1 Open Access Asian Australas. J. Anim. Sci. Vol. 29, No. 3 : 321-326 March 2016 http://dx.doi.org/10.5713/ajas.15.0331 www.ajas.info pissn 1011-2367 eissn 1976-5517 Analysis of Swine Leukocyte Antigen Haplotypes in Yucatan Miniature Pigs Used as Biomedical Model Animal Nu-Ri Choi a, Dong-Won Seo a, Ki-Myung Choi 1, Na-Young Ko 1, Ji-Ho Kim 1, Hyun-Il Kim 1, Woo-Young Jung 2, and Jun-Heon Lee* Division of Animal and Dairy Science, Chungnam National University, Daejeon 34134, Korea - Supplementary Data Supplementary Table 1. Sequence-specific PCR primers for genotyping swine leukocyte antigen (SLA) class I alleles Lane Group specicity Allele specificity primer sequence (5' 3') Product Primer size (bp) position 1 Negative Control Porcine ACTA1 F: CGTGGAAGATACGCAGTTCGTGT +21 516 R: GTCTGTGCGTTGTCCTTGCTGA +384 2 1*01XX(all) 1*0101~02/01rh28 F: CGGGGTCAGGGTCTCACACCTA +347 209 R: CCTCCTACGCTCCGCCACATT +514 3 1*02XX(all) 1*0201~02/02we02 F: CATTTCGTGCGGTTCGACAACT +178 147 R: GGTGTTCAGGCCCACTCGGAG +283 4 1*04XX(all) 1*0401/04gx01/04gz01/04we01 F: GCCTGACCGCGGGGACTCT +123 181 R: GTAAGTCTGTGCGGTTTCCTTGACA +261 5 1*05XX(all); 1*an02 1*0501; 1*an02 F: CCCCACTCCCTCAGCTATTTCTC 220 R: GGAAAGTCTGTGAGGTGTCCCTTTG +262 6 1*06XX(all); 1*13XX 1*0601/06an04; 1*1301 F: GCCTGACCGCGGGGACTCT +123 163 R: CTTGACTTTCCGCGTCTCCTC +247 7 1*07XX(all) 1*0701~02 F: GCCGGGTCTCACACCATCCAGAT +353 220 R: GGCCCTGCAGGTAGCTCCTCAAT +528 F: GTGGACTCCCGCTTCTTCATT +135 8 1*08XX(all) *0801/08an03/08Lw02/08ms05/08pt13/08s R: CTCCCGATCCCAATACTCCG k11/08sm08/08sy01 +233 9 1*09XX(all) 1*0901/09sm09 F: CCACTCCCTGAGCTATTTCTT 193 R: GATCTGTGTCTCCCGATCCCAATAG +237 10 1*w10XX(all) 1*w10cs01/w10sm21 F: CTCCTCCTCCGCGGGTACGA +404 180 R: CCACTCCACACACGTGCCCTC +544 11 1*11XX(all) 1*1101~03/11mp11/11yn01 F: GTGTYCCGGCCCGACC +112 182 R: TGTGCGYTGCCCATGACAC +260 12 1*12XX(all) 1*1201/12hy01/12Lw01 F: GTTCGACAGCGACGCCCTC +186 119 R: GGTTAATCTGTGCGGTTTCCTTGA +263 13 1*13XX(all) 1*1301/13ms21 F: CTCACACCCTCCAGAGCATGTTT +360 211 R: CCCTGCAGGTAGCTCCTCCTA +528 14 1*14XX(all) 1*1401 F: CCACTCCCTGAGCTATTTCTT 219 R: GGTTAATCTGTGCGTTGTCCATGACA +261 1*15XX(all); 1*es11; 2*01XX(all) 1*1501; 1*es11; F: CCCCACTCCCTCAGCTATTTCTC 2*0101~02 15 R: TGTAGTAGCCGCGCAGGGTC 253 +300* 16 1*16XX(all) 1*1601 F: CGTGGACTCCCGCTTCTTCATT 173 +135 *
