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Naldurtiker A, Batchu P, Kouakou B, Terrill TH, Shaik A, Kannan G. RNA-Seq exploration of the influence of stress on meat quality in Spanish goats. Sci Rep 2022; 12:20573. [PMID: 36446782 PMCID: PMC9709060 DOI: 10.1038/s41598-022-23269-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2022] [Accepted: 10/27/2022] [Indexed: 11/30/2022] Open
Abstract
Studies exploring the transcriptome of stress and its effects on meat quality are very limited, particularly in goats. Fifty-four male Spanish goats (8-mo old; BW = 29.7 ± 2.03 kg) were randomly subjected to one of three treatments (TRT; n = 18 goats/treatment): (1) transported for 180 min, (2) transported for 30 min, or (3) held in pens (control) to analyze the transcriptome of stress and meat quality in goats using RNA-seq technology. Blood samples were collected before and after treatment, and meat samples were collected after humane slaughter for stress hormone, meat quality (Longissimus dorsi), and transcriptomic analysis. Plasma epinephrine concentrations were higher (P < 0.01) in 180 min and 30 min groups compared to the control group; however, norepinephrine concentrations were not affected by the treatment. Muscle glycogen concentrations (15 min postmortem) were lower (P < 0.01) in both 30 min and 180 min groups compared to the control group. Calpastatin levels were higher (P < 0.01) in 180 min and 30 min groups than the control group. Warner-Bratzler shear force values of loin chops were the highest in the 180 min group (4 ± 0.15, kg), lowest in the control group (3.51 ± 0.10, kg), and intermediate in the 30 min group (3.78 ± 0.09, kg; P < 0.01) both at day 1 and day 6 aging time. Additionally, desmin levels of day 6 samples were lowest in the control group, highest in 180 min group, and intermediate in 30 min group (P < 0.05). RNA-seq results showed that a total of 10,633 genes were differentially expressed (5194 up regulated; 5439 down regulated) among all comparisons (blood and day 1 and day 6 muscle samples). Among these differentially expressed genes (DEGs), KLF9, AMPK, FOXO3, PTX3, GADD45, PTPN1, CASP7, MAPK4, HSPA12A, and JAK-STAT were probably associated with the effects of stress on skeletal muscle proteins and involved in biological process such as cellular response to corticosteroid stimulus, endoplasmic reticulum stress, insulin resistance, DNA repair, apoptosis, MAPK cascade and regulation of proteolysis. The KEGG analysis revealed that AMPK and JAK-SAT signaling pathways and autophagy were among the top 20 enriched pathways in our treatment comparisons. The results provide an understanding of the genes and pathways involved in stress responses and related changes in postmortem muscle metabolism and meat quality characteristics in goats.
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Affiliation(s)
- Aditya Naldurtiker
- grid.256036.40000 0000 8817 9906Agricultural Research Station, Fort Valley State University, 1005 State University Drive, Fort Valley, GA 31030 USA
| | - Phaneendra Batchu
- grid.256036.40000 0000 8817 9906Agricultural Research Station, Fort Valley State University, 1005 State University Drive, Fort Valley, GA 31030 USA
| | - Brou Kouakou
- grid.256036.40000 0000 8817 9906Agricultural Research Station, Fort Valley State University, 1005 State University Drive, Fort Valley, GA 31030 USA
| | - Thomas H. Terrill
- grid.256036.40000 0000 8817 9906Agricultural Research Station, Fort Valley State University, 1005 State University Drive, Fort Valley, GA 31030 USA
| | - Arshad Shaik
- grid.256036.40000 0000 8817 9906Agricultural Research Station, Fort Valley State University, 1005 State University Drive, Fort Valley, GA 31030 USA
| | - Govind Kannan
- grid.256036.40000 0000 8817 9906Agricultural Research Station, Fort Valley State University, 1005 State University Drive, Fort Valley, GA 31030 USA
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2
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Cassar-Malek I, Pomiès L, de la Foye A, Tournayre J, Boby C, Hocquette JF. Transcriptome profiling reveals stress-responsive gene networks in cattle muscles. PeerJ 2022; 10:e13150. [PMID: 35411255 PMCID: PMC8994496 DOI: 10.7717/peerj.13150] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2021] [Accepted: 03/01/2022] [Indexed: 01/12/2023] Open
