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Genetics

Three indel variants in chicken LPIN1 exon 6/flanking region are associated with performance and carcass traits

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Pages 621-630 | Accepted 12 Sep 2015, Published online: 13 Jan 2016

REFERENCES

  • Chen, W., Guo, Y.M., Huang, Y.Q., Shi, Y.H., Zhang, C.X. & Wang, J.W. (2012) Effect of energy restriction on growth, slaughter performance, serum biochemical parameters and Lpin2/WDTC1 mRNA expression of broilers in the later phase. The Journal of Poultry Science, 49: 12–19. doi:10.2141/jpsa.011001
  • Choi, Y., Sims, G.E., Murphy, S., Miller, J.R. & Chan, A.P. (2012) Predicting the functional effect of amino acid substitutions and indels. PLoS ONE, 7: e46688.
  • Croce, M.A., Eagon, J.C., Lariviere, L.L., Korenblat, K.M., Klein, S. & Finck, B.N. (2007) Hepatic lipin 1beta expression is diminished in insulin-resistant obese subjects and is reactivated by marked weight loss. Diabetes, 56: 2395–2399. doi:10.2337/db07-0480
  • Donkor, J., Sariahmetoglu, M., Dewald, J., Brindley, D.N. & Reue, K. (2007) Three mammalian lipins act as phosphatidate phosphatases with distinct tissue expression patterns. Journal of Biological Chemistry, 282: 3450–3457. doi:10.1074/jbc.M610745200
  • Dwyer, J.R., Donkor, J., Zhang, P., Csaki, L.S., Vergnes, L., Lee, J.M., Dewald, J., Brindley, D.N., Atti, E., Tetradis, S., Yoshinaga, Y., De Jong, P.J., Fong, L.G., Young, S.G. & Reue, K. (2012) Mouse lipin-1 and lipin-2 cooperate to maintain glycerolipid homeostasis in liver and aging cerebellum. Proceedings of the National Academy of Sciences of the United States of America, 109: E2486–95. doi:10.1073/pnas.1205221109
  • Falconer, D.S. & Mackay, T.F. (1996) Introduction to Quantitative Genetics. 4th edn. (Harlow, Essex, Longmans Green).
  • Fass (2010) Guide for the Care and Use of Agricultural Animals in Research and Teaching. 3rd ed. Champaign-Urbana, IL, USA. http://www.fass.org/docs/agguide3rd/Ag_Guide_3rd_ed.pdf.
  • Hamada, M., Kiryu, H., Sato, K., Mituyama, T. & Asai, K. (2009) Prediction of RNA secondary structure using generalized centroid estimators. Bioinformatics, 25: 465–473. doi:10.1093/bioinformatics/btn601
  • Han, G.S. & Carman, G.M. (2010) Characterization of the human LPIN1-encoded phosphatidate phosphatase isoforms. Journal of Biological Chemistry, 285: 14628–14638. doi:10.1074/jbc.M110.117747
  • Han, R., Li, Z., Li, M., Li, J., Lan, X., Sun, G., Kang, X. & Chen, H. (2011) Novel 9-bp indel in visfatin gene and its associations with chicken growth. British Poultry Science, 52: 52–57. doi:10.1080/00071668.2010.537310
  • Han, R., Wei, Y., Kang, X., Chen, H., Sun, G., Li, G., Bai, Y., Tian, Y. & Huang, Y. (2012) Novel SNPs in the PRDM16 gene and their associations with performance traits in chickens. Molecular Biology Reports, 39: 3153–3160. doi:10.1007/s11033-011-1081-y
  • Hodgkinson, A. & Eyre-Walker, A. (2010) Human triallelic sites: evidence for a new mutational mechanism? Genetics, 184: 233–241. doi:10.1534/genetics.109.110510
  • Hu, J. & Ng, P.C. (2012) Predicting the effects of frameshifting indels. Genome Biology, 13: R9.
  • Kelley, L.A. & Sternberg, M.J. (2009) Protein structure prediction on the Web: a case study using the Phyre server. Nature Protocols, 4: 363–371. doi:10.1038/nprot.2009.2
  • Li, S., Chen, W., Kang, X., Han, R., Sun, G. & Huang, Y. (2013) Distinct tissue expression profiles of chicken Lpin1-alpha/beta isoforms and the effect of the variation on muscle fiber traits. Gene, 515: 281–290. doi:10.1016/j.gene.2012.11.075
  • Li, S.Y., Zhang, J.H., Chen, W., Huang, Y.Q., Sun, G.R., Han, R.L. & Kang, X.T. (2012) Genetic variation analysis of 3′-UTR region of chicken Lpin1 gene and the potential effect on miRNA binding sites. Scientia Agricultura Sinica (in Chinese), 45: 1613–1620.
  • Liu, B.H. (1998) Statistical Genomics: Linkage, Mapping, and QTL Analysis. (Boca Raton, CRC Press).
  • Liu, G.H. & Gerace, L. (2009) Sumoylation regulates nuclear localization of lipin-1alpha in neuronal cells. PLoS ONE, 4: e7031. doi:10.1371/journal.pone.0007031
  • Loos, R.J., Rankinen, T., Perusse, L., Tremblay, A., Despres, J.P. & Bouchard, C. (2007) Association of lipin 1 gene polymorphisms with measures of energy and glucose metabolism. Obesity ( Silver Spring), 15: 2723–2732. doi:10.1038/oby.2007.324
  • Miranda, M., Escot, X., Alcaide, M.J., Solano, E., Ceperuelo-Mallafr, V., Hernández, P., Wabitsch, M. & Vendrell, J. (2010) Lpin1 in human visceral and subcutaneous adipose tissue: similar levels but different associations with lipogenic and lipolytic genes. American Journal of Physiology: Endocrinology and Metabolism, 299: E308.