2 Choi et al. (2016) Asian Australas. J. Anim. Sci. 29:321-326 17 1*16XX(all); 1*an02; 2*03XX(all); 2*es22 18 1*cs02 1*cs02 19 1*rh03; 2*es22 1*rh03; 2*es22 20 1*rh03; 1*st11 1*rh03; 1*st11 21 1*sk13 1*sk13 22 3*01XX(all) 3*0101/01ev04/01rh12/01rh28 23 3*03XX(all); 3*08XX(all) 24 3*04XX(all); 3*hb06 3*0401~02/04es32;3*hb06 25 3*05XX(all) 3*0501~03/05sw01 26 3*06XX(all); 3*07XX(all) R: GGAAAGTCTGTGAGGTGTCCCTTTG +262 F: GCAGTTCGTGCGGTTCGACAGC +175* 1*1601; 1*an02; R: 134 2*0301~02/03gz01;2*es22 CTCGGTAAGTCTGTGAGGTGTCCCTTTGT +260* A F: CTCACACCCTCCAGAGCATGTTT +360 208 R: TGCAGGTAGCTCCTCTCTCC +526 F: GGTACAGWCAGTAYGSCTACGACA +421* 193 R: TTCCCCATCTCCAGGTATCTGC +569* F: CGCACCGAAACCGAGGGA +197 130 R: GCGCAGGTTGTTCAGGCT +292 F: CAGGGTCTCACACCATCCAGAC +353 196 R: GCCTCATGGGCCGCCTT +505 F: CTCCGCGGGTACAGTCAGTTT +411 177 R: GAGCCACTCCACACACGC +550 F: TCYTCCTCCRCGGGTACCA +404 3*0301~04/03an02/03an04/03an05/03pt31 183 R: GAGCCACTCCACACASGC +550 ;3*0801 F: GGAAGCCCCGTTTCATCGAA +135 192 R: GCAGGTTTTTCAGGTTCACTCGGA +284 F: CGTGGAAGATACGCAGTTCGTGT +166 R: GTCTGTGCGTTGTCCTTGCTGA +260 3*0601~02; 3*070101~02/07Lw02/07rh34 27 3*07XX(all) 3*070101~02/07Lw02/07rh34 28 3*06XX 3*0601 29 3*06XX 3*0602 30 1*11XX; 3*03XX; 3*04XX(all); 3*hb06 1*1103; 3*0301~04/03an02/03an04/03an05; 3*0401~02/04es32;3*hb06 F: CGACGTGGGRCCAGACT +382 187 R: CGCGCCCTCCAGGTAGCTT +534 F: CGACCGCAGGAAGCCCCGT +126 151 R: CCTCATCCCAATACTCCTGCCA +238' F: CGACGTGGGRCCAGACT +382 152 R: CATCGGCCGCCTCCCA +502 F: GCAGGAAGCCCCGTTTCAC +131 139 R: TCCTCATCCCAATACTCCTGCCT +229 F: TCCCCACTCCCTGAGGTATTTCG +88 R: CGGCTCCATCTGCGGATTG 139 +186 31 2*01XX(all) 2*0101~02 F: CACGACCGCGGGGAGC +130 172 R: GTGCGCTGCCCATGACG +270 32 2*02XX(all) 2*0201~02 F: CTCCGCGGGTACAGTCAGTTT +420 R: CTGCTCCGCCACATTGGCT +519 33 2*03XX(all) 2*0301~02/03gz01 F: AGTATTGGGATCGGGAGACRCAGATA +270 89 R: CTGGTTGTAGTAGTCGCGCAGGG +311 34 2*04XX(all) 2*0401/040201~02 F: AGGGAACCTGCGCACAGC +314 311 R: CACGTCGCAGCCGTACATGA +362 35 2*05XX(all) 2*0501~03/05rh03/05rh34/05sy01 F: CGGGCGCCGTGGATAGAGA +232 127 R: CCTCGCTCTGGTTGTAGTAGCCAAG +316 36 2*06XX(all) 2*0601~02/06an03/06me01/06sv01 F: CGCCCCGAATCCGAGGAAA +207 125 R: GGKTGTTCAGGYYCMCTCGGTA +292 37 2*07XX(all) 2*0701/07an05/07rh12/07we01 F: GTCATGGTCTCACACCCTCCAGGT +362 199 R: TCCCTCCGCCACATTGGCT +519 38 2*w08XX(all) 2*w08gx01/w08hy01/w08sw01 F: CGCCCCGAATCCGAGGAAA +207 126 R: GGTSTTCAGGYCCACTCGGTT +292 39 2*w09XX(all) 2*w09an02/w09pt22/w09sn01 F: TGGGACCAGACGGGCTCT +397 177 R: CCTGCAGGTAGCTCCTCCAG +537 40 2*10XX(all) F: AATCTCCGCAGATTCCAAAGATGC +4 104 2*1001/10an01/10es21/10sk21/10sm01 R: CCCGCACTCACCCGCCTGA +66 41 2*11XX(all) 2*110101~02/11so01 F: GACGCTCCGAATCCGAGGGA +206 126 R: TGTGCGCAGGTACCCTCTGTAAA +290 42 1*es11; 2*12XX(all) 1*es11;2*1201/12Lw01 F: CTCCGCGGGTACAGTCAGTTC +411* 159 R: GCCTTGCAGGTAGCTCCTCCAG +528* 43 1*11XX; F: TMGARMAGGAGGGGCAGGG +236* 1*1103;2*w13sm20 117 2*w13XX(all) R: CGGGCTCGCTCTGGTTGTAGTA +313* 44 1*09XX(all); 1*0901/09sm09; F: GACGCTCCGAATCCGAGGGA 131 +197*