Abstract
In meat-producing animals, preslaughter operations (e.g., transportation, mixing unfamiliar animals, food and water deprivation) may be a source of stress with detrimental effects on meat quality. The objective of this work was to study the effect of emotional and physical stress by comparing the transcriptomes of two muscles (M. longissimus thoracis, LT and M. semitendinosus, ST) in Normand cows exposed to stress (n = 16) vs. cows handled with limited stress (n = 16). Using a microarray, we showed that exposure to stress resulted in differentially expressed genes (DEGs) in both muscles (62 DEGs in LT and 32 DEGs in ST, of which eight were common transcription factors (TFs)). Promoter analysis of the DEGs showed that 25 cis transcriptional modules were overrepresented, of which nine were detected in both muscles. Molecular interaction networks of the DEGs targeted by the most represented cis modules helped identify common regulators and common targets involved in the response to stress. They provided elements showing that the transcriptional response to stress is likely to (i) be controlled by regulators of energy metabolism, factors involved in the response to hypoxia, and inflammatory cytokines; and (ii) initiate metabolic processes, angiogenesis, corticosteroid response, immune system processes, and satellite cell activation/quiescence. The results of this study demonstrate that exposure to stress induced a core response to stress in both muscles, including changes in the expression of TFs. These factors could relay the physiological adaptive response of cattle muscles to cope with emotional and physical stress. The study provides information to further understand the consequences of these molecular processes on meat quality and find strategies to attenuate them.
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Affiliation(s)
- Isabelle Cassar-Malek
- Université Clermont Auvergne, INRAE, VetAgro Sup, UMR Herbivores, Saint-Genès-Champanelle, France
| | - Lise Pomiès
- Université Clermont Auvergne, INRAE, VetAgro Sup, UMR Herbivores, Saint-Genès-Champanelle, France,Université de Toulouse, INRAE, UR MIAT, Castanet-Tolosan, France
| | - Anne de la Foye
- Université Clermont Auvergne, INRAE, VetAgro Sup, UMR Herbivores, Saint-Genès-Champanelle, France
| | - Jérémy Tournayre
- Université Clermont Auvergne, INRAE, VetAgro Sup, UMR Herbivores, Saint-Genès-Champanelle, France
| | - Céline Boby
- Université Clermont Auvergne, INRAE, VetAgro Sup, UMR Herbivores, Saint-Genès-Champanelle, France
| | - Jean-François Hocquette
- Université Clermont Auvergne, INRAE, VetAgro Sup, UMR Herbivores, Saint-Genès-Champanelle, France
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3
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Frezarim GB, Fonseca LFS, Salatta BM, Silva DBDS, Bresolin T, Seno LDO, Barufatti A, Ferro JA, Albuquerque LG. Genes and proteins associated with ribeye area and meat tenderness in a commercial Nellore cattle population. Genome 2021; 65:229-240. [PMID: 34860606 DOI: 10.1139/gen-2020-0163] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Despite several studies on genetic markers and differently expressed genes related to ribeye area (REA) and tenderness traits in beef cattle, there is divergence in the results regarding the genes associated with these traits. Thirteen genes that had been associated or have biological functions that may influence such phenotypes were included in this study. A total of five genes for REA (IGF-1, IGF-2, MSTN, NEDD4, and UBE4A) and eight genes for meat tenderness (CAPN1, CAPN2, CAST, HSPB1, DNAJA1, FABP4, SCD, and PRKAG3) were selected from previously studies in beef cattle. Genes and its respective proteins expression were validated in a commercial population of Nellore cattle using quantitative real-time PCR (RT-qPCR) and advanced mass spectrometry (LC / MS-MS) techniques, respectively. MSTN gene was upregulated in animals with low REA. CAPN1, CAPN2, CAST, HSPB1, and DNAJA1 genes were upregulated in animals with tougher meat. The proteins translated by these genes were not differentially expressed. Our results could confirm the potential of some studied genes as biomarkers for carcass and meat quality in Nellore cattle.
