Analysis of single nucleotide polymorphisms in major and candidate genes for production traits in nero siciliano pig breed;Analisi di alcune mutazioni puntiformi in geni maggiori e geni candidati per caratteri produttivi nella razza suina nero siciliano

Italian Journal of Animal Science

Volumn 3, Issue 1, 2004, Pages 19-29

  Russo, Vincenzo ^a   Fontanesi, Luca ^a   Davoli, Roberta ^a   Chiofalo, Luigi ^b   Liotta, Luigi ^b   Zumbo, Alessandro ^b  

^a UNIVERSITY OF BOLOGNA   (Italy)

^b UNIVERSITY OF MESSINA   (Italy)

Author keywords

Allele frequency; Genetic diversity; Nero siciliano; Pig breeds; SNP

Indexed keywords

EID: 34547826160     PISSN: 15944077     EISSN: None     Source Type: Journal    
DOI: 10.4081/ijas.2004.19     Document Type: Article

References (53)

1. ALLEN, D. L., HARRISON, B. C., SARTORIUS, C., BYRNES, W. C., LEINWAND, L. A., 2001. Mutation of the IIB myosin heavy chain gene results in muscle fiber loss and compensatory hypertrophy. Am. J. Physiol. - Cell Physiol. 280:C637-C645.
2. ANDERSSON, L., HALEY, C. S., ELLEGREN, H., KNOTT, S. A., JOHANSSON, M., ANDERSSON, K., ANDERSSON-EKLUND, L., EDFORSL-ILJA, I., FREDHOLM, M., HANSSON, I., HÅKANSSON, J., LUNDSTRÖM, K., 1994. Genetic mapping of quantitative trait loci for growth and fatness in pigs. Science. 263:1771-1774.
3. BURSTIN, J., CHARCOSSET, A., 1997. Relationship between phenotypic and marker distances: theoretical and experimental investigations. Heredity. 79:477-483.
4. CHICOLI, N., 1870. Riproduzione, allevamento e miglioramento degli animali domestici in Sicilia. Stamperia di G. 4. Lorsnaider, Palermo, Italy.
5. CHIOFALO, L., LIOTTA, L., 2003. Suino nero, una perla in terra siciliana. Suinicoltura. 44 (10):79-86.
6. CIOBANU, D. C., DAY, A. E., NAGY, A., WALES, R., ROTHSCHILD, M. F., PLASTOW, G.S., 2001. Genetic variation in two conserved local Romanian pig breeds using type 1 DNA markers. Genet. Sel. Evol. 33:417-432.
7. DAVOLI, R., FONTANESI, L., CAGNAZZO, M., SCOTTI, E., BUTTAZZONI, L., YERLE, M., RUSSO, V., 2003. Identification of SNPs, mapping and analysis of allele frequencies in two candidate genes for meat production traits: the porcine myosin heavy chain 2B (MYH4) and the skeletal muscle myosin regulatory light chain 2 (HUMMLC2B). Anim. Genet. 34:221-225.
8. DAVOLI, R., FONTANESI, L., ZAMBONELLI, P., BIGI, D., GELLIN, J., YERLE, M., MILC, J., BRAGLIA, S., CENCI, V., CAGNAZZO, M., RUSSO, V., 2002. Isolation of porcine expressed sequence tags for the construction of a first genomic transcript map of the skeletal muscle in pig. Anim. Genet. 33:3-18.
9. DAVOLI, R., ZAMBONELLI, P., BIGI, D., FONTANESI, L., RUSSO, V., 1999. Analysis of expressed sequence tags of porcine skeletal muscle. Gene. 233:181-188.
10. DAVOLI, R., ZAMBONELLI, P., FONTANESI, L., BIGI, D., DAL'LOLIO, S., COSTELLI, M. B., COSTOSI, E., FARNETTI, E., CAVUTO, S., RUSSO, V., 1996. Utilizzo di marcatori a livello del DNA per l'analisi di variabilità genetica nelle razze suine. Zoot. Nutr. Anim. 22:367-378.
11. FAELLI, F., 1928. Razze bovine, equine, suine, ovine, caprine. Hoepli, Milano, Italy.
12. FONTANESI, L., DAVOLI, R., MILC, J., RUSSO, V., 2001. The porcine sarcolipin (SLN) gene: identification of an SNP and linkage mapping to chromosome 9. Anim. Genet. 32:109-110.
