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We hypothesized that harmonized extraction and data-independent acquisition mass spectrometry would reveal distinct functional signatures across Trichoderma reesei, Pichia guilliermondii, and Hericium erinaceus. Overall, 199, 889, and 1456 proteins were identified, respectively, revealing species-associated differences in protein biosynthesis, bioenergetics, redox metabolism, carbohydrate catabolism, proteostasis, and RNA-associated functions. Orthogroup and enzyme analyses identified conserved and species-specific functional features. Proteomes displayed hydrophilic and acidic profiles. Crude extracts exhibited concentration-dependent ACE inhibitory, ABTS radical scavenging, reduced glutathione, and l-glutaminase readouts. In silico screening identified 119, 1035, and 1431 sequence-derived candidate assignments, respectively, without establishing endogenous peptide occurrence or causal links to extract activities. These strain- and condition-specific intracellular proteomic data sets provide hypotheses for food and biotechnology studies but do not represent complete species proteomes, secretomes, or validated endogenous bioactive peptides.<\/jats:p>","DOI":"10.1021\/acs.jafc.6c09785","type":"journal-article","created":{"date-parts":[[2026,9,22]],"date-time":"2026-09-22T11:03:34Z","timestamp":1790075014000},"page":"31253-31270","source":"Crossref","is-referenced-by-count":0,"title":["Proteomic and Functional\nProfiling of\n                    <i>Trichoderma reesei<\/i>\n                    ,\n                    <i>Pichia guilliermondii<\/i>\n                    , and\n                    <i>Hericium erinaceus<\/i>"],"prefix":"10.1021","volume":"74","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7155-4444","authenticated-orcid":true,"given":"Tanvir","family":"Ahmed","sequence":"first","affiliation":[{"name":"Edith Cowan University, School of Science , , ,","place":["Perth, Australia, WA 6027"]},{"name":"Edith Cowan University , , 270 Joondalup Dr , ,","place":["Joondalup, Australia, WA 6027"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4317-2027","authenticated-orcid":true,"given":"Ange\u0301la","family":"Juha\u0301sz","sequence":"additional","affiliation":[{"name":"Edith Cowan University, School of Science , , ,","place":["Perth, Australia, WA 6027"]},{"name":"Edith Cowan University , , 270 Joondalup Dr , ,","place":["Joondalup, Australia, WA 6027"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Utpal","family":"Bose","sequence":"additional","affiliation":[{"name":"Edith Cowan University, School of Science , , ,","place":["Perth, Australia, WA 6027"]},{"name":"Edith Cowan University , , 270 Joondalup Dr , ,","place":["Joondalup, Australia, WA 6027"]},{"name":"CSIRO Agriculture and Food , , ,","place":["St Lucia, QLD, Australia, 4067"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3094-2624","authenticated-orcid":true,"given":"Netsanet","family":"Shiferaw Terefe","sequence":"additional","affiliation":[{"name":"CSIRO Agriculture and Food , , ,","place":["Werribee, VIC, Australia, 3030"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9346-2487","authenticated-orcid":true,"given":"Lai Yue","family":"Chan","sequence":"additional","affiliation":[{"name":"The University of Queensland , , , ,","place":["Brisbane, Queensland, Australia, 4072"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0007-6796","authenticated-orcid":true,"given":"David J.","family":"Craik","sequence":"additional","affiliation":[{"name":"The University of Queensland , , , ,","place":["Brisbane, Queensland, Australia, 4072"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8463-805X","authenticated-orcid":true,"given":"Michelle L.","family":"Colgrave","sequence":"additional","affiliation":[{"name":"Edith Cowan University, School of Science , , ,","place":["Perth, Australia, WA 6027"]},{"name":"Edith Cowan University , , 270 Joondalup Dr , ,","place":["Joondalup, Australia, WA 6027"]},{"name":"CSIRO Agriculture and Food , , ,","place":["St Lucia, QLD, Australia, 4067"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"316","published-online":{"date-parts":[[2026,9,22]]},"reference":[{"issue":"6","key":"2026100711073808700_cit1","doi-asserted-by":"publisher","first-page":"1384","DOI":"10.3390\/microorganisms11061384","article-title":"Current Insights in Fungal Importance a Comprehensive\nReview","volume":"11","author":"Corbu","year":"2023","journal-title":"Microorganisms"},{"issue":"1","key":"2026100711073808700_cit2","doi-asserted-by":"publisher","first-page":"73","DOI":"10.3390\/jof9010073","article-title":"Fungi as a Source\nof Edible Proteins and Animal Feed","volume":"9","author":"Amara","year":"2023","journal-title":"J. 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