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Shen X, Wang Y, Cui C, Zhao X, Li D, Zhu Q, Jiang X, Yang C, Qiu M, Yu C, Li Q, Du H, Zhang Z, Yin H. Detection of Snps in the Melanocortin 1-Receptor (MC1R) and Its Association with Shank Color Trait in Hs Chicken. BRAZILIAN JOURNAL OF POULTRY SCIENCE 2019. [DOI: 10.1590/1806-9061-2018-0845] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Affiliation(s)
- X Shen
- Sichuan Agricultural University, China
| | - Y Wang
- Sichuan Agricultural University, China
| | - C Cui
- Sichuan Agricultural University, China
| | - X Zhao
- Sichuan Agricultural University, China
| | - D Li
- Sichuan Agricultural University, China
| | - Q Zhu
- Sichuan Agricultural University, China
| | - X Jiang
- Sichuan Animal Science Academy, China
| | - C Yang
- Sichuan Animal Science Academy, China
| | - M Qiu
- Sichuan Animal Science Academy, China
| | - C Yu
- Sichuan Animal Science Academy, China
| | - Q Li
- Sichuan Animal Science Academy, China
| | - H Du
- Sichuan Animal Science Academy, China
| | - Z Zhang
- Sichuan Animal Science Academy, China
| | - H Yin
- Sichuan Agricultural University, China
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Cui C, Ye F, Li Y, Yin H, Ye M, He L, Zhao X, Xu H, Li D, Qiu M, Zhu Q, Wang Y. Detection of SNPs in the BMP6 Gene and Their Association with Carcass and Bone Traits in Chicken. BRAZILIAN JOURNAL OF POULTRY SCIENCE 2017. [DOI: 10.1590/1806-9061-2017-0555] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Affiliation(s)
- C Cui
- Sichuan Agricultural University, China
| | - F Ye
- Sichuan Agricultural University, China
| | - Y Li
- Sichuan Agricultural University, China
| | - H Yin
- Sichuan Agricultural University, China
| | - M Ye
- Sichuan Agricultural University, China
| | - L He
- Sichuan Agricultural University, China
| | - X Zhao
- Sichuan Agricultural University, China
| | - H Xu
- Sichuan Agricultural University, China
| | - D Li
- Sichuan Agricultural University, China
| | - M Qiu
- Sichuan Agricultural University, China
| | - Q Zhu
- Sichuan Agricultural University, China
| | - Y Wang
- Sichuan Agricultural University, China
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3
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Abstract
Some mutations (or 'major genes') have a desirable effect in heterozygous carriers but an undesirable effect in homozygous carriers. When these mutations affect a trait of significant economic importance, their eradication, depending on their effect and frequency, may be counterproductive. This is especially the case of major genes affecting the ovulation rate and thus the prolificacy in meat sheep populations. To manage such situations, a mating design based on the major genotypes of reproducers has to be optimized. Both the effect of the major gene and the cost of genotyping candidates at this locus influence the expected genetic progress and profitability of the breeding plan. The aim of this study was to determine the optimal combination of matings that maximizes profitability at the level of the whole population (nucleus + commercial flocks). A deterministic model was developed and, using sequential quadratic programming methodology, the optimal strategy (optimal combination of matings) that maximized the economic gain achieved by the population across a range of genotype effects and genotyping costs was determined. The optimal strategy was compared with simpler and more practical strategies based on a limited number of parental genotype mating types. Depending on the genotype effect and genotyping costs, the optimal strategy varied, such that either the heterozygous frequency and/or polygenic gain was maximized with a large number of animals genotyped, or when genotyping costs were higher, the optimization led to lower heterozygous frequency and/or polygenic gain with fewer animals genotyped. Comparisons showed that some simpler strategies were close to the optimal strategy. An overlapping model was then derived as an application of the real case of the French Lacaune meat sheep OVI-TEST breeding program. Results showed that a practical strategy based on mating non-carriers to heterozygous carriers was only slightly less effective than the optimal strategy, with a reduction in efficiency from 3% to 8%, depending on the genotyping costs. Based on only two different parental genotype mating types, this strategy would be easy to implement.
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Ropka-Molik K, Dusik A, Piórkowska K, Tyra M, Oczkowicz M, Szmatoła T. Polymorphisms of the membrane-associated ring finger 4, ubiquitin protein ligase gene (MARCH4) and its relationship with porcine production traits. Livest Sci 2015. [DOI: 10.1016/j.livsci.2015.05.022] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
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Choi I, Bates RO, Raney NE, Steibel JP, Ernst CW. Evaluation of QTL for carcass merit and meat quality traits in a US commercial Duroc population. Meat Sci 2012; 92:132-8. [PMID: 22578477 DOI: 10.1016/j.meatsci.2012.04.023] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2011] [Revised: 03/17/2012] [Accepted: 04/15/2012] [Indexed: 10/28/2022]
Abstract
Putative quantitative trait loci (QTL) regions on 5 chromosomes (SSC3, 6, 12, 15, and 18) were selected from our previous genome scans of a Duroc×Pietrain F(2) resource population for further evaluation in a US commercial Duroc population (n=331). A total of 81 gene-specific single nucleotide polymorphism (SNP) markers were genotyped and 33 markers were segregating. The MDH1 SNP on SSC3 was associated with 45-min and ultimate pH (pHu), and pH decline. PRKAG3 on SSC15 was associated with pHu. The HSPG2 SNP on SSC6 was associated with marbling score and days to 113kg. Markers for NUP88 and FKBP10 on SSC12 were associated with 45-min pH and L*, respectively. The SSC15 marker SF3B1 was associated with L* and LMA, and the SSC18 marker ARF5 was associated with pHu and color score. These results in a commercial Duroc population showed a general consistency with our previous genome scan.