  • Mitra, M.S., Chen, Z., Ren, H., Harris, T.E., Chambers, K.T., Hall, A.M., Nadra, K., Klein, S., Chrast, R., Su, X., Morris, A.J. & Finck, B.N. (2013) Mice with an adipocyte-specific lipin 1 separation-of-function allele reveal unexpected roles for phosphatidic acid in metabolic regulation. Proceedings of the National Academy of Sciences of the United States of America, 110: 642–647. doi:10.1073/pnas.1213493110
  • Mlinar, B., Pfeifer, M., Vrtacnik-Bokal, E., Jensterle, M. & Marc, J. (2008) Decreased lipin 1 beta expression in visceral adipose tissue is associated with insulin resistance in polycystic ovary syndrome. European Journal of Endocrinology, 159: 833–839. doi:10.1530/EJE-08-0387
  • Peterfy, M., Phan, J. & Reue, K. (2005) Alternatively spliced lipin isoforms exhibit distinct expression pattern, subcellular localization, and role in adipogenesis. Journal of Biological Chemistry, 280: 32883–32889. doi:10.1074/jbc.M503885200
  • Peterfy, M., Phan, J., Xu, P. & Reue, K. (2001) Lipodystrophy in the fld mouse results from mutation of a new gene encoding a nuclear protein, lipin. Nature Genetics, 27: 121–124. doi:10.1038/83685
  • Reue, K. & Dwyer, J.R. (2009) Lipin proteins and metabolic homeostasis. Journal of Lipid Research, 50(Suppl): S109–14. doi:10.1194/jlr.R800052-JLR200
  • Reue, K., Xu, P., Wang, X.P. & Slavin, B.G. (2000) Adipose tissue deficiency, glucose intolerance, and increased atherosclerosis result from mutation in the mouse fatty liver dystrophy (fld) gene. Journal of Lipid Research, 41: 1067–1076.
  • Smith, P.J., Zhang, C., Wang, J., Chew, S.L., Zhang, M.Q. & Krainer, A.R. (2006) An increased specificity score matrix for the prediction of SF2/ASF-specific exonic splicing enhancers. Human Molecular Genetics, 15: 2490–2508. doi:10.1093/hmg/ddl171
  • Suviolahti, E., Reue, K., Cantor, R.M., Phan, J., Gentile, M., Naukkarinen, J., Soro-Paavonen, A., Oksanen, L., Kaprio, J. & Rissanen, A. (2006) Cross-species analyses implicate Lipin 1 involvement in human glucose metabolism. Human Molecular Genetics, 15: 377. doi:10.1093/hmg/ddi448
  • Tolkacheva, N.V., Levachev, M.M., Medvedev, F.A., Kulakova, S.N. & Mazurets, A.F. (1989) Transport of fatty acids and products of their peroxidation by serum albumin in ischemic and non-coronary injury of the myocardium. Voprosy Meditsinskoi Khimii, 35: 89–92.
  • Van Harmelen, V., Ryden, M., Sjolin, E. & Hoffstedt, J. (2007) A role of lipin in human obesity and insulin resistance: relation to adipocyte glucose transport and GLUT4 expression. Journal of Lipid Research, 48: 201–206. doi:10.1194/jlr.M600272-JLR200
  • Wang, H., Zhang, J., Qiu, W., Han, G.S., Carman, G.M. & Adeli, K. (2011) Lipin-1gamma isoform is a novel lipid droplet-associated protein highly expressed in the brain. FEBS Letters, 585: 1979–1984. doi:10.1016/j.febslet.2011.05.035
  • Wang, X.K., Chen, W., Huang, Y.Q., Kang, X.T., Wang, J.P., Li, G.X. & Jiang, R.R. (2012) Identification of the transcript isoforms and expression characteristics for chicken Lpin1. Animal, 6: 1897–1903. doi:10.1017/S1751731112001358
  • Wong, G.K.S., Liu, B., Wang, J., Zhang, Y., Yang, X., Zhang, Z., Meng, Q., Zhou, J., Li, D. & Zhang, J. (2004) A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Nature, 432: 717–722.
  • Yao-Borengasser, A., Rasouli, N., Varma, V., Miles, L.M., Phanavanh, B., Starks, T.N., Phan, J., Spencer 3RD, H.J., Mcgehee JNR., R.E., Reue, K. & Kern, P.A. (2006) Lipin expression is attenuated in adipose tissue of insulin-resistant human subjects and increases with peroxisome proliferator-activated receptor gamma activation. Diabetes, 55: 2811–2818. doi:10.2337/db05-1688
  • Yong, Y. & Lin, H. (2005) SHEsis, a powerful software platform for analyses of linkage disequilibrium, haplotype construction, and genetic association at polymorphism loci. Cell Research, 15: 97–98. doi:10.1038/sj.cr.7290272
  • Zha, L., Yun, L., Chen, P., Luo, H., Yan, J. & Hou, Y. (2012) Exploring of tri-allelic SNPs using pyrosequencing and the SNaPshot methods for forensic application. Electrophoresis, 33: 841–848. doi:10.1002/elps.v33.5
  • Zhang, R., Jiang, F., Hu, C., Yu, W., Wang, J., Wang, C., Ma, X., Tang, S., Bao, Y., Xiang, K. & Jia, W. (2013a) Genetic variants of LPIN1 indicate an association with Type 2 diabetes mellitus in a Chinese population. Diabetic Medicine, 30: 118–122. doi:10.1111/dme.2012.30.issue-1
  • Zhang, S., Li, S., Chen, W., Li, W. & Huang, Y. (2013b) A single-nucleotide polymorphism in the 3ʹ untranslated region of the LPIN1 gene and association analysis with performance traits in chicken. British Poultry Science, 54: 312–318.

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