{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,11]],"date-time":"2025-10-11T02:28:05Z","timestamp":1760149685003,"version":"build-2065373602"},"reference-count":95,"publisher":"MDPI AG","issue":"9","license":[{"start":{"date-parts":[[2023,8,29]],"date-time":"2023-08-29T00:00:00Z","timestamp":1693267200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"FEDER\/COMPETE2020 program of the European Union","award":["POCI-01-0247-FEDER-072226","UIDB\/05183\/2020"],"award-info":[{"award-number":["POCI-01-0247-FEDER-072226","UIDB\/05183\/2020"]}]},{"name":"National Funds through FCT\u2014Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","award":["POCI-01-0247-FEDER-072226","UIDB\/05183\/2020"],"award-info":[{"award-number":["POCI-01-0247-FEDER-072226","UIDB\/05183\/2020"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Genes"],"abstract":"<jats:p>In this work, we studied the backfat transcriptome of surgically castrated (C), intact (I) and intact fed an experimental diet (IE) outdoor-reared male Alentejano (AL) pigs. The experimental diet was a high-fiber diet with locally produced legumes and by-products associated with a boar taint reduction effect. At slaughter (~160 kg), backfat samples were collected for total RNA sequencing. Intact pigs presented leaner carcasses, more total collagen, and more unsaturated intramuscular fat content than C animals. A total of 2726 differentially expressed genes (DEGs, |log2 FC|&gt; 0.58, q &lt; 0.05) were identified between C and I with overexpressed genes related to muscular activity (MYH1, ACTA1) or collagen metabolism (COL1A1, COL1A2) in I pigs. Between C and IE, 1639 DEGs of genes involved in lipidic metabolism (LEP, ME1, FABP4, ELOVL6) were overexpressed in C. Finally, only 28 DEGs were determined between I and IE. Clustering results indicated a drastic influence of the testis in the transcriptome of subcutaneous fat of AL pigs, while the diet had a marginal effect. Diet can reduce stress by increasing satiety in animals, and could have induced an increase of skatole degradation due to the higher expression of the CYP2A19 gene in the IE group.<\/jats:p>","DOI":"10.3390\/genes14091722","type":"journal-article","created":{"date-parts":[[2023,8,29]],"date-time":"2023-08-29T08:35:05Z","timestamp":1693298105000},"page":"1722","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":4,"title":["Transcriptomic Profiling of Subcutaneous Backfat in Castrated and Intact Alentejano Pigs Finished Outdoors with Commercial and Fiber-Rich Diets"],"prefix":"10.3390","volume":"14","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-0401-478X","authenticated-orcid":false,"given":"Nicol\u00e1s","family":"Garrido","sequence":"first","affiliation":[{"name":"ECO-PIG Consortium, Z.I. Catraia, Ap. 50, 3441-131 Santa Comba D\u00e3o, Portugal"},{"name":"MED\u2014Mediterranean Institute for Agriculture, Environment and Development & CHANGE\u2014Global Change and Sustainability Institute, Universidade de \u00c9vora, P\u00f3lo da Mitra, Ap. 94, 7006-554 \u00c9vora, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1189-9803","authenticated-orcid":false,"given":"Andr\u00e9","family":"Albuquerque","sequence":"additional","affiliation":[{"name":"ECO-PIG Consortium, Z.I. Catraia, Ap. 50, 3441-131 Santa Comba D\u00e3o, Portugal"},{"name":"MED\u2014Mediterranean Institute for Agriculture, Environment and Development & CHANGE\u2014Global Change and Sustainability Institute, Universidade de \u00c9vora, P\u00f3lo da Mitra, Ap. 94, 7006-554 \u00c9vora, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3597-6746","authenticated-orcid":false,"given":"Rui","family":"Charneca","sequence":"additional","affiliation":[{"name":"ECO-PIG Consortium, Z.I. Catraia, Ap. 50, 3441-131 Santa Comba D\u00e3o, Portugal"},{"name":"MED & CHANGE, Departamento de Zootecnia, ECT, Universidade de \u00c9vora, P\u00f3lo da Mitra, Ap. 94, 7006-554 \u00c9vora, Portugal"}]},{"given":"Filipa","family":"Costa","sequence":"additional","affiliation":[{"name":"ECO-PIG Consortium, Z.I. Catraia, Ap. 50, 3441-131 Santa Comba D\u00e3o, Portugal"}]},{"given":"Carla","family":"Marmelo","sequence":"additional","affiliation":[{"name":"ECO-PIG Consortium, Z.I. Catraia, Ap. 50, 3441-131 Santa Comba D\u00e3o, Portugal"},{"name":"MED\u2014Mediterranean Institute for Agriculture, Environment and Development & CHANGE\u2014Global Change and Sustainability Institute, Universidade de \u00c9vora, P\u00f3lo da Mitra, Ap. 94, 7006-554 \u00c9vora, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9480-782X","authenticated-orcid":false,"given":"Am\u00e9lia","family":"Ramos","sequence":"additional","affiliation":[{"name":"ECO-PIG Consortium, Z.I. Catraia, Ap. 50, 3441-131 Santa Comba D\u00e3o, Portugal"},{"name":"Departamento de Ci\u00eancias Agr\u00e1rias e Tecnologias, Escola Superior Agr\u00e1ria de Coimbra, Bencanta, 3045-601 Coimbra, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6379-7526","authenticated-orcid":false,"given":"Lu\u00edsa","family":"Martin","sequence":"additional","affiliation":[{"name":"ECO-PIG Consortium, Z.I. Catraia, Ap. 50, 3441-131 Santa Comba D\u00e3o, Portugal"},{"name":"Departamento de Ci\u00eancias Agr\u00e1rias e Tecnologias, Escola Superior Agr\u00e1ria de Coimbra, Bencanta, 3045-601 Coimbra, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3616-8406","authenticated-orcid":false,"given":"Jos\u00e9 Manuel","family":"Martins","sequence":"additional","affiliation":[{"name":"ECO-PIG Consortium, Z.I. Catraia, Ap. 50, 3441-131 Santa Comba D\u00e3o, Portugal"},{"name":"MED & CHANGE, Departamento de Zootecnia, ECT, Universidade de \u00c9vora, P\u00f3lo da Mitra, Ap. 94, 7006-554 \u00c9vora, Portugal"}]}],"member":"1968","published-online":{"date-parts":[[2023,8,29]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","unstructured":"Mu\u00f1oz, M., Bozzi, R., Garc\u00eda, F., N\u00fa\u00f1ez, Y., Geraci, C., Crovetti, A., Garc\u00eda-Casco, J., Alves, E., \u0160krlep, M., and Charneca, R. (2018). Diversity across Major and Candidate Genes in European Local Pig Breeds. PLoS ONE, 13.","DOI":"10.1371\/journal.pone.0207475"},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"18","DOI":"10.1186\/1297-9686-45-18","article-title":"Genetic Structure, Relationships and Admixture with Wild Relatives in Native Pig Breeds from Iberia and Its Islands","volume":"45","author":"Gama","year":"2013","journal-title":"Genet. Sel. 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