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Affiliation(s)
- Igseo Choi
- Department of Animal Science, Michigan State University, East Lansing, MI 48824-1225, USA.
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6
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Wu W, Zuo B, Ren Z, Hapsari AAR, Lei M, Xu D, Li F, Xiong Y. Identification of four SNPs and association analysis with meat quality traits in the porcine Pitx2c gene. SCIENCE CHINA. LIFE SCIENCES 2011; 54:426-33. [PMID: 21574044 DOI: 10.1007/s11427-011-4167-9] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2010] [Accepted: 02/28/2011] [Indexed: 11/30/2022]
Abstract
The association of the porcine Pitx2c gene with meat quality traits was investigated in the present study. A total of eight single nucleotide polymorphisms (SNPs) were found. Allele frequencies of four SNPs were further detected in four commercial breeds and eight Chinese indigenous breeds. Single SNP and meat quality associations were analyzed in a Yorkshire×Meishan F(2) population. The SNPs c.474C>T (P<0.01) and c.636C>T (P<0.05) showed a significant association with meat color (MCV1). The SNPs c.*37G>A and c.*47G>A were significantly associated with drip loss rate (DLR), water holding capacity (WHC) and meat color value (MCV1) consistently (P<0.05). Linkage disequilibrium (LD) analysis revealed that the adjacent SNPs were in LD. Two major haplotypes were identified, and association analysis between haplotype combinations and meat quality indicated that the presence of two copies of haplotype 1 -CCGG- may improve meat quality.
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Affiliation(s)
- WangJun Wu
- Key Laboratory of Swine Genetics and Breeding, Ministry of Agriculture, College of Animal Science, Huazhong Agricultural University, Wuhan, 430070, China
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7
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Liu H, Tian W, Zan L, Wang H, Cui H. Mutations of MC4R gene and its association with economic traits in Qinchuan cattle. Mol Biol Rep 2010; 37:535-40. [PMID: 19714485 DOI: 10.1007/s11033-009-9706-0] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2009] [Accepted: 07/21/2009] [Indexed: 11/28/2022]
Abstract
MC4R belongs to a seven-transmembrane G-protein-coupled receptor which may regulate body composition and insulin action. Many mutations in the MC4R gene are associated with obesity, energy expenditure and serum triglyceride levels in human and animals. Six mutations in the MC4R gene were identified in our study (-293C>G, -193A>T, -192T>G, -129A>G, -84T>C and 1,069C>G). The -129A>G was significantly associated with live weight (LW) (P < 0.05), Cattle with the genotypes AG and GG had higher LW than genotype AA. The 1,069C>G was significantly associated with LW, carcass weight (CW), backfat thickness and marbling score (MS). Cattle with the genotype GG had higher LW, CW and MS than genotype CC; Cattle with the genotypes GG and CG had higher MS than CC. The results suggested that -129A>G and 1,069C>G SNP of the MC4R gene may be useful as a genetic marker for carcass and meat quality traits in Qinchuan cattle.
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Affiliation(s)
- Hongyu Liu
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi, China
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Russo V, Fontanesi L, Scotti E, Beretti F, Davoli R, Nanni Costa L, Virgili R, Buttazzoni L. Single nucleotide polymorphisms in several porcine cathepsin genes are associated with growth, carcass, and production traits in Italian Large White pigs. J Anim Sci 2008; 86:3300-14. [PMID: 18708606 DOI: 10.2527/jas.2008-0920] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
To identify DNA markers associated with performance, carcass, and meat production traits including muscle postmortem cathepsin activity, several porcine genes encoding for lysosomal proteinases (cathepsin B, CTSB; cathepsin D, CTSD; cathepsin F, CTSF; cathepsin H, CTSH; cathepsin L, CTSL; and cathepsin Z, CTSZ) and for a cathepsin inhibitor (cystatin B) were investigated. Single nucleotide polymorphisms were identified in CTSD, CTSH, CTSL, and CTSZ genes with a combination of in silico expressed sequence tag database mining and single-strand conformation polymorphism analysis. Sequencing and PCR-RFLP protocols were used to validate the identified polymorphisms. Allele frequencies at these loci were investigated in Italian Large White, Landrace, Duroc, Piétrain, Belgian Landrace, Hampshire, and Meishan breeds. Genotyping CTSD and CTSH markers made it possible to genetically map these genes to SSC 2 and 7, respectively. Markers in CTSD, CTSH, CTSL, and CTSZ genes, together with mutations we previously reported in cystatin B, CTSB, and CTSF genes, were genotyped in an Italian Large White sib-tested population (272 or 482 animals). For these animals, meat quality traits (cathepsin B activity, pH measured at 2 h postmortem, pH measured at 24 h postmortem, glycogen, lactate, and glycolytic potential of semimembranosus muscle) and EBV for ADG, lean cuts (LC), backfat thickness (BFT), ham weight (HW), and feed:gain ratio (FGR) were determined. Analyzed markers did not show any association with muscle cathepsin B activity. Thus, it could be possible that different genes, other than these investigated candidates, affect this trait, which is correlated with the excessive softness defect of dry-cured hams. The results of association analysis confirmed the effects we already reported in another study for CTSF on ADG (P = 0.008), LC (P = 0.001), and BFT (P = 0.02). Moreover, CTSD was associated with ADG, LC (P < 0.0001), BFT, HW, and FGR (P < 0.001); CTSH was associated with FGR (P = 0.026); and CTSZ was associated with ADG (P = 0.006), LC (P = 0.01), HW (P = 0.024), and FGR (P = 0.029). The biochemical and physiological functions of the lysosomal proteinases, together with the results obtained in our investigation, suggest that the cathepsin gene family might play important roles affecting economic traits in pigs.