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Affiliation(s)
- Gabriela Bonfá Frezarim
- School of Agricultural and Veterinary Studies, Animal Science, Via de Acesso Professor Paulo Donato Castelane Castellane S/N Vila Industrial, 14884-900, Jaboticabal , SP, Brazil, 14884-900;
| | | | - Bruna Maria Salatta
- School of Agricultural and Veterinary Studies, Animal Science , Jaboticabal , Brazil;
| | | | - Tiago Bresolin
- University of Wisconsin-Madison, 5228, Madison, Wisconsin, United States;
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4
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Arora R, Siddaraju NK, Manjunatha SS, Sudarshan S, Fairoze MN, Kumar A, Chhabra P, Kaur M, Sreesujatha RM, Ahlawat S, Vijh RK. Muscle transcriptome provides the first insight into the dynamics of gene expression with progression of age in sheep. Sci Rep 2021; 11:22360. [PMID: 34785720 PMCID: PMC8595721 DOI: 10.1038/s41598-021-01848-5] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Accepted: 11/02/2021] [Indexed: 01/13/2023] Open
Abstract
The dynamic synergy of genes and pathways in muscles in relation to age affects the muscle characteristics. Investigating the temporal changes in gene expression will help illustrate the molecular mechanisms underlying muscle development. Here we report the gene expression changes in skeletal muscles through successive age groups in Bandur, a meat type sheep of India. RNA sequencing data was generated from the longissimus thoracis muscles from four age groups, ranging from lamb to adult. Analysis of 20 highest expressed genes common across the groups revealed muscle protein, phosphorylation, acetylation, metal binding and transport as significant functions. Maximum differentiation was observed after 2.5–3 years on transition from lambs to adult. Transcriptional regulation by the TFAP2 transcription factors, IL-6 signaling and PI3K/AKT signaling pathways were enriched in younger animals. The gene-protein network demarcated key interactive genes involved in muscle development and proliferation that can be used as candidates for future research on improvement of muscle characteristics.
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Affiliation(s)
- Reena Arora
- Animal Biotechnology Division, ICAR-National Bureau of Animal Genetic Resources, G T Road By-Pass, P O Box 129, Karnal, 132001, Haryana, India.
| | | | - S S Manjunatha
- Karnataka Veterinary Animal and Fisheries Sciences University, Bangalore, 560024, India
| | - S Sudarshan
- Karnataka Veterinary Animal and Fisheries Sciences University, Bangalore, 560024, India
| | | | - Ashish Kumar
- Animal Biotechnology Division, ICAR-National Bureau of Animal Genetic Resources, G T Road By-Pass, P O Box 129, Karnal, 132001, Haryana, India
| | - Pooja Chhabra
- Animal Biotechnology Division, ICAR-National Bureau of Animal Genetic Resources, G T Road By-Pass, P O Box 129, Karnal, 132001, Haryana, India
| | - Mandeep Kaur
- Animal Biotechnology Division, ICAR-National Bureau of Animal Genetic Resources, G T Road By-Pass, P O Box 129, Karnal, 132001, Haryana, India
| | - R M Sreesujatha
- Karnataka Veterinary Animal and Fisheries Sciences University, Bangalore, 560024, India
| | - Sonika Ahlawat
- Animal Biotechnology Division, ICAR-National Bureau of Animal Genetic Resources, G T Road By-Pass, P O Box 129, Karnal, 132001, Haryana, India
| | - Ramesh Kumar Vijh
- Animal Biotechnology Division, ICAR-National Bureau of Animal Genetic Resources, G T Road By-Pass, P O Box 129, Karnal, 132001, Haryana, India
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5
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Xiong L, Pei J, Wu X, Kalwar Q, Yan P, Guo X. Effect of Gender to Fat Deposition in Yaks Based on Transcriptomic and Metabolomics Analysis. Front Cell Dev Biol 2021; 9:653188. [PMID: 34504837 PMCID: PMC8421605 DOI: 10.3389/fcell.2021.653188] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2021] [Accepted: 07/22/2021] [Indexed: 12/14/2022] Open
Abstract
Fat deposition in yaks plays an important part in survival, multiplication, and meat quality. In this work, the characteristic of fat deposition in male yaks (MYs) and female yaks (FYs) and the regulations of gender to yak fat deposition were explored by mRNA-Seq and non-targeted metabolomics analyses. FYs possessed a higher body fat rate (BFR) of visceral fat, fat content in longissimus dorsi (LD) and liver, and subcutaneous fat thickness (p < 0.05). The fat and cholesterol synthesis in liver and the fat transport in FY blood increased. The fat metabolism in yaks is the combined effect of carbohydrate, fatty acid, and amino acid metabolism by tricarboxylic acid (TCA) cycle, and an increase of triglyceride (TG) synthesis was accompanied by an increase of steroid synthesis. The high levels of myo-inositol and cortisol (COR) (p < 0.01) activated the calcium signaling in FY subcutaneous fat, followed by the increase of adipocyte secretion, and resulted in more leptin (LEP) secretion (p < 0.01). Then peroxisome proliferator-activated receptor (PPAR) signaling was activated by the focal adhesions and ECM-receptor interaction. Finally, the TG and steroid synthesis increased by the expression regulation of ME1, SCD, ELOVL6, DGAT2, DBI, LPL, CPT1, PLIN1, LIPA, DHCR24, and SQLE gene. The above genes can be considered as the candidate genes for yak with higher fat amount in molecular breeding in the future. This study can provide a theoretical basis for improving the meat quality and breeding of yaks.
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Affiliation(s)
- Lin Xiong
- Animal Science Department, Lanzhou Institute of Husbandry and Pharmaceutical Sciences, Chinese Academy of Agricultural Sciences, Lanzhou, China
- Key Laboratory for Yak Genetics, Breeding, and Reproduction Engineering of Gansu Province, Lanzhou, China
| | - Jie Pei
- Animal Science Department, Lanzhou Institute of Husbandry and Pharmaceutical Sciences, Chinese Academy of Agricultural Sciences, Lanzhou, China
- Key Laboratory for Yak Genetics, Breeding, and Reproduction Engineering of Gansu Province, Lanzhou, China
| | - Xiaoyun Wu
- Animal Science Department, Lanzhou Institute of Husbandry and Pharmaceutical Sciences, Chinese Academy of Agricultural Sciences, Lanzhou, China
- Key Laboratory for Yak Genetics, Breeding, and Reproduction Engineering of Gansu Province, Lanzhou, China
| | - Qudratullah Kalwar
- Department of Animal Reproduction, Shaheed Benazir Bhutto University of Veterinary and Animal Sciences, Sakrand, Pakistan
| | - Ping Yan
- Animal Science Department, Lanzhou Institute of Husbandry and Pharmaceutical Sciences, Chinese Academy of Agricultural Sciences, Lanzhou, China
- Key Laboratory for Yak Genetics, Breeding, and Reproduction Engineering of Gansu Province, Lanzhou, China
| | - Xian Guo
- Animal Science Department, Lanzhou Institute of Husbandry and Pharmaceutical Sciences, Chinese Academy of Agricultural Sciences, Lanzhou, China
- Key Laboratory for Yak Genetics, Breeding, and Reproduction Engineering of Gansu Province, Lanzhou, China
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6
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Briggs RK, Christensen RC, Quarnberg SM, Legako JF, Raymond RC, MacNeil MD, Thornton KJ. Relationship Between Meat Quality, Carcass Characteristics, and Protein Abundance of HSPβ1, HSPA, and DJ1 in Beef Longissimus thoracis Pre-Rigor or After 14 Days’ Aging. MEAT AND MUSCLE BIOLOGY 2021. [DOI: 10.22175/mmb.11685] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022] Open
Abstract
This study evaluated associations of heat shock proteins (HSP) and an oxidative stress protein, protein deglycase (DJ1), with beef quality and tenderness. Samples from the longissimus thoracis (N = 99) were collected pre-rigor (day 0) and after 14-d aging. Warner-Bratzler shear force (WBSF), myofibrillar fragmentation index (MFI), and a trained sensory panel were used to determine meat quality. Protein abundance of DJ1 and 2 HSP—HSPβ1 and HSPA—were assessed. Regression analyses demonstrated that DJ1 abundance after 14 d of aging is a predictor of WBSF (P < 0.001), MFI (P = 0.02), and sensory panel tenderness (P < 0.001). Abundance of HSPβ1 after 14 d of aging is also a predictor of MFI (P = 0.03). Additionally, abundance of both HSPβ1 and DJ1 pre-rigor are predictors of juiciness (P < 0.05). Abundance of HSPβ1 pre-rigor was correlated with WBSF (R = 0.67), sensory panel tenderness (R = −0.44), juiciness (R = −0.30), and umami (R = −0.20). Abundance of DJ1 pre-rigor was also correlated with WBSF (R = 0.72), sensory panel tenderness (R = −0.44), juiciness (R = − 0.24), and umami (R = −0.31). After 14-d aging, HSP β 1 abundance was cor- related with WBSF (R = 0.66), sensory panel tenderness (R = −0.34), juiciness (R = −0.34), umami (R = −0.33), and brown/ roasted (R = −0.30). Abundance of DJ1 after 14-d aging was also correlated with WBSF (R = 0.68), sensory panel tenderness (R = −0.41), juiciness (R = −0.21), and umami (R = −0.28). These results demonstrate that abundance of HSPβ1 and DJ1 both pre-rigor and after 14 d of aging are correlated with meat tenderness and end-product quality as assessed by a trained sensory panel. Regression analyses further reveal that abundance of DJ1 and HSPβ1 after 14 d of aging is causative in development of beef tenderness and juiciness, respectively. Taken together, these results suggest that abundance of DJ1 is a predictor of tenderness, whereas abundance of HSPβ1 is related to meat quality but cannot be used to predict tenderness.
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Affiliation(s)
- Reganne K. Briggs
- Utah State University Department of Animal, Dairy and Veterinary Sciences
| | | | | | | | | | | | - Kara J. Thornton
- Utah State University Department of Animal, Dairy and Veterinary Sciences
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7
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Zhao C, Ji G, Carrillo JA, Li Y, Tian F, Baldwin RL, Zan L, Song J. The Profiling of DNA Methylation and Its Regulation on Divergent Tenderness in Angus Beef Cattle. Front Genet 2020; 11:939. [PMID: 33005170 PMCID: PMC7479246 DOI: 10.3389/fgene.2020.00939] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2019] [Accepted: 07/28/2020] [Indexed: 01/18/2023] Open
Abstract
Beef is an essential food source in the world. Beef quality, especially tenderness, has a significant impact on consumer satisfaction and industry profit. Many types of research to date have focused on the exploration of physiological and developmental mechanisms of beef tenderness. Still, the role and impact of DNA methylation status on beef tenderness have yet to be elucidated. In this study, we exhaustively analyzed the DNA methylation status in divergent tenderness observed in Angus beef. We characterized the methylation profiles related to beef tenderness and explored methylation distributions on the whole genome. As a result, differentially methylated regions (DMRs) associated with tenderness and toughness of beef were identified. Importantly, we annotated these DMRs on the bovine genome and explored bio-pathways of underlying genes and methylation biomarkers in beef quality. Specifically, we observed that the ATP binding cassette subfamily and myosin-related genes were highly methylated gene sets, and generation of neurons, regulation of GTPase activity, ion transport and anion transport, etc., were the significant pathways related with beef tenderness. Moreover, we explored the relationship between DNA methylation and gene expression in DMRs. Some methylated genes were identified as candidate biomarkers for beef tenderness. These results provide not only novel epigenetic information associated with beef quality but offer more significant insights into meat science, which will further help us explore the mechanism of muscle biology.
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Affiliation(s)
- Chunping Zhao
- College of Animal Science and Technology, Northwest A&F University, Xianyang, China.,Department of Animal and Avian Sciences, University of Maryland, College Park, MD, United States
| | - Guanyu Ji
- Shenzhen GenDo Health Sci&Tech Ltd., Shenzhen, China
| | - José A Carrillo
- Department of Animal and Avian Sciences, University of Maryland, College Park, MD, United States
| | - Yaokun Li
- College of Animal Science and Technology, Northwest A&F University, Xianyang, China.,Department of Animal and Avian Sciences, University of Maryland, College Park, MD, United States
| | - Fei Tian
- Department of Animal and Avian Sciences, University of Maryland, College Park, MD, United States
| | - Ransom L Baldwin
- Animal Genomics and Improvement Laboratory, BARC, NEA, USDA, Beltsville, MD, United States
| | - Linsen Zan
- College of Animal Science and Technology, Northwest A&F University, Xianyