Ai H, Fang X, Yang B, Huang Z, Chen H, Mao L, Zhang F, Zhang L, Cui L, He W. 2015. Adaptation and possible ancient interspecies introgression in pigs identified by whole-genome sequencing. Nature Genetics, 47, 217-225.
Berger MJ, Wenger AM, Guturu H, Bejerano G. 2018. Independent erosion of conserved transcription factor binding sites points to shared hindlimb, vision and external testes loss in different mammals. Nucleic Acids Research, 46, 9299-9308.
Cho I-C, Park H-B, Ahn JS, Han S-H, Lee J-B, Lim H-T, Yoo C-K, Jung E-J, Kim D-H, Sun W-S. 2019. A functional regulatory variant of MYH3 influences muscle fiber-type composition and intramuscular fat content in pigs. PLoS Genetics, 15, e1008279.
Fang X, Mou Y, Huang Z, Li Y, Han L, Zhang Y, Feng Y, Chen Y, Jiang X, Zhao W. 2012. The sequence and analysis of a Chinese pig genome. Gigascience, 1, 1-11.
Feigin CY, Newton AH, Pask AJ. 2019. Widespread cis-regulatory convergence between the extinct Tasmanian tiger and gray wolf. Genome Research, 29, 1648-1658.
Groenen MAM, Archibald AL, Uenishi H, Tuggle CK, Takeuchi Y, Rothschild MF, Rogel-Gaillard C, Park C, Milan D, Megens H-J, Li S, Larkin DM, Kim H, Frantz LAF, 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 S-H, Chow W, Clark RC, Clee C, Crooijmans RPMA, Dawson HD, Dehais P, De Sapio F, Dibbits B, Drou N, Du Z-Q, Eversole K, Fadista J, Fairley S, Faraut T, Faulkner GJ, Fowler KE, Fredholm M, Fritz E, Gilbert JGR, Giuffra E, Gorodkin J, Griffin DK, Harrow JL, Hayward A, Howe K, Hu Z-L, Humphray SJ, Hunt T, Hornshøj H, Jeon J-T, Jern P, Jones M, Jurka J, Kanamori H, Kapetanovic R, Kim J, Kim J-H, Kim K-W, Kim T-H, Larson G, Lee K, Lee K-T, 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, Truong Nguyen D, Ni P, Oh S-J, Onteru S, Panitz F, Park E-W, Park H-S, Pascal G, Paudel Y, Perez-Enciso M, Ramirez-Gonzalez R, Reecy JM, Rodriguez-Zas S, Rohrer GA, Rund L, Sang Y, Schachtschneider K, Schraiber JG, Schwartz J, Scobie L, Scott C, Searle S, Servin B, Southey BR, Sperber G, Stadler P, Sweedler JV, Tafer H, Thomsen B, Wali R, Wang J, Wang J, White S, Xu X, Yerle M, Zhang G, Zhang J, Zhang J, Zhao S, Rogers J, Churcher C, Schook LB. 2012. Analyses of pig genomes provide insight into porcine demography and evolution. Nature, 491, 393-398.
Guo YM, Lee G, Archibald A, Haley CS. 2008. Quantitative trait loci for production traits in pigs: a combined analysis of two Meishan× Large White populations. Animal Genetics, 39, 486-495.
Hu X, Sun M, Chen Q, Zhao Y, Liang N, Wang S, Yin P, Yang Y, Lam SM, Zhang Q. 2023. Skeletal muscle-secreted DLPC orchestrates systemic energy homeostasis by enhancing adipose browning.
Kojima M, Nakajima I, Arakawa A, Mikawa S, Matsumoto T, Uenishi H, Nakamura Y, Taniguchi M. 2018. Differences in gene expression profiles for subcutaneous adipose, liver, and skeletal muscle tissues between Meishan and Landrace pigs with different backfat thicknesses. PLoS One, 13, e0204135.
Kvon EZ, Kamneva OK, Melo US, Barozzi I, Osterwalder M, Mannion BJ, Tissières V, Pickle CS, Plajzer-Frick I, Lee EA. 2016. Progressive loss of function in a limb enhancer during snake evolution. Cell, 167, 633-642. e611.
Längin M, Mayr T, Reichart B, Michel S, Buchholz S, Guethoff S, Dashkevich A, Baehr A, Egerer S, Bauer A. 2018. Consistent success in life-supporting porcine cardiac xenotransplantation. Nature, 564, 430-433.
