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While their functions are conserved, ST structure and genetic compositions are unique to each species. This study aims to identify and characterize the subtelomeric regions of the 13 Toxoplasma gondii chromosomes of the Me49 strain. Here, STs were defined at chromosome ends based on poor gene density. The length of STs ranges from 8.1 to 232.4 kbp, with a gene density of 0.049 genes\/kbp, lower than the Me49 genome (0.15 kbp). Chromatin organization showed that H3K9me3, H2A.X, and H3.3 are highly enriched near telomeres and the 5\u2032 end of silenced genes, decaying in intensity towards euchromatin. H3K4me3 and H2A.Z\/H2B.Z are shown to be enriched in the 5\u2032 end of the ST genes. Satellite DNA was detected in almost all STs, mainly the sat350 family and a novel satellite named sat240. Beyond the STs, only short dispersed fragments of sat240 and sat350 were found. Within STs, there were 12 functional annotated genes, 59 with unknown functions (Hypothetical proteins), 15 from multigene FamB, and 13 from multigene family FamC. Some genes presented low interstrain synteny associated with the presence of satellite DNA. Orthologues of FamB and FamC were also detected in Neospora caninum and Hammondia hammondi. A re-analysis of previous transcriptomic data indicated that ST gene expression is strongly linked to the adaptation to different situations such as extracellular passage (evolve and resequencing study) and changes in metabolism (lack of acetyl-CoA cofactor). In conclusion, the ST region of the T. gondii chromosomes was defined, the STs genes were determined, and it was possible to associate them with high interstrain plasticity and a role in the adaptability of T. gondii to environmental changes.<\/jats:p>","DOI":"10.3390\/epigenomes6030029","type":"journal-article","created":{"date-parts":[[2022,9,15]],"date-time":"2022-09-15T22:11:10Z","timestamp":1663279870000},"page":"29","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":13,"title":["Architecture, Chromatin and Gene Organization of Toxoplasma gondii Subtelomeres"],"prefix":"10.3390","volume":"6","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-1542-6058","authenticated-orcid":false,"given":"Susana M.","family":"Contreras","sequence":"first","affiliation":[{"name":"Laboratorio de Parasitolog\u00eda Molecular, Instituto Tecnol\u00f3gico Chascom\u00fas (INTECH), Universidad Nacional de General San Mart\u00edn (UNSAM), Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas (CONICET), Chascom\u00fas 7130, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Romina T.","family":"Zambrano Siri","sequence":"additional","affiliation":[{"name":"Instituto de Investigaciones en Ingenier\u00eda Gen\u00e9tica y Biolog\u00eda Molecular \u201cDr. H\u00e9ctor N. Torres\u201d (INGEBI-CONICET), Buenos Aires C1428ADN, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"El\u00edas M.","family":"Rivera","sequence":"additional","affiliation":[{"name":"Laboratorio de Parasitolog\u00eda Molecular, Instituto Tecnol\u00f3gico Chascom\u00fas (INTECH), Universidad Nacional de General San Mart\u00edn (UNSAM), Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas (CONICET), Chascom\u00fas 7130, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9240-2992","authenticated-orcid":false,"given":"Constanza","family":"Cristaldi","sequence":"additional","affiliation":[{"name":"Laboratorio de Parasitolog\u00eda Molecular, Instituto Tecnol\u00f3gico Chascom\u00fas (INTECH), Universidad Nacional de General San Mart\u00edn (UNSAM), Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas (CONICET), Chascom\u00fas 7130, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Laura","family":"Kamenetzky","sequence":"additional","affiliation":[{"name":"Laboratorio de Gen\u00f3mica y Bioinform\u00e1tica de Pat\u00f3genos, iB3|Instituto de Biociencias, Biotecnolog\u00eda y Biolog\u00eda traslacional, Departamento de Fisiolog\u00eda y Biolog\u00eda Molecular y Celular, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Buenos Aires C1428EHA, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kami","family":"Kim","sequence":"additional","affiliation":[{"name":"Department of Internal Medicine, Morsani College of Medicine, University of South Florida, Tampa, FL 33602, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marina","family":"Clemente","sequence":"additional","affiliation":[{"name":"Laboratorio de Molecular Farming y Vacunas, Instituto Tecnol\u00f3gico Chascom\u00fas (INTECH), Universidad Nacional de General San Mart\u00edn (UNSAM), Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas (CONICET), Chascom\u00fas 7130, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6745-2525","authenticated-orcid":false,"given":"Josefina","family":"Ocampo","sequence":"additional","affiliation":[{"name":"Instituto de Investigaciones en Ingenier\u00eda Gen\u00e9tica y Biolog\u00eda Molecular \u201cDr. H\u00e9ctor N. Torres\u201d (INGEBI-CONICET), Buenos Aires C1428ADN, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4064-2556","authenticated-orcid":false,"given":"Laura","family":"Vanagas","sequence":"additional","affiliation":[{"name":"Laboratorio de Parasitolog\u00eda Molecular, Instituto Tecnol\u00f3gico Chascom\u00fas (INTECH), Universidad Nacional de General San Mart\u00edn (UNSAM), Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas (CONICET), Chascom\u00fas 7130, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sergio O.","family":"Angel","sequence":"additional","affiliation":[{"name":"Laboratorio de Parasitolog\u00eda Molecular, Instituto Tecnol\u00f3gico Chascom\u00fas (INTECH), Universidad Nacional de General San Mart\u00edn (UNSAM), Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas (CONICET), Chascom\u00fas 7130, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2022,9,15]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"265","DOI":"10.1146\/annurev-cellbio-100617-062653","article-title":"Heterochromatin: Guardian of the Genome","volume":"34","author":"Janssen","year":"2018","journal-title":"Annu. 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