics and therapeutics against toxoplasmosis and related diseases.\n                  <\/jats:p>","DOI":"10.1089\/omi.2021.0082","type":"journal-article","created":{"date-parts":[[2021,9,1]],"date-time":"2021-09-01T09:35:26Z","timestamp":1630488926000},"page":"591-604","update-policy":"https:\/\/doi.org\/10.1177\/sage-journals-update-policy","source":"Crossref","is-referenced-by-count":7,"title":["Unraveling\n                    <i>Toxoplasma gondii<\/i>\n                    GT1 Strain Virulence and New Protein-Coding Genes with Proteogenomic Analyses"],"prefix":"10.1177","volume":"25","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5154-2825","authenticated-orcid":false,"given":"Neelam","family":"Antil","sequence":"first","affiliation":[{"name":"Institute of Bioinformatics, International Technology Park, Bangalore, India."},{"name":"Centre for Systems Biology and Molecular Medicine, Yenepoya Research Center, Yenepoya (Deemed to be University), Mangalore, India."},{"name":"Amrita School of Biotechnology, Amrita Vishwa Vidyapeetham, Kollam, India."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Manish","family":"Kumar","sequence":"additional","affiliation":[{"name":"Institute of Bioinformatics, International Technology Park, Bangalore, India."},{"name":"Manipal Academy of Higher Education, Manipal, India."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Santosh Kumar","family":"Behera","sequence":"additional","affiliation":[{"name":"Centre for Systems Biology and Molecular Medicine, Yenepoya Research Center, Yenepoya (Deemed to be University), Mangalore, 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