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Affiliation(s)
- V Russo
- Dipartimento di Protezione e Valorizzazione Agroalimentare, Sezione di Allevamenti Zootecnici, Faculty of Agriculture, University of Bologna, 42100 Reggio Emilia, Italy
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Progress in reducing the pale, soft and exudative (PSE) problem in pork and poultry meat. Meat Sci 2008; 79:46-63. [DOI: 10.1016/j.meatsci.2007.07.031] [Citation(s) in RCA: 228] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2007] [Revised: 07/25/2007] [Accepted: 07/27/2007] [Indexed: 02/07/2023]
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10
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Liu M, Peng J, Xu D, Zheng R, Li F, Li J, Zuo B, Lei M, Xiong Y, Deng C, Jiang S. Associations of MYF5 gene polymorphisms with meat quality traits in different domestic pig (Sus scrofa) populations. Genet Mol Biol 2007. [DOI: 10.1590/s1415-47572007000300012] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Affiliation(s)
- Min Liu
- Huazhong Agricultural University, China
| | - Jian Peng
- Huazhong Agricultural University, China
| | - Dequan Xu
- Huazhong Agricultural University, China
| | | | - Feng’e Li
- Huazhong Agricultural University, China
| | | | - Bo Zuo
- Huazhong Agricultural University, China
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Association of MC4R gene variants with growth, fatness, carcass composition and meat and fat quality traits in heavy pigs. Meat Sci 2006; 73:42-7. [DOI: 10.1016/j.meatsci.2005.10.016] [Citation(s) in RCA: 47] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2005] [Revised: 09/19/2005] [Accepted: 10/25/2005] [Indexed: 11/22/2022]
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12
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Enfält AC, von Seth G, Josell Å, Lindahl G, Hedebro-Velander I, Braunschweig M, Andersson L, Lundström K. Effects of a second mutant allele (V199I) at the PRKAG3 (RN) locus on carcass composition in pigs. Livest Sci 2006. [DOI: 10.1016/j.livprodsci.2005.06.007] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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Ovilo C, Clop A, Noguera JL, Oliver MA, Barragán C, Rodriguez C, Silió L, Toro MA, Coll A, Folch JM, Sánchez A, Babot D, Varona L, Pérez-Enciso M. Quantitative trait locus mapping for meat quality traits in an Iberian x Landrace F2 pig population. J Anim Sci 2002; 80:2801-8. [PMID: 12462246 DOI: 10.2527/2002.80112801x] [Citation(s) in RCA: 85] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
An experimental F2 cross between Iberian and Landrace pig strains was performed to map quantitative trait loci (QTL) for diverse productive traits. Here we report results for meat quality traits from 369 F2 animals with records for pH 24 h postmortem (pH 24 h), muscle color Minolta measurements L* (lightness), a* (redness), and b* (yellowness), H* (hue angle), C* (chroma), intramuscular fat (IMF) and haematin pigment content measured in the longissimus thoracis. Pigs were genotyped for 92 markers covering the 18 porcine autosomes (SSC). Results of the genome scan show evidence for QTL for IMF (SSC6; F = 27.16), pH 24 h (SSC3; F = 7.73), haematin pigments (SSC4 and SSC7; F = 8.68 and 9.47 respectively) and Minolta color measurements L* (SSC4 and SSC7; F =16.42 and 7.17 respectively), and a* (SSC4 and SSC8; F = 8.05 and 7.36 respectively). No QTL were observed for the color measurements b*, H*, and C*. Alternative models fitting epistasis between QTL were also tested, but detected epistatic interactions were not significant at a genome-wise level. In this work we identify genomic regions related with meat quality traits. Improvement by traditional selection methods is complicated, and finer mapping would be required for their application in introgression programs.
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Affiliation(s)
- C Ovilo
- Departamento de Mejora Genética Animal, INIA, Carretera La Corũna km 7, 28040 Madrid, Spain.
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