Detecting quantitative trait loci affecting beef tenderness on bovine chromosome 7 near calpastatin and lysyl oxidase

Drinkwater, R. D.; Li, Yutao; Lenane, I.J.; Davis, Geoff; Shorthose, R; Harrison, B. E.; Richardson, Kelsey; Ferguson, D. M.; Stevenson, Richard J.; Renaud, J.-C.; Loxton, I.; Hawken, Rachel; Thomas, Morgane; Newman, Scott; Hetzel, D. J. S.; Barendse, W.

doi:10.1071/ea05185

Cited by 18 publications

(17 citation statements)

References 26 publications

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“…Several bovine quantitative trait loci (QTL) for meat tenderness have been identified [1][2][3][4][5][6][7][8][9]. Ten different genomic regions on chromosomes 4, 5, 7, 8, 9, 10, 15, 20, 25 and 29 have been, so far, associated with meat tenderness in cattle.…”

Section: Introductionmentioning

confidence: 99%

Genetic Variability and Linkage Disequilibrium Patterns in the Bovine DNAJA1 Gene

et al. 2009

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Correlation between expression level of the bovine DNAJA1 gene and meat tenderness was recently found in Charolais longissimus thoracis muscle samples, suggesting that this gene could play an important role in meat tenderness. Here, we report the validation of polymorphisms within the bovine DNAJA1 gene, and the haplotype variability and extent of linkage disequilibrium in the three main French beef breeds (Blonde d'Aquitaine, Charolais, Limousin). Genotyping 18 putative SNPs revealed that 16 SNPs were polymorphic within the breeds tested. Two SNPs were removed from further analyses as one SNP had a low genotyping call rate, while the other SNP was not in Hardy-Weinberg equilibrium. The degree of heterozygosity observed for the remaining 14 SNPs varied between breeds, with Charolais being the breed with the highest genetic variation and Blonde d'Aquitaine the lowest. Linkage disequilibrium and haplotype structure of DNAJA1 were different between breeds. Eighteen different haplotypes, including three shared by all breeds, were discovered, and two to three tag SNPs (depending on the breed) are sufficient to capture all the genetic variability seen in these haplotypes. The results of this study will facilitate the design of optimal future association studies evaluating the role of the DNAJA1 gene in meat tenderness.

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Section: Introductionmentioning

confidence: 99%

Genetic Variability and Linkage Disequilibrium Patterns in the Bovine DNAJA1 Gene

et al. 2009

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“…QTL affecting fatness in cattle were located at several overlapping regions of bovine chromosome 3 (Andersson- Eklund et al 1990;Casas et al 2001Casas et al , 2003Casas et al , 2004Barendse 2003), suggesting that there are several genes affecting fatness on the chromosome, although the confidence intervals of linkage mapping studies prevent certainty (Drinkwater et al 2006). Several of the genes in the confidence interval of the QTL were possible candidates.…”

Section: G Enetic Variation For Fatness Has Impacts Asmentioning

confidence: 99%

The Effect of Genetic Variation of the Retinoic Acid Receptor-Related Orphan Receptor C Gene on Fatness in Cattle

et al. 2007

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Genotypes at the retinoic acid receptor-related orphan receptor C (RORC) gene were associated with fatness in 1750 cattle. Ten SNPs were genotyped in RORC and the adjacent gene leucine-rich repeat neuronal 6D (LRRN6D) to map the QTL, 7 of which are in a 4.2-kb sequence around the ligand-binding domain of the RORC gene. Of the 29 inferred haplotypes for these SNPs, 2 have a combined frequency of 54.6% while the top 5 haplotypes have a combined frequency of 85.3%. The average D9 value of linkage disequilibrium was 0.92 although the average r 2 was a low 0.18. The RORC:g.3290T.G SNP had the strongest association with marbling. The inferred haplotypes were significantly associated with marbling and the difference between the most divergent haplotypes was 0.35 s p of marbling and 0.28 s p of rump fat, explaining the previously reported QTL effect. cDNA for RORC were sequenced and 2 new alternative transcripts were found. Fetal tissue shows 40 times greater transcription of RORC than adult tissue. The highest expression in fetal tissue was found in liver and kidney, but in adults the longissimus muscle had the greatest expression of the tissues tested.

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“…the amount of visual intramuscular fat) (Barendse, 1997;2001and Barendse et al, 2004. They include the genes encoding m-calpaïn (Page et al, 2002;White et al, 2005) and lysyl oxidase and calpastatin (Barendse, 2001;Drinkwater et al, 2006) for tenderness. They also include the genes encoding leptin (Buchanan et al, 2002), DGAT1 (Thaller et al, 2003), TG (Barendse et al, 2004), RORC (Barendse, 2003), GH1 (Schlee et al, 1994), SCD, mitochondria (Mannen et al, 1998;2003), mitochondrial transcription factor A (Jiang et al, 2005) and FABP4 (Michal et al, 2006) for marbling.…”

Section: Bovine Genome Sequencing and Applications For Breedingmentioning

confidence: 99%

Recent advances in cattle functional genomics and their application to beef quality

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Lehnert

Barendse

et al. 2007

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The advent of high-throughput DNA sequencing techniques, array technology and protein analysis has increased the efficiency of research in bovine muscle physiology, with the ultimate objective of improving beef quality either by breeding or rearing factors. For genetic purposes, polymorphisms in some key genes have been reported for their association with beef quality traits. The sequencing of the bovine genome has dramatically increased the number of available gene polymorphisms. The association of these new polymorphisms with the variability in beef quality (e.g. tenderness, marbling) for different breeds in different rearing systems will be a very important issue. For rearing purposes, global gene expression profiling at the mRNA or protein level has already shown that previously unsuspected genes may be associated either with muscle development or growth, and may lead to the development of new molecular indicators of tenderness or marbling. Some of these genes are specifically regulated by genetic and nutritional factors or differ between different beef cuts. In recognition of the potential economic benefits of genomics, public institutions in association with the beef industry are developing livestock genomics projects around the world. From the scientific, technical and economical points of view, genomics is thus reshaping research on beef quality.

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Detecting quantitative trait loci affecting beef tenderness on bovine chromosome 7 near calpastatin and lysyl oxidase

Cited by 18 publications

References 26 publications

Genetic Variability and Linkage Disequilibrium Patterns in the Bovine DNAJA1 Gene

Genetic Variability and Linkage Disequilibrium Patterns in the Bovine DNAJA1 Gene

The Effect of Genetic Variation of the Retinoic Acid Receptor-Related Orphan Receptor C Gene on Fatness in Cattle

Recent advances in cattle functional genomics and their application to beef quality

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