{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,19]],"date-time":"2026-05-19T20:40:54Z","timestamp":1779223254155,"version":"3.51.4"},"reference-count":56,"publisher":"Wiley","issue":"3","license":[{"start":{"date-parts":[[2024,5,8]],"date-time":"2024-05-08T00:00:00Z","timestamp":1715126400000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["Anim Models and Exp Med"],"published-print":{"date-parts":[[2024,6]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Background<\/jats:title><jats:p>Atherosclerosis is a chronic cardiovascular disease of great concern. However, it is difficult to establish a direct connection between conventional small animal models and clinical practice. The pig's genome, physiology, and anatomy reflect human biology better than other laboratory animals, which is crucial for studying the pathogenesis of atherosclerosis.<\/jats:p><\/jats:sec><jats:sec><jats:title>Methods<\/jats:title><jats:p>We used whole\u2010genome sequencing data from nine Bama minipigs to perform a genome\u2010wide linkage analysis, and further used bioinformatic tools to filter and identify underlying candidate genes. Candidate gene function prediction was performed using the online prediction tool STRING 12.0. Immunohistochemistry and immunofluorescence were used to detect the expression of proteins encoded by candidate genes.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>We mapped differential single nucleotide polymorphisms (SNPs) to genes and obtained a total of 102 differential genes, then we used GO and KEGG pathway enrichment analysis to identify four candidate genes, including <jats:italic>SLA\u20101<\/jats:italic>, <jats:italic>SLA\u20102<\/jats:italic>, <jats:italic>SLA\u20103<\/jats:italic>, and <jats:italic>TAP2<\/jats:italic>. nsSNPs cause changes in the primary and tertiary structures of SLA\u2010I and TAP2 proteins, the primary structures of these two proteins have undergone amino acid changes, and the tertiary structures also show slight changes. In addition, immunohistochemistry and immunofluorescence results showed that the expression changes of TAP2 protein in coronary arteries showed a trend of increasing from the middle layer to the inner layer.<\/jats:p><\/jats:sec><jats:sec><jats:title>Conclusions<\/jats:title><jats:p>We have identified <jats:italic>SLA\u2010I<\/jats:italic> and <jats:italic>TAP2<\/jats:italic> as potential susceptibility genes of atherosclerosis, highlighting the importance of antigen processing and immune response in atherogenesis.<\/jats:p><\/jats:sec>","DOI":"10.1002\/ame2.12412","type":"journal-article","created":{"date-parts":[[2024,5,9]],"date-time":"2024-05-09T05:35:02Z","timestamp":1715232902000},"page":"377-387","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":6,"title":["Identification of novel genes associated with atherosclerosis in Bama miniature pig"],"prefix":"10.1002","volume":"7","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7360-2200","authenticated-orcid":false,"given":"Dengfeng","family":"Ding","sequence":"first","affiliation":[{"name":"Laboratory Animal Center Chinese PLA General Hospital  Beijing China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yuqiong","family":"Zhao","sequence":"additional","affiliation":[{"name":"Laboratory Animal Center Chinese PLA General Hospital  Beijing China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yunxiao","family":"Jia","sequence":"additional","affiliation":[{"name":"Laboratory Animal Center Chinese PLA General Hospital  Beijing