{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,15]],"date-time":"2026-06-15T21:45:32Z","timestamp":1781559932730,"version":"3.54.5"},"reference-count":61,"publisher":"MDPI AG","issue":"4","license":[{"start":{"date-parts":[[2023,3,25]],"date-time":"2023-03-25T00:00:00Z","timestamp":1679702400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["32272833"],"award-info":[{"award-number":["32272833"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["2021LZGC001"],"award-info":[{"award-number":["2021LZGC001"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["2021C02068-1"],"award-info":[{"award-number":["2021C02068-1"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Shandong Provincial Key R&amp;D Program of China","award":["32272833"],"award-info":[{"award-number":["32272833"]}]},{"name":"Shandong Provincial Key R&amp;D Program of China","award":["2021LZGC001"],"award-info":[{"award-number":["2021LZGC001"]}]},{"name":"Shandong Provincial Key R&amp;D Program of China","award":["2021C02068-1"],"award-info":[{"award-number":["2021C02068-1"]}]},{"name":"Zhejiang Science and Technology Major Program on Agricultural New Variety Breeding","award":["32272833"],"award-info":[{"award-number":["32272833"]}]},{"name":"Zhejiang Science and Technology Major Program on Agricultural New Variety Breeding","award":["2021LZGC001"],"award-info":[{"award-number":["2021LZGC001"]}]},{"name":"Zhejiang Science and Technology Major Program on Agricultural New Variety Breeding","award":["2021C02068-1"],"award-info":[{"award-number":["2021C02068-1"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Biology"],"abstract":"<jats:p>Licha black (LI) pig has the specific characteristics of larger body length and appropriate fat deposition among Chinese indigenous pigs. Body length is one of the external traits that affect production performance, and fat deposition influences meat quality. However, the genetic characteristics of LI pigs have not yet been systematically uncovered. Here, the genomic information from 891 individuals of LI pigs, commercial pigs, and other Chinese indigenous pigs was used to analyze the breed characteristics of the LI pig with runs of homozygosity, haplotype, and FST selection signatures. The results showed the growth traits-related genes (i.e., NR6A1 and PAPPA2) and the fatness traits-related gene (i.e., PIK3C2B) were the promising candidate genes that closely related to the characteristics of LI pigs. In addition, the protein\u2013protein interaction network revealed the potential interactions between the promising candidate genes and the FASN gene. The RNA expression data from FarmGTEx indicated that the RNA expression levels of NR6A1, PAPPA2, PIK3C2B, and FASN were highly correlated in the ileum. This study provides valuable molecular insights into the mechanisms that affect pig body length and fat deposition, which can be used in the further breeding process to improve meat quality and commercial profitability.<\/jats:p>","DOI":"10.3390\/biology12040500","type":"journal-article","created":{"date-parts":[[2023,3,27]],"date-time":"2023-03-27T03:31:48Z","timestamp":1679887908000},"page":"500","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":10,"title":["Integration of Selection Signatures and Protein Interactions Reveals NR6A1, PAPPA2, and PIK3C2B as the Promising Candidate Genes Underlying the Characteristics of Licha Black Pig"],"prefix":"10.3390","volume":"12","author":[{"given":"Qinqin","family":"Xie","sequence":"first","affiliation":[{"name":"College of Animal Sciences, Zhejiang University, Hangzhou 310058, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhenyang","family":"Zhang","sequence":"additional","affiliation":[{"name":"College of Animal Sciences, Zhejiang University, Hangzhou 310058, China"},{"name":"Hainan Institute of Zhejiang University, Building 11, Yongyou Industrial Park, Yazhou Bay Science and Technology City, Yazhou District, Sanya 572025, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6213-0810","authenticated-orcid":false,"given":"Zitao","family":"Chen","sequence":"additional","affiliation":[{"name":"College of Animal Sciences, Zhejiang University, Hangzhou 310058, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jiabao","family":"Sun","sequence":"additional","affiliation":[{"name":"College of Animal Sciences, Zhejiang University, Hangzhou 310058, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Meng","family":"Li","sequence":"additional","affiliation":[{"name":"Jinan Laiwu Pig Industry Technology Research Institute Co., Ltd., Laiwu 271100, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6475-0009","authenticated-orcid":false,"given":"Qishan","family":"Wang","sequence":"additional","affiliation":[{"name":"College of Animal Sciences, Zhejiang University, Hangzhou 310058, China"},{"name":"Hainan Institute of Zhejiang University, Building 11, Yongyou Industrial Park, Yazhou Bay Science and Technology City, Yazhou District, Sanya 572025, China"},{"name":"Key Laboratory of Livestock and Poultry Resources Evaluation and Utilization, Ministry of Agriculture and Rural Affairs, Hangzhou 310058, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1163-5963","authenticated-orcid":false,"given":"Yuchun","family":"Pan","sequence":"additional","affiliation":[{"name":"College of Animal Sciences, Zhejiang University, Hangzhou 310058, China"},{"name":"Hainan Institute of Zhejiang University, Building 11, Yongyou Industrial Park, Yazhou Bay Science and Technology City, Yazhou District, Sanya 572025, China"},{"name":"Key Laboratory of Livestock and Poultry Resources Evaluation and Utilization, Ministry of Agriculture and Rural Affairs, Hangzhou 310058, China"},{"name":"Hainan Yazhou Bay Seed Laboratory, Yongyou Industrial Park, Yazhou Bay Sci-Tech City, Sanya 572025, China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2023,3,25]]},"reference":[{"key":"ref_1","unstructured":"Si, J.C., Zhang, H.B., and Tang, J.J. 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