Choi et al. (2016) Asian Australas. J. Anim. Sci. 29:321-326 3 45 46 2*w14XX(all); 2*16XX(all) 2*jh02 2*15XX(all); 3*08XX(all) 2*06XX; 2*w09XX; *16XX(all) 47 2*an04 2*an04 48 2*jh02 2*jh02 2*w14yn01;2*1601;2*jh02 2*1501;3*0801 2*0601~02/06me01; 2*w09an02/w09sn01;2*1601 R: CGCAGGKTSTTCAGGCC +292* F: CGACCKCAGGAAGCCCCGT +126* 203 R: CGCGCAGGKTGTTCAGGC +293* F: CCGCTTCCTCACCGTCGGGT +151 196 R: GTAGTAGCCGCGCAGGGTG +309 F: GACCTCTGTGACTCCCGCTTCC +139 143 R: TTCCTATCCCAATACTCCTGCCCT +237 F: CGTGGACTCCCGCTTCCTCA +142 R: 175 +270 TCGGTAAGTCTGTGCGGTTTCCTTGTAA
4 Choi et al. (2016) Asian Australas. J. Anim. Sci. 29:321-326 Supplementary Figure 1. SLA class I haplotypes for the Yucatan miniature pigs. (1) Lr-4.0 homozygote (lane 4; 1*04XX, lane 24 and 30; 3*04XX (hb06), lane 34; 2*04XX), (2) Lr-4.0 (lane 4; 1*04XX, lane 24 and 30; 3*04XX (hb06), lane 34; 2*04XX) and Lr-25.0 (lane 11; 1*11XX, lane 23; 3*03XX, lane 37; 2*07XX), (3) Lr-6.0 (lane 8; 1*08XX, lane 26 and 28; 3*06XX(0601), lane 35; 2*05XX) and Lr-25.0 (lane 11; 1*11XX, lane 23; 3*03XX, lane 37; 2*07XX), (4) Lr-6.0 homozygote (lane 8; 1*08XX, lane 26 and 28; 3*06XX(0601), lane 35; 2*05XX) and (5) Lr-4.0 (lane 4; 1*04XX, lane 24 and 30; 3*04XX (hb06), lane 34; 2*04XX) and Lr-25.0 (lane 11; 1*11XX, lane 23; 3*03XX, lane 37; 2*07XX)
Choi et al. (2016) Asian Australas. J. Anim. Sci. 29:321-326 5 Supplementary Figure 2. SLA class II haplotypes for the Yucatan miniature pigs. (1) Lr-0.5 homozygote (lane 7; DRB1*05XX, lane 27, 37 and 39; DQB1*02XX, lane 43; DQA*02XX) (2) Lr-0.5 (lane 7; DRB1*05XX, lane 27, 37 and 39; DQB1*02XX, lane 43; DQA*02XX) and Lr-0.25 (lane 16; DRB1*13XX, lane 34 and 35; DQB1*09XX, lane 46 and 47; DQA*04XX+w05XX) (3) Lr-0.7 (lane 8; DRB1*06XX, lane 31; DQB1*06XX, lane 42; DQA*01XX) and Lr-0.25 (lane 16; DRB1*13XX, lane 34 and 35; DQB1*09XX, lane 46 and 47; DQA*04XX+w05XX) (4) Lr-0.7 homozygote (lane 8; DRB1*06XX, lane 31; DQB1*06XX, lane 42; DQA*01XX) (5) Lr-0.5 (lane 7; DRB1*05XX, lane 27, 37 and 39; DQB1*02XX, lane 43; DQA*02XX) and Lr-0.7 (lane 8; DRB1*06XX, lane 31; DQB1*06XX, lane 42; DQA*01XX)