China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Miaomiao","family":"Niu","sequence":"additional","affiliation":[{"name":"Laboratory Animal Center Chinese PLA General Hospital  Beijing China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xuezhuang","family":"Li","sequence":"additional","affiliation":[{"name":"Laboratory Animal Center Chinese PLA General Hospital  Beijing China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xinou","family":"Zheng","sequence":"additional","affiliation":[{"name":"Laboratory Animal Center Chinese PLA General Hospital  Beijing China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2779-275X","authenticated-orcid":false,"given":"Hua","family":"Chen","sequence":"additional","affiliation":[{"name":"Laboratory Animal Center Chinese PLA General Hospital  Beijing China"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"311","published-online":{"date-parts":[[2024,5,8]]},"reference":[{"key":"e_1_2_9_2_1","doi-asserted-by":"publisher","DOI":"10.1161\/CIRCRESAHA.118.313816"},{"key":"e_1_2_9_3_1","doi-asserted-by":"publisher","DOI":"10.3390\/nu11051155"},{"key":"e_1_2_9_4_1","doi-asserted-by":"publisher","DOI":"10.1111\/joim.13362"},{"key":"e_1_2_9_5_1","doi-asserted-by":"publisher","DOI":"10.1038\/ng.3396"},{"key":"e_1_2_9_6_1","doi-asserted-by":"publisher","DOI":"10.1038\/ng.784"},{"key":"e_1_2_9_7_1","doi-asserted-by":"publisher","DOI":"10.1038\/nrg3908"},{"key":"e_1_2_9_8_1","doi-asserted-by":"publisher","DOI":"10.1111\/jcmm.14932"},{"key":"e_1_2_9_9_1","doi-asserted-by":"publisher","DOI":"10.1161\/CIRCRESAHA.117.312086"},{"key":"e_1_2_9_10_1","first-page":"1241","article-title":"A decade of genome\u2010wide association studies for coronary artery disease: the challenges ahead","volume":"114","author":"Erdmann J","year":"2018","journal-title":"Cardiovasc Res"},{"key":"e_1_2_9_11_1","doi-asserted-by":"publisher","DOI":"10.1093\/eurheartj\/ehv545"},{"key":"e_1_2_9_12_1","doi-asserted-by":"publisher","DOI":"10.1161\/ATVBAHA.111.237693"},{"key":"e_1_2_9_13_1","doi-asserted-by":"publisher","DOI":"10.3892\/mmr.2021.12511"},{"key":"e_1_2_9_14_1","doi-asserted-by":"publisher","DOI":"10.3390\/medicina55110721"},{"key":"e_1_2_9_15_1","doi-asserted-by":"publisher","DOI":"10.1097\/MOL.0b013e32833ded6a"},{"key":"e_1_2_9_16_1","doi-asserted-by":"publisher","DOI":"10.1080\/10495398.2017.1322974"},{"key":"e_1_2_9_17_1","doi-asserted-by":"publisher","DOI":"10.1155\/2013\/761415"},{"key":"e_1_2_9_18_1","first-page":"257","article-title":"Spontaneous atherosclerosis in the arterial system of aging swine","volume":"27","author":"Skold BH","year":"1966","journal-title":"Am J Vet Res"},{"key":"e_1_2_9_19_1","doi-asserted-by":"publisher","DOI":"10.1161\/01.CIR.89.5.2462"},{"key":"e_1_2_9_20_1","doi-asserted-by":"publisher","DOI":"10.1161\/01.ATV.14.5.840"},{"key":"e_1_2_9_21_1","doi-asserted-by":"publisher","DOI":"10.5551\/jat.21246"},{"key":"e_1_2_9_22_1","doi-asserted-by":"publisher","DOI":"10.1080\/10495398.2022.2088548"},{"key":"e_1_2_9_23_1","doi-asserted-by":"publisher","DOI":"10.1155\/2012\/362941"},{"key":"e_1_2_9_24_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-022-29444-9"},{"key":"e_1_2_9_25_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp324"},{"key":"e_1_2_9_26_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp352"},{"key":"e_1_2_9_27_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btq033"},{"key":"e_1_2_9_28_1","doi-asserted-by":"publisher","DOI":"10.1101\/gr.107524.110"},{"key":"e_1_2_9_29_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkq603"},{"key":"e_1_2_9_30_1","doi-asserted-by":"publisher","DOI":"10.1089\/omi.2011.0118