Association of μ-Calpain and Calpastatin Polymorphisms with Meat Tenderness in a Brahman–Angus Population

Leal-Gutiérrez, Joel D.; Elzo, Mauricio A.; Johnson, D. D.; Scheffler, J. M.; Mateescu, Raluca G.

doi:10.3389/fgene.2018.00056

Cited by 26 publications

(23 citation statements)

References 55 publications

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“…This mechanism would be important for the observed TD and CT phenotypes. A significant effect of the μ-calpain-calpastatin system on meat quality in the present population was recently reported ( Leal-Gutiérrez et al, 2018 ; Wright et al, 2018 ). The second mechanism involves a direct effect on intramuscular fat composition through CD40, ENSBTAG00000025428, NCOA5, PCDHA3, PENK , and PTPRT which are involved in phospholipid, triglycerides and cholesterol metabolism, fatty acid profile, insulin secretion and glucose tolerance.…”

Section: Resultssupporting

confidence: 51%

“…The research protocol was approved by the University of Florida Institutional Animal Care and Use Committee number 201003744. Records from 726 steers born between 1990 and 2015 that belong to the Angus-Brahman multibreed herd from University of Florida ( Elzo et al, 2015a , b , 2016 ; Leal-Gutiérrez et al, 2018 ), and a four-generation pedigree with 1,122 animals were used in this study. A total of 22 phenotypes were utilized to construct three latent variables: growth, carcass quality, and meat quality.…”

Section: Methodsmentioning

confidence: 99%

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Structural Equation Modeling and Whole-Genome Scans Uncover Chromosome Regions and Enriched Pathways for Carcass and Meat Quality in Beef

et al. 2018

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Structural equation models involving latent variables are useful tools for formulating hypothesized models defined by theoretical variables and causal links between these variables. The objectives of this study were: (1) to identify latent variables underlying carcass and meat quality traits and (2) to perform whole-genome scans for these latent variables in order to identify genomic regions and individual genes with both direct and indirect effects. A total of 726 steers from an Angus-Brahman multibreed population with records for 22 phenotypes were used. A total of 480 animals were genotyped with the GGP Bovine F-250. The single-step genomic best linear unbiased prediction method was used to estimate the amount of genetic variance explained for each latent variable by chromosome regions of 20 adjacent SNP-windows across the genome. Three types of genetic effects were considered: (1) direct effects on a single latent phenotype; (2) direct effects on two latent phenotypes simultaneously; and (3) indirect effects. The final structural model included carcass quality as an independent latent variable and meat quality as a dependent latent variable. Carcass quality was defined by quality grade, fat over the ribeye and marbling, while the meat quality was described by juiciness, tenderness and connective tissue, all of them measured through a taste panel. From 571 associated genomic regions (643 genes), each one explaining at least 0.05% of the additive variance, 159 regions (179 genes) were associated with carcass quality, 106 regions (114 genes) were associated with both carcass and meat quality, 242 regions (266 genes) were associated with meat quality, and 64 regions (84 genes) were associated with carcass quality, having an indirect effect on meat quality. Three biological mechanisms emerged from these findings: postmortem proteolysis of structural proteins and cellular compartmentalization, cellular proliferation and differentiation of adipocytes, and fat deposition.

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Section: Resultssupporting

confidence: 51%

Section: Methodsmentioning

confidence: 99%

Structural Equation Modeling and Whole-Genome Scans Uncover Chromosome Regions and Enriched Pathways for Carcass and Meat Quality in Beef

et al. 2018

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“…Additionally, the proteolytic enzyme responsible for the tenderization process, μ -calpain , is located in this region. μ -calpain has been extensively analyzed and was found associated with meat quality ( Koohmaraie, 1996 ; Smith et al, 2000 ; Page et al, 2002 ; White et al, 2005 ; Leal-Gutiérrez et al, 2018a , 2019 ).…”