Li M, Chen L, Tian S, Lin Y, Tang Q, Zhou X, Li D, Yeung CK, Che T, Jin L. 2017. Comprehensive variation discovery and recovery of missing sequence in the pig genome using multiple de novo assemblies. Genome Research, 27, 865-874.
Lingbeck JM, Trausch‐Azar JS, Ciechanover A, Schwartz AL. 2008. In vivo interactions of MyoD, Id1, and E2A proteins determined by acceptor photobleaching fluorescence resonance energy transfer. The FASEB Journal, 22, 1694-1701.
Liu Y, Fu Y, Yang Y, Yi G, Lian J, Xie B, Yao Y, Chen M, Niu Y, Liu L. 2022. Integration of multi-omics data reveals cis-regulatory variants that are associated with phenotypic differentiation of eastern from western pigs. Genetics Selection Evolution, 54, 62.
Lluís F, Ballestar E, Suelves M, Esteller M, & Muñoz‐Cánoves P. 2005. E47 phosphorylation by p38 MAPK promotes MyoD/E47 association and muscle‐specific gene transcription. The EMBO Journal, 24, 974-984.
Londhe P, Davie JK. 2011. Sequential association of myogenic regulatory factors and E proteins at muscle-specific genes. Skeletal Muscle, 1, 1-18.
Ma J, Yang J, Zhou L, Ren J, Liu X, Zhang H, Yang B, Zhang Z, Ma H, Xie X. 2014. A splice mutation in the PHKG1 gene causes high glycogen content and low meat quality in pig skeletal muscle. PLoS Genetics, 10, e1004710.
Naval-Sanchez M, Nguyen Q, Mcwilliam S, Porto-Neto LR, Tellam R, Vuocolo T, Reverter A, Perez-Enciso M, Brauning R, Clarke S. 2018. Sheep genome functional annotation reveals proximal regulatory elements contributed to the evolution of modern breeds. Nature Communications, 9, 859.
Prather RS. 2013. Pig genomics for biomedicine. Nature Biotechnology, 31, 122-123.
Roscito JG, Sameith K, Parra G, Langer BE, Petzold A, Moebius C, Bickle M, Rodrigues MT, Hiller M. 2018. Phenotype loss is associated with widespread divergence of the gene regulatory landscape in evolution. Nature Communications, 9, 4737.
Rothammer S, Kremer PV, Bernau M, Fernandez-Figares I, Pfister-Schär J, Medugorac I, Scholz AM. 2014. Genome-wide QTL mapping of nine body composition and bone mineral density traits in pigs. Genetics Selection Evolution, 46, 1-11.
Rudnicki MA, Schnegelsberg PN, Stead RH, Braun T, Arnold H-H, Jaenisch R. 1993. MyoD or Myf-5 is required for the formation of skeletal muscle. Cell, 75, 1351-1359.
Schiaffino S, Reggiani C. 1996. Molecular diversity of myofibrillar proteins: gene regulation and functional significance. Physiol Rev, 76, 371-423.
Shapiro MD, Marks ME, Peichel CL, Blackman BK, Nereng KS, Jónsson B, Schluter D, Kingsley DM. 2004. Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks. Nature, 428, 717-723.
Sun S, He H, Ma Y, Xu J, Chen G, Sun Y, Xiong X. 2020. Inactivation of ribosomal protein S27-like impairs DNA interstrand cross-link repair by destabilization of FANCD2 and FANCI. Cell Death Dis, 11, 852.
Tang Z, Li Y, Wan P, Li X, Zhao S, Liu B, Fan B, Zhu M, Yu M, Li K. 2007. LongSAGE analysis of skeletal muscle at three prenatal stages in Tongcheng and Landrace pigs. Genome Biology, 8, 1-18.
Van Laere A-S, Nguyen M, Braunschweig M, Nezer C, Collette C, Moreau L, Archibald AL, Haley CS, Buys N, Tally M. 2003. A regulatory mutation in IGF2 causes a major QTL effect on muscle growth in the pig. Nature, 425, 832-836.
Wang L, Zhang L, Yan H, Liu X, Li N, Liang J, Pu L, Zhang Y, Shi H, Zhao K. 2014. Genome-wide association studies identify the loci for 5 exterior traits in a Large White× Minzhu pig population. PLoS One, 9, e103766.