"},{"key":"e_1_2_9_31_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-021-03819-2"},{"key":"e_1_2_9_32_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.2004049"},{"key":"e_1_2_9_33_1","doi-asserted-by":"publisher","DOI":"10.3390\/ijms20143589"},{"key":"e_1_2_9_34_1","doi-asserted-by":"publisher","DOI":"10.1186\/s12870-022-03804-5"},{"key":"e_1_2_9_35_1","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2019.02995"},{"key":"e_1_2_9_36_1","doi-asserted-by":"publisher","DOI":"10.1128\/jvi.00158-22"},{"key":"e_1_2_9_37_1","doi-asserted-by":"publisher","DOI":"10.1111\/pin.13202"},{"key":"e_1_2_9_38_1","doi-asserted-by":"publisher","DOI":"10.1007\/s10096-018-3370-z"},{"key":"e_1_2_9_39_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btaa658"},{"key":"e_1_2_9_40_1","doi-asserted-by":"publisher","DOI":"10.3390\/cells11030411"},{"key":"e_1_2_9_41_1","doi-asserted-by":"publisher","DOI":"10.1161\/JAHA.116.004381"},{"key":"e_1_2_9_42_1","doi-asserted-by":"publisher","DOI":"10.1038\/ejhg.2010.55"},{"key":"e_1_2_9_43_1","doi-asserted-by":"publisher","DOI":"10.1128\/JVI.00119-16"},{"key":"e_1_2_9_44_1","doi-asserted-by":"publisher","DOI":"10.1128\/JVI.05040-11"},{"key":"e_1_2_9_45_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.dci.2008.07.002"},{"key":"e_1_2_9_46_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.atherosclerosis.2016.10.011"},{"key":"e_1_2_9_47_1","doi-asserted-by":"publisher","DOI":"10.1002\/eji.201847584"},{"key":"e_1_2_9_48_1","doi-asserted-by":"publisher","DOI":"10.1152\/physiol.00002.2004"},{"key":"e_1_2_9_49_1","doi-asserted-by":"publisher","DOI":"10.7314\/APJCP.2013.14.9.5213"},{"key":"e_1_2_9_50_1","doi-asserted-by":"publisher","DOI":"10.1016\/0198-8859(94)00093-6"},{"key":"e_1_2_9_51_1","doi-asserted-by":"publisher","DOI":"10.1111\/apm.12373"},{"key":"e_1_2_9_52_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.0105-2896.2005.00316.x"},{"key":"e_1_2_9_53_1","doi-asserted-by":"publisher","DOI":"10.1161\/JAHA.116.005318"},{"key":"e_1_2_9_54_1","doi-asserted-by":"publisher","DOI":"10.1093\/eurheartj\/ehy714"},{"key":"e_1_2_9_55_1","doi-asserted-by":"publisher","DOI":"10.1111\/cei.12897"},{"key":"e_1_2_9_56_1","doi-asserted-by":"publisher","DOI":"10.1186\/s12916-019-1433-3"},{"key":"e_1_2_9_57_1","first-page":"737","article-title":"HLA class I antigen and transporter associated with antigen processing (TAP1 and TAP2) down\u2010regulation in high\u2010grade primary breast carcinoma lesions","volume":"58","author":"Vitale M","year":"1998","journal-title":"Cancer Res"}],"container-title":["Animal Models and Experimental Medicine"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/pdf\/10.1002\/ame2.12412","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,7,8]],"date-time":"2024-07-08T05:24:15Z","timestamp":1720416255000},"score":1,"resource":{"primary":{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/10.1002\/ame2.12412"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,5,8]]},"references-count":56,"journal-issue":{"issue":"3","published-print":{"date-parts":[[2024,6]]}},"alternative-id":["10.1002\/ame2.12412"],"URL":"https:\/\/doi.org\/10.1002\/ame2.12412","archive":["Portico"],"relation":{},"ISSN":["2576-2095","2576-2095"],"issn-type":[{"value":"2576-2095","type":"print"},{"value":"2576-2095","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,5,8]]},"assertion":[{"value":"2023-12-28","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2024-03-20","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2024-05-08","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}