Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403–410
Article CAS PubMed Google Scholar
Archibald AL, Bolund L, Churcher C, Fredholm M, Groenen MAM, Harlizius B, Lee K-T, Milan D, Rogers J, Rothschild MF, Uenishi H, Wang J, Schook LB, the Swine Genome Sequencing C (2010) Pig genome sequence - analysis and publication strategy. BMC Genomics 11:438
Baratelli M, Morgan S, Hemmink JD, Reid E, Carr BV, Lefevre E, Montaner-Tarbes S, Charleston B, Fraile L, Tchilian E, Montoya M (2020) Identification of a newly conserved SLA-II epitope in a structural protein of swine influenza virus. Front Immunol 11:2083
Article CAS PubMed PubMed Central Google Scholar
Beiki H, Liu H, Huang J, Manchanda N, Nonneman D, Smith TPL, Reecy JM, Tuggle CK (2019) Improved annotation of the domestic pig genome through integration of Iso-Seq and RNA-seq data. BMC Genomics 20:344
Article CAS PubMed PubMed Central Google Scholar
Benson G (1999) Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res 27:573–580
Article CAS PubMed PubMed Central Google Scholar
Bickhart DM, Rosen BD, Koren S, Sayre BL, Hastie AR, Chan S, Lee J, Lam ET, Liachko I, Sullivan ST, Burton JN, Huson HJ, Nystrom JC, Kelley CM, Hutchison JL, Zhou Y, Sun J, Crisa A, Ponce de Leon FA, Schwartz JC, Hammond JA, Waldbieser GC, Schroeder SG, Liu GE, Dunham MJ, Shendure J, Sonstegard TS, Phillippy AM, Van Tassell CP, Smith TPL (2017) Single-molecule sequencing and chromatin conformation capture enable de novo reference assembly of the domestic goat genome. Nat Genet 49:643–650
Article CAS PubMed PubMed Central Google Scholar
Bolin CA, Whipple DL, Khanna KV, Risdahl JM, Peterson PK, Molitor TW (1997) Infection of swine with Mycobacterium bovis as a model of human tuberculosis. J Infect Dis 176:1559–1566
Article CAS PubMed Google Scholar
Bredemeyer KR, Harris AJ, Li G, Zhao L, Foley NM, Roelke-Parker M, O’Brien SJ, Lyons LA, Warren WC, Murphy WJ (2021) Ultracontinuous single haplotype genome assemblies for the domestic cat (Felis catus) and Asian leopard cat (Prionailurus bengalensis). J Hered 112:165–173
Article CAS PubMed Google Scholar
Brown IH (2000) The epidemiology and evolution of influenza viruses in pigs. Vet Microbiol 74:29–46
Article CAS PubMed Google Scholar
Burkard C, Opriessnig T, Mileham AJ, Stadejek T, Ait-Ali T, Lillico SG, Whitelaw CBA, Archibald AL (2018) Pigs lacking the scavenger receptor cysteine-rich domain 5 of CD163 are resistant to porcine reproductive and respiratory syndrome virus 1 infection. J Virol 92:e00415-e418
Article CAS PubMed PubMed Central Google Scholar
Connelley TK, Degnan K, Longhi CW, Morrison WI (2014) Genomic analysis offers insights into the evolution of the bovine TRA/TRD locus. BMC Genomics 15:994
Article PubMed PubMed Central Google Scholar
Dawson HD, Loveland JE, Pascal G, Gilbert JG, Uenishi H, Mann KM, Sang Y, Zhang J, Carvalho-Silva D, Hunt T, Hardy M, Hu Z, Zhao SH, Anselmo A, Shinkai H, Chen C, Badaoui B, Berman D, Amid C, Kay M, Lloyd D, Snow C, Morozumi T, Cheng RP, Bystrom M, Kapetanovic R, Schwartz JC, Kataria R, Astley M, Fritz E, Steward C, Thomas M, Wilming L, Toki D, Archibald AL, Bed’Hom B, Beraldi D, Huang TH, Ait-Ali T, Blecha F, Botti S, Freeman TC, Giuffra E, Hume DA, Lunney JK, Murtaugh MP, Reecy JM, Harrow JL, Rogel-Gaillard C, Tuggle CK (2013) Structural and functional annotation of the porcine immunome. BMC Genomics 14:332
