{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,27]],"date-time":"2026-07-27T23:03:05Z","timestamp":1785193385033,"version":"3.55.0"},"reference-count":55,"publisher":"MDPI AG","issue":"24","license":[{"start":{"date-parts":[[2025,12,6]],"date-time":"2025-12-06T00:00:00Z","timestamp":1764979200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Scientific Research Fund for High-Level Talents, Sichuan Academy of Agricultural Sciences","award":["NKYRCZX2025032"],"award-info":[{"award-number":["NKYRCZX2025032"]}]},{"name":"Sichuan Freshwater Fish Innovation Team Construction Project of China Agriculture Research System","award":["SCCXTD-2025-15"],"award-info":[{"award-number":["SCCXTD-2025-15"]}]},{"name":"Project of Sichuan Science and Technology Program","award":["2021YFYZ0015"],"award-info":[{"award-number":["2021YFYZ0015"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Foods"],"abstract":"<jats:p>This study investigated muscle quality differences between wild-type (WT) and yellow-mutant (YM) Triplophysa siluroides. Texture analysis showed WT T. siluroides had significantly greater hardness, gumminess, and resilience than YM. Histological and biochemical analyses ruled out myofiber diameter\/density as drivers, instead identifying reduced collagen in YM as key, as confirmed by Picrosirius red staining, collagen quantification, and transmission electron microscopy. Transcriptomic and proteomic analyses revealed that TGF-\u03b2\/BMP pathway suppression in YM resulted in downregulation of core molecules (e.g., BMP2 and SMAD1), collagen-related genes (e.g., COL1A1a and COL1A1b), and ECM-related genes (e.g., TNC and FN1), potentially influencing collagen synthesis and ECM homeostasis. Notably, melanin gene TYRP1 was also downregulated in YM T. siluroides, suggesting a link between pathway suppression, muscle quality alteration, and body pigmentation. The potential role of the BMP2-SMAD1-TYRP1 axis in the association between muscle quality and body colour provides novel mechanistic insights, offering molecular targets for the breeding of T. siluroides with superior commercial traits.<\/jats:p>","DOI":"10.3390\/foods14244196","type":"journal-article","created":{"date-parts":[[2025,12,8]],"date-time":"2025-12-08T10:35:51Z","timestamp":1765190151000},"page":"4196","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["Comparative Muscle Quality and Multiomic Analyses in Wild-Type and Yellow-Mutant Triplophysa siluroides: TGF-\u03b2\/BMP-Mediated Covariation and Breeding for Muscle Quality"],"prefix":"10.3390","volume":"14","author":[{"given":"Luyun","family":"Ni","sequence":"first","affiliation":[{"name":"Fisheries Research Institute, Sichuan Academy of Agricultural Sciences (Sichuan Fisheries Research Institute), Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Feiyang","family":"Li","sequence":"additional","affiliation":[{"name":"Fisheries Research Institute, Sichuan Academy of Agricultural Sciences (Sichuan Fisheries Research Institute), Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pengcheng","family":"Li","sequence":"additional","affiliation":[{"name":"Fisheries Research Institute, Sichuan Academy of Agricultural Sciences (Sichuan Fisheries Research Institute), Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yeyu","family":"Chen","sequence":"additional","affiliation":[{"name":"Fisheries Research Institute, Sichuan Academy of Agricultural Sciences (Sichuan Fisheries Research Institute), Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yan","family":"Liu","sequence":"additional","affiliation":[{"name":"Fisheries Research Institute, Sichuan Academy of Agricultural Sciences (Sichuan Fisheries Research Institute), Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jun","family":"Du","sequence":"additional","affiliation":[{"name":"Fisheries Research Institute, Sichuan Academy of Agricultural Sciences (Sichuan Fisheries Research Institute), Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jiansheng","family":"Lai","sequence":"additional","affiliation":[{"name":"Fisheries Research Institute, Sichuan Academy of Agricultural Sciences (Sichuan Fisheries Research Institute), Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2744-9049","authenticated-orcid":false,"given":"Ya","family":"Liu","sequence":"additional","affiliation":[{"name":"Fisheries Research Institute, Sichuan Academy of Agricultural Sciences (Sichuan Fisheries Research Institute), Chengdu 611731, China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2025,12,6]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"551","DOI":"10.1038\/s41586-021-03308-6","article-title":"A 20-year retrospective review of global aquaculture","volume":"591","author":"Naylor","year":"2021","journal-title":"Nature"},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"1336","DOI":"10.1111\/1541-4337.12923","article-title":"Aquatic food animals in the United States: Status quo and challenges","volume":"21","author":"Jiang","year":"2022","journal-title":"Compr. 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