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These traits have been attributed to the production of various antifungal compounds in the presence of target pathogens. However, the broad molecular mechanisms involved in the antifungal activity are not yet understood. This study employed RNA sequencing to assess the temporal changes in <jats:italic>H<\/jats:italic>. <jats:italic>pseudoburtonii<\/jats:italic> Y963 gene expression patterns when co-cultivated with <jats:italic>Botrytis cinerea<\/jats:italic>. Genes differentially expressed in <jats:italic>H<\/jats:italic>. <jats:italic>pseudoburtonii<\/jats:italic> in co-culture with <jats:italic>B<\/jats:italic>. <jats:italic>cinerea<\/jats:italic>, compared to the monoculture were evaluated after 24, 48, and 120 h of growth. Up-regulation of genes encoding major core histones (H2A, H3, H4) and ribosomes in the first 24 h suggested an abundance of cells in the S phase of the cell cycle. At 48 h, the genes up-regulated highlight mitotic cell cycle activity and induction of filamentous growth, while in later stages, up-regulation of genes encoding high affinity transporters of sugars, copper and iron, as well as those involved in the retention and utilization of siderophore-iron was evident. Altogether, the data allude to competition for space and nutrients as key mechanisms activated in <jats:italic>H<\/jats:italic>. <jats:italic>pseudoburtonii<\/jats:italic> in the presence of <jats:italic>B<\/jats:italic>. <jats:italic>cinerea<\/jats:italic>. This research offers new insights into <jats:italic>H<\/jats:italic>. <jats:italic>pseudoburtonii<\/jats:italic> transcriptomic response to <jats:italic>B<\/jats:italic>. <jats:italic>cinerea<\/jats:italic> and illuminates the adaptive strategies and molecular mechanisms behind its antifungal activity.<\/jats:p>","DOI":"10.1371\/journal.pone.0316713","type":"journal-article","created":{"date-parts":[[2025,1,14]],"date-time":"2025-01-14T18:28:01Z","timestamp":1736879281000},"page":"e0316713","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":4,"title":["Unravelling the transcriptomic dynamics of Hyphopichia pseudoburtonii in co-culture with Botrytis cinerea"],"prefix":"10.1371","volume":"20","author":[{"given":"Evelyn","family":"Maluleke","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Neil Paul","family":"Jolly","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hugh-George","family":"Patterton","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mathabatha Evodia","family":"Setati","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"340","published-online":{"date-parts":[[2025,1,14]]},"reference":[{"key":"pone.0316713.ref001","doi-asserted-by":"crossref","first-page":"2675","DOI":"10.1099\/ijs.0.018580-0","article-title":"Re-examination of strains formerly assigned to Hyphopichia burtonii, the phylogeny of the genus Hyphopichia, and the description of Hyphopichia pseudoburtonii sp. nov","volume":"60","author":"M Groenewald","year":"2010","journal-title":"Int J Syst Evol Microbiol"},{"key":"pone.0316713.ref002","doi-asserted-by":"crossref","first-page":"3499","DOI":"10.1111\/1462-2920.15464","article-title":"Integrated genomic and transcriptomic analysis reveals unique mechanisms for high osmotolerance and halotolerance in Hyphopichia yeast","volume":"23","author":"DW Lee","year":"2021","journal-title":"Environ Microbiol"},{"key":"pone.0316713.ref003","doi-asserted-by":"crossref","first-page":"121","DOI":"10.1007\/s10482-005-2495-0","article-title":"New species and a new combination in the Hyphopichia and Yarrowia yeast clades","volume":"88","author":"CP Kurtzman","year":"2005","journal-title":"Antonie Van Leeuwenhoek"},{"key":"pone.0316713.ref004","doi-asserted-by":"crossref","unstructured":"Bonjean B, Guillaume LD. 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