Article CAS PubMed PubMed Central Google Scholar
Dobin A, Davis CA, Schlesinger F, Drenkow J, Zaleski C, Jha S, Batut P, Chaisson M, Gingeras TR (2013) STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29:15–21
Article CAS PubMed Google Scholar
Edmans M, McNee A, Porter E, Vatzia E, Paudyal B, Martini V, Gubbins S, Francis O, Harley R, Thomas A, Burt R, Morgan S, Fuller A, Sewell A, Charleston B, Bailey M, Tchilian E (2021) Magnitude and kinetics of T cell and antibody responses during H1N1pdm09 infection in inbred Babraham pigs and outbred pigs. Front Immunol 11:604913
Article PubMed PubMed Central Google Scholar
Eguchi-Ogawa T, Toki D, Wertz N, Butler JE, Uenishi H (2012) Structure of the genomic sequence comprising the immunoglobulin heavy constant (IGHC) genes from Sus scrofa. Mol Immunol 52:97–107
Article CAS PubMed Google Scholar
Ekser B, Li P, Cooper DKC (2017) Xenotransplantation: past, present, and future. Curr Opin Organ Transplant 22:513–521
Article PubMed PubMed Central Google Scholar
Goatley LC, Nash RH, Andrews C, Hargreaves Z, Tng P, Reis AL, Graham SP, Netherton CL (2022) Cellular and humoral immune responses after immunisation with low virulent African swine fever virus in the large white inbred Babraham line and outbred domestic pigs. Viruses 14:1487
Article CAS PubMed PubMed Central Google Scholar
Groenen MA, Archibald AL, Uenishi H, Tuggle CK, Takeuchi Y, Rothschild MF, Rogel-Gaillard C, Park C, Milan D, Megens HJ, Li S, Larkin DM, Kim H, Frantz LA, Caccamo M, Ahn H, Aken BL, Anselmo A, Anthon C, Auvil L, Badaoui B, Beattie CW, Bendixen C, Berman D, Blecha F, Blomberg J, Bolund L, Bosse M, Botti S, Bujie Z, Bystrom M, Capitanu B, Carvalho-Silva D, Chardon P, Chen C, Cheng R, Choi SH, Chow W, Clark RC, Clee C, Crooijmans RP, Dawson HD, Dehais P, De Sapio F, Dibbits B, Drou N, Du ZQ, Eversole K, Fadista J, Fairley S, Faraut T, Faulkner GJ, Fowler KE, Fredholm M, Fritz E, Gilbert JG, Giuffra E, Gorodkin J, Griffin DK, Harrow JL, Hayward A, Howe K, Hu ZL, Humphray SJ, Hunt T, Hornshoj H, Jeon JT, Jern P, Jones M, Jurka J, Kanamori H, Kapetanovic R, Kim J, Kim JH, Kim KW, Kim TH, Larson G, Lee K, Lee KT, Leggett R, Lewin HA, Li Y, Liu W, Loveland JE, Lu Y, Lunney JK, Ma J, Madsen O, Mann K, Matthews L, McLaren S, Morozumi T, Murtaugh MP, Narayan J, Nguyen DT, Ni P, Oh SJ, Onteru S, Panitz F, Park EW et al (2012) Analyses of pig genomes provide insight into porcine demography and evolution. Nature 491:393–398
Article CAS PubMed PubMed Central Google Scholar
Guo X, Schwartz JC, Murtaugh MP (2016) Genomic variation in the porcine immunoglobulin lambda variable region. Immunogenetics 68:285–293
Article CAS PubMed PubMed Central Google Scholar
Hammer SE, Ho CS, Ando A, Rogel-Gaillard C, Charles M, Tector M, Tector AJ, Lunney JK (2020) Importance of the major histocompatibility complex (swine leukocyte antigen) in swine health and biomedical research. Annu Rev Anim Biosci 8:171–191
Article CAS PubMed Google Scholar