Section: Discussionmentioning

confidence: 99%

Whole Genome Sequence Data Provides Novel Insights Into the Genetic Architecture of Meat Quality Traits in Beef

et al. 2020

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Tenderness is a major quality attribute for fresh beef steaks in the United States, and meat quality traits in general are suitable candidates for genomic research. The objectives of the present analysis were to (1) perform genome-wide association (GWA) analysis for marbling, Warner-Bratzler shear force (WBSF), tenderness, and connective tissue using whole-genome data in an Angus population, (2) identify enriched pathways in each GWA analysis; (3) construct a protein-protein interaction network using the associated genes and (4) perform a µ-calpain proteolysis assessment for associated structural proteins. An Angus-sired population of 2,285 individuals was assessed. Animals were transported to a commercial packing plant and harvested at an average age of 457 ± 46 days. After 48 h postmortem, marbling was recorded by graders' visual appraisal. Two 2.54-cm steaks were sampled from each muscle for recording of WBSF, and tenderness, and connective tissue by a sensory panel. The relevance of additive effects on marbling, WBSF, tenderness, and connective tissue was evaluated on a genome-wide scale using a two-step mixed model-based approach in single-trait analysis. A tissue-restricted gene enrichment was performed for each GWA where all polymorphisms with an association p-value lower than 1 × 10 −3 were included. The genes identified as associated were included in a protein-protein interaction network and a candidate structural protein assessment of proteolysis analyses. A total of 1,867, 3,181, 3,926, and 3,678 polymorphisms were significantly associated with marbling, WBSF, tenderness, and connective tissue, respectively. The associate region on BTA29 (36,432,655-44,313,046 bp) harbors 13 highly significant markers for meat quality traits. Enrichment for the GO term GO:0005634 (Nucleus), which includes transcription factors, was evident. The final protein-protein network included 431 interations between 349 genes. The 42 most important genes based on significance that encode structural proteins were included in a proteolysis analysis, and 81% of these proteins were

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“…Cattle were classified into three different groups based on their expected Angus and Brahman breed composition. Based on the Angus composition, the grouping was as follows: 1 = 100 to 65%; 2 = 64% to 40%; 3 = 39 to 0% [86].…”

Section: Cattle Population and Phenotypic Datamentioning

confidence: 99%

RNA-seq analysis identifies cytoskeletal structural genes and pathways for meat quality in beef

Gutierrez

Elzo

Mateescu

2019

Preprint

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Background RNA sequencing (RNA-seq) has allowed for transcriptional profiling of biological systems through identification of differentially expressed (DE) genes and pathways. Results A total of 80 steers were selected from the multibreed Angus-Brahman herd of the University of Florida. Sensory panel tenderness, juiciness and connective tissue as well as marbling, WBSF and cooking loss were assessed in longissimus dorsi muscle. Nuclear RNA was extracted from muscle and an RNA-seq library for each sample was constructed, multiplexed, and sequenced based on protocols by Illumina HiSeq 3000 PE100 platform to generate 2 × 101 bp paired-end reads. On average, 34.9 million high-quality paired reads were uniquely mapped to the Btau_4.6.1 reference genome and a total of 8,799 genes were analyzed. Including all 80 animals, gene and exon expression analysis was carried out using a meat quality index as a continuous response variable. The expression of 208 genes and 3,280 exons from 1,565 genes was associated with the meat quality index (p-value ≤ 0.05). Out of the 80 samples sequenced, 40 animals with extreme low and high WBSF, tenderness and marbling values were selected for a differential expression (DE) analysis for gene and isoforms. A total of 676 (adjusted p-value ≤ 0.05), 70 (adjusted p-value ≤ 0.1) and 198 (adjusted p-value ≤ 0.1) genes were DE for WBSF, tenderness and marbling, respectively. A total of 106 isoforms from 98 genes for WBSF, 13 isoforms from 13 genes for tenderness and 43 isoforms from 42 genes for marbling (FDR ≤ 0.1) were DE. Conclusion A number of cytoskeletal and transmembrane anchoring related genes and pathways were identified in the expression, DE and gene enrichment analyses, and these proteins can have a direct effect on meat quality. Cytoskeletal proteins and transmembrane anchoring molecules can influence meat quality by allowing cytoskeletal ﬁlament interaction with myocyte and organelle membranes, contributing to cytoskeletal structure, microtubule network stability, and cellular architecture maintenance during the postmortem.

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Association of μ-Calpain and Calpastatin Polymorphisms with Meat Tenderness in a Brahman–Angus Population

Cited by 26 publications

References 55 publications

Structural Equation Modeling and Whole-Genome Scans Uncover Chromosome Regions and Enriched Pathways for Carcass and Meat Quality in Beef

Structural Equation Modeling and Whole-Genome Scans Uncover Chromosome Regions and Enriched Pathways for Carcass and Meat Quality in Beef

Whole Genome Sequence Data Provides Novel Insights Into the Genetic Architecture of Meat Quality Traits in Beef

RNA-seq analysis identifies cytoskeletal structural genes and pathways for meat quality in beef

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