Weintraub H, Davis R, Tapscott S, Thayer M, Krause M, Benezra R, Blackwell TK, Turner D, Rupp R, Hollenberg S. 1991. The myoD gene family: nodal point during specification of the muscle cell lineage. Science, 251, 761-766.
Wittkopp PJ, Kalay G. 2012. Cis-regulatory elements: molecular mechanisms and evolutionary processes underlying divergence. Nature Reviews Genetics, 13, 59-69.
Xie H-B, Wang L-G, Fan C-Y, Zhang L-C, Adeola AC, Yin X, Zeng Z-B, Wang L-X, Zhang Y-P. 2021. Genetic Architecture Underlying Nascent Speciation—The Evolution of Eurasian Pigs under Domestication. Molecular Biology and Evolution, 38, 3556-3566.
Xiong X, Zhao Y, He H, Sun Y. 2011. Ribosomal protein S27-like and S27 interplay with p53-MDM2 axis as a target, a substrate and a regulator. Oncogene, 30, 1798-1811.
Xiong X, Zhao Y, Tang F, Wei D, Thomas D, Wang X, Liu Y, Zheng P, Sun Y. 2014. Ribosomal protein S27-like is a physiological regulator of p53 that suppresses genomic instability and tumorigenesis. Elife, 3, e02236.
Yan S, Tu Z, Liu Z, Fan N, Yang H, Yang S, Yang W, Zhao Y, Ouyang Z, Lai C. 2018. A huntingtin knockin pig model recapitulates features of selective neurodegeneration in Huntington’s disease. Cell, 173, 989-1002. e1013.
Yang Y-l, Yan L, Liang R-y, Rong Z, Hong A, Mu Y-l, Yang S-l, Kui L, Tang Z-l. 2014. Dynamic expression of microRNA-127 during porcine prenatal and postnatal skeletal muscle development. Journal of Integrative Agriculture, 13, 1331-1339.
Yang Y, Sun W, Wang R, Lei C, Zhou R, Tang Z, Li K. 2015. Wnt antagonist, secreted frizzled-related protein 1, is involved in prenatal skeletal muscle development and is a target of miRNA-1/206 in pigs. BMC Mol Biol, 16, 4.
Yang Y, Yan J, Fan X, Chen J, Wang Z, Liu X, Yi G, Liu Y, Niu Y, Zhang L. 2021. The genome variation and developmental transcriptome maps reveal genetic differentiation of skeletal muscle in pigs. PLoS Genetics, 17, e1009910.
Yang Y, Zhu M, Fan X, Yao Y, Yan J, Tang Y, Liu S, Li K, Tang Z. 2019. Developmental atlas of the RNA editome in Sus scrofa skeletal muscle. DNA Res, 26, 261-272.
Yao Y, Wang Z, Chen Y, Liu L, Wang L, Yi G, Yang Y, Wang D, Li K, Tang Z. 2023. Single-cell analysis reveals the lncRNA-MEG3/miRNA-133a-3p/PRRT2 axis regulates skeletal muscle regeneration and myogenesis. Genes & Diseases, 10, 359.
Zeng M, Wang B, Liu L, Yang Y, Tang Z. 2024. Genome-wide association study identifies 12 new genetic loci associated with growth traits in pigs. Journal of Integrative Agriculture, 23, 217-227.
Zhang L, Huang Y, Wang M, Guo Y, Liang J, Yang X, Qi W, Wu Y, Si J, & Zhu S. 2019. Development and genome sequencing of a laboratory-inbred miniature pig facilitates study of human diabetic disease. Iscience, 19, 162-176.
Zhao P, Yu Y, Feng W, Du H, Yu J, Kang H, Zheng X, Wang Z, Liu GE, & Ernst CW. 2018. Evidence of evolutionary history and selective sweeps in the genome of Meishan pig reveals its genetic and phenotypic characterization. Gigascience, 7, giy058.
Zhou R, Li ST, Yao WY, Xie CD, Chen Z, Zeng ZJ, Wang D, Xu K, Shen ZJ, & Mu Y. 2021. The Meishan pig genome reveals structural variation‐mediated gene expression and phenotypic divergence underlying Asian pig domestication. Molecular Ecology Resources, 21, 2077-2092.
|