Hansen K (1977) Identification of the chromosomes of the domestic pig (Sus scrofa domestica). An identification key and a landmark system. Ann Genet Sel Anim 9:517–526
CAS PubMed PubMed Central Google Scholar
Heckel T, Schmucki R, Berrera M, Ringshandl S, Badi L, Steiner G, Ravon M, Küng E, Kuhn B, Kratochwil NA, Schmitt G, Kiialainen A, Nowaczyk C, Daff H, Khan AP, Lekolool I, Pelle R, Okoth E, Bishop R, Daubenberger C, Ebeling M, Certa U (2015) Functional analysis and transcriptional output of the Göttingen minipig genome. BMC Genomics 16:932
Article PubMed PubMed Central Google Scholar
Holzer B, Rijal P, McNee A, Paudyal B, Martini V, Clark B, Manjegowda T, Salguero FJ, Bessell E, Schwartz JC, Moffat K, Pedrera M, Graham SP, Noble A, Bonnet-Di Placido M, La Ragione RM, Mwangi W, Beverley P, McCauley JW, Daniels RS, Hammond JA, Townsend AR, Tchilian E (2021) Protective porcine influenza virus-specific monoclonal antibodies recognize similar haemagglutinin epitopes as humans. PLoS Pathog 17:e1009330
Article CAS PubMed PubMed Central Google Scholar
Howe KL, Achuthan P, Allen J, Allen J, Alvarez-Jarreta J, Amode MR, Armean IM, Azov AG, Bennett R, Bhai J, Billis K, Boddu S, Charkhchi M, Cummins C, Da Rin Fioretto L, Davidson C, Dodiya K, El Houdaigui B, Fatima R, Gall A, Garcia Giron C, Grego T, Guijarro-Clarke C, Haggerty L, Hemrom A, Hourlier T, Izuogu OG, Juettemann T, Kaikala V, Kay M, Lavidas I, Le T, Lemos D, Gonzalez Martinez J, Marugán JC, Maurel T, McMahon AC, Mohanan S, Moore B, Muffato M, Oheh DN, Paraschas D, Parker A, Parton A, Prosovetskaia I, Sakthivel MP, Salam AIA, Schmitt BM, Schuilenburg H, Sheppard D, Steed E, Szpak M, Szuba M, Taylor K, Thormann A, Threadgold G, Walts B, Winterbottom A, Chakiachvili M, Chaubal A, De Silva N, Flint B, Frankish A, Hunt SE, GR II, Langridge N, Loveland JE, Martin FJ, Mudge JM, Morales J, Perry E, Ruffier M, Tate J, Thybert D, Trevanion SJ, Cunningham F, Yates AD, Zerbino DR, Flicek P (2021) Ensembl 2021. Nucleic Acids Res 49:D884-d891
Humphray SJ, Scott CE, Clark R, Marron B, Bender C, Camm N, Davis J, Jenks A, Noon A, Patel M, Sehra H, Yang F, Rogatcheva MB, Milan D, Chardon P, Rohrer G, Nonneman D, de Jong P, Meyers SN, Archibald A, Beever JE, Schook LB, Rogers J (2007) A high utility integrated map of the pig genome. Genome Biol 8:R139
Article PubMed PubMed Central Google Scholar
Ito T, Couceiro JN, Kelm S, Baum LG, Krauss S, Castrucci MR, Donatelli I, Kida H, Paulson JC, Webster RG, Kawaoka Y (1998) Molecular basis for the generation in pigs of influenza A viruses with pandemic potential. J Virol 72:7367–7373
Article CAS PubMed PubMed Central Google Scholar
Kalbfleisch TS, McKay SD, Murdoch BM, Adelson DL, Almansa-Villa D, Becker G, Beckett LM, Benítez-Galeano MJ, Biase F, Casey T, Chuong E, Clark E, Clarke S, Cockett N, Couldrey C, Davis BW, Elsik CG, Faraut T, Gao Y, Genet C, Grady P, Green J, Green R, Guan D, Hagen D, Hartley GA, Heaton M, Hoyt SJ, Huang W, Jarvis E, Kalleberg J, Khatib H, Koepfi K-P, Koltes J, Koren S, Kuehn C, Leeb T, Leonard A, Liu GE, Low WY, McConnell H, McRae K, Miga K, Mousel M, Neibergs H, Olagunju T, Pennell M, Petry B, Pewsner
留言 (0)