13. FONTANESI, L., DAVOLI, R., ZIJLSTRA, C., BOSMA, A. A., RUSSO, V., 1999. Mapping of the Na+, K+-ATPase subunit α 2 (ATP1A2) and muscle phosphofructokinase (PFKM) genes in pig by somatic cell hybrid analysis. Anim. Genet. 30:57-59.
14. FUJII, J., OTSU, K., ZORZATO, F., DE LEON, S., KHANNA, V. K., WEILER, J. E., O'BRIEN, P. J., MAC LENNAN, D. H., 1991. Identification of a mutation in porcine ryanodine receptor associated with malignant hyperthermia. Science. 253:448-451.
15. GIUFFRA, E., KIJAS, J.M. H., AMARGER, V., CARLBORG, Ö., JEON, J. T., ANDERSSON, L., 2000. The origin of the domestic pig: independent domestication and subsequent introgression. Genetics. 154:1785-1791.
16. GOUDET, J, 1995. FSTAT (vers. 1.2): a computer program to calculate F-statistics. J. Hered. 86: 485-486.
17. GUO, S. W., THOMPSON, E. A., 1992. Performing the exact test of Hardy-Weinberg proportion for multiple alleles. Biometrics. 48:361-372.
18. GUSTAFSSON, A. C., KIJAS, J. M. H., ALDERBORN, A., UHLÉN, M., ANDERSSON, L., LUNDEBERG, J., 2001. Screening and scanning of single nucleotide polymorphisms in the pig melanocortin 1 receptor gene (MC1R) by pyrosequencing. Anim. Biotech. 12:145-153.
19. JACKSON, I. J., 1997. Homologous pigmentation mutations in human, mouse and other model organisms. Hum. Mol. Genet. 6:1613-1624.
20. KIJAS, J. M. H., MOLLER, M., PLASTOW, G., ANDERSSON, L., 2001. A frameshift mutation in MC1R and high frequency of somatic reversions cause black spotting in pigs. Genetics. 158:779-785.
21. KIJAS, J. M. H., WALES, R., TÖRNSTEN, A., CHARDON, P., MOLLER, M., ANDERSSON, L., 1998. Melanocortin receptor 1 (MC1R) mutations and coat color in pigs. Genetics. 150:1177-1185.
22. KLUNGLAND, H., VÅGE, D. I., GOM-EZRAYA, L., ADALSTEINSSON, S., LIEN, S., 1995. The role of melanocyte-stimulating hormone (MSH) receptor in bovine coat color determination. Mamm. Genome. 6:636-639.
23. LABROUE, F., LUQUET, M., BUSSIÈRE, J. F., GLODEK, P., WEMHEUER, W., GANDINI, G., PIZZI, F., DELGADO, J. V., POTO, A., OLLIVIER, L., 2000. La cryoconservation des races locales porcines menacées de disparition: la situation en France, en Italie et en Espagne. Journées Rech. Porcine en France. 32:419-427.
24. LIOTTA, L., CHIOFALO, V., ZUMBO, A., CHIOFALO, L., 2002. "Nero Sicilano" pigs reared in plein air and lived in extensive condition: data on tissue separation of fresh ham and shoulder. Proc. 48th Int. Congr. Meat Sci. Technol., Roma, Italy, 2: 694-695.
25. MALEK, M., DEKKERS, J. C. M., LEE, H. K., BAAS, T. J., ROTHSCHILD, M. F., 2001. A molecular genome scan analysis to identify chromosomal regions influencing economic traits in the pig. I. Growth and body composition. Mamm. Genome. 12:630-636.
26. MILLIGAN, B. G., LEEBENS-MACK, J., STRAND, A. E., 1994. Conservation genetics: beyond the maintenance of marker diversity. Mol. Ecol. 3:423-435.
27. MONTANARO, G., 1939. Per il miglioramento della suinicoltura siciliana. Critica Zootecnica 8:303-319. Ed. U. Maggi, Roma, Italy.
28. NEWTON, J. M., WILKIE, A. L., HE, L., JORDAN, S. A., Metallinos, D. L., HOLMES, N. G., JACKSON, I. J., BARSH, G. S., 2000. Melanocortin 1 receptor variation in the domestic dog. Mamm. Genome. 11:24-30.
29. OLLIVIER, L., CARITEZ, J. C., FOULLEY, J. L., LEGAULT, C., SANCRISTOBA-LGAUDY, M., LABROUE, F., AMIGUES, Y., BRANDT, H., CLEMENS, R., GLODEK, P., LUDEWIG, P., KALTWASSER, C., MEYER, J. -N., DAVOLI, R., GANDINI, G., MARTINEZ, A., VEGAPLA, J. L., DELGADO, J. V., 2001. Evaluation of genetic diversity from immunological, biochemical and DNA polymorphisms. In: L. OLLIVIER, F. LABROUE, P. GLODEK, G. GANDINI, J. V. DELGADO (Eds.) Characterization and conservation of pig genetic resources in Europe. EAAP Publ. N. 104, Wageningen Pers, Wageningen, The Netherlands, pp 87-97.
30. OTA, T., 1993. DISPAN: Genetic Distance and Phylogenetic Analysis. Pennsylvania State University, University Park, PA, USA.
31. OTT, J., 1997. Documentation to LINKAGE UTILITY programs. Rockefeller University, New York, NY, USA.
32. PAROLARI, G., VIRGILI, R., SCHIVAZAPPA, C., 1994. Relationship between cathepsin B activity and compositional parameters in dry-cured hams of normal and defective texture. Meat Sci. 38:117-122.
33. PINO, N., 1947. Il patrimonio suino della Sicilia e la sua etnologia alla luce di ricerche biometriche su alcuni caratteri razziali. Zootecnia e Veterinaria, La fecondazione artificiale. II. 1:1-15.
34. PORTER, V., 1993. Pigs: A Handbook to the Breeds of the World. Comstock Publishing Associates, Cornell University Press, Ithaca, NY, USA.
35. RAYMOND, M., ROUSSET, F, 1995. GENEPOP (version 1.2): population genetics software for exact tests and ecumenicism. J. Hered. 86:248-249.
36. RICE, W. R., 1989. Analyzing tables of statistical tests. Evolution. 43:223-225.
37. ROBBINS, L. S., NADEAU, J. H., JOHNSON, K. R., KELLY, M. A., ROSELLI-REHFUSS, L., BAACK, E., MOUNTJOY, K. G., CONE, R. D., 1993. Pigmentation phenotypes of variant Extension locus alleles result from point mutations that alter MSH receptor function. Cell. 72:827-834.
38. ROHRER, G. A., KEELE, J. W., 1998. Identification of quantitative trait loci affecting carcass composition in swine: I. Fat deposition traits. J. Anim. Sci. 76:2247-2254.
39. ROTHSCHILD, M. F., JACOBSON, C., VASKE, D., TUGGLE, C. K., WANG, L., SHORT, T., SASAKI, S., ECKARDT, G.R., VINCENT, A., MCLAREN, D. G., SOUTHWOOD, O., VAN DER STEEN, H., MILEHAM, A., PLASTOW, G. S., 1996. The estrogen receptor locus is associated with a major gene influencing litter size in pigs. Proc. Natl. Acad. Sci. USA. 93:201-205.
40. RUANE, J., 1999. A critical review of the value of genetic distance studies in conservation of animal genetic resources. J. Anim. Breed. Genet. 116:317-323.
41. RUSSO, V., DAVOLI, R., FONTANESI, L., ZAMBONELLI, P., NANNI COSTA, L., LO FIEGO, D. P., CAGNAZZO, M., MILC, J., 2000. Ricerca di marcatori in geni candidati per il miglioramento della produzione e della qualità della carne suina. pp 40-56 in Proc. Workshop Identificazione e utilizzazione di geni che influenzano la variabilità delle caratteristiche di interesse economico negli animali domestici, Pisa, Italy, Ed. Università di Pisa, Italy.
42. RUSSO, V., DAVOLI, R., NANNI COSTA, L., FONTANESI, L., BAIOCCO, C., BUTTAZZONI, L., GALLI, S., VIRGILI, R., 2003. Association of the CTSB, CTSF and CSTB genes with growth, carcass and meat quality traits in heavy pigs. Ital. J. Anim. Sci. 2 (Suppl. 1):67-69.
43. RUSSO, V., DAVOLI, R., TALIAVINI, J., DALL'OLIO, S., BIGI, D., COSTOSI, E., COSCELLI, M. B., FONTANESI, L., 1993. Identificazione del genotipo dei suini per la sensibilità all'alotano a livello di DNA mediante PCR. Zoot. Nutr. Anim. 19:89-93.
44. RUSSO, V., FONTANESI, L., DAVOLI, R., LO FIEGO, D. P., DALL'OLIO, S., 1999. SSCP in a region of porcine chromosome 4 containing QTLs for carcass traits. pp. 128-130 in Proc. 13th Nat. Congr. ASPA, Piacenza, Italy.
45. RUSSO, V., FONTANESI, L., DAVOLI, R., NANNI COSTA, L., CAGNAZZO, M., BUTTAZZONI, L., VIRGILI, R., YERLE, M., 2002. Investigation of candidate genes for meat quality in dry-cured ham production: the porcine cathepsin B (CTSB) and cystatin B (CSTB) genes. Anim. Genet. 33:123-131.
46. SAMBROOK, J., FRITSCH, E. F., MANIATIS, T., 1989. Molecular Cloning: A Laboratory Manual. 2nd ed. Cold Spring Harbor Laboratory Press, NY, USA.
47. SANCRISTOBAL, M., CHEVALET, C., HALEY, C.S., RUSSEL L., PLASTOW, G., SIGGENS, K., BAGGA, M., GOENEN, M.A.M., AMIGUES, Y., HAMMOND, K., LAVAL, G., BOSCHER, M. -Y., MILAN D., LAW, A., FIMLAND, E., DAVOLI, R., RUSSO, V., GANDINI, G., ARCHIBALD, A., DELGADO, J. V., RAMOS, M., DÉSAUTÉS, C., ALDERSON, L., GLODEK, P., MEYER, J. -N., FOULLEY, J. -L., OLLIVIER, L., 2002. Genetic diversity in pigs: Preliminary results on 58 European breeds and lines. Proc. 7th Wold Congr. Genet. Appl. Livest. Prod., Moltpellier, France, 33:525-528.
48. SHORT, T. H., ROTHSCHILD, M. F., SOUTHWOOD, O. I., MCLAREN, D. G., DE VRIES, A., VAN DER STEEN, H., ECKARDT, G. R., TUGGLE, C. K., HELM, J., VASKE, D. A., MILEHAM, A. J., PLASTOW, G. S., 1997. Effect of the Estrogen Receptor locus on reproduction and production traits in four commercial pig lines. J. Anim. Sci. 75:3138-3142.
49. WADA, Y., AKITA, T., AWATA, T., FURUKAWA, T., SUGAI, N., INAGE, Y., ISHII, K., ITO, Y., KOBAYASHI, E., KUSUMOTO, H., MATSUMOTO, T., MIKAWA, S., MIYAKE, M., MURASE, A., SHIMANUKI, S., SUGIYAMA, T., UCHIDA, Y., YANAI, S., YASUE, H., 2000. Quantitative trait loci (QTL) analysis in a Meishan x Göttingen cross population. Anim. Genet. 31:376-384.
50. WALLING, G. A., ARCHIBALD, A. L., CATTERMOLE, J. A., DOWNING, A. C., FINLAYSON, H. A., NICHOLSON, D., VISSCHER, P. M., WALKER, C. A., HALEy, C. S., 1998. Mapping of quantitative trait loci on porcine chromosome 4. Anim. Genet. 29:415-424.
51. WALLING, G. A., VISSCHER, P. M., ANDERSSON, L., ROTHSCHILD, M. F., WANG, L., MOSER, G., GROENEN, M. A. M., BIDANEL, J. -P., CEPICA, S., ARCHIBALD, A.L., GELDERMANN, H., DE KONING, D. J., MILAN, D., HALEY, C. S., 2000. Combined analyses of data from quantitative trait loci mapping studies: chromosome 4 effects on porcine growth and fatness. Genetics. 155:1369-1378.
52. WEIR, B. S., COCKERHAM, C. C., 1984. Estimating Fstatistics for the analysis of population structure. Evolution. 38:1358-1370.
53. ZUMBO, A., CHIOFALO, B., LIOTTA, L., CHIOFALO, L., 2002. Physical characteristics of the meat of Nero Siciliano pigs living in extensive conditions. Proc. 48th Int. Congr. Meat Sci. Technol., Roma, Italy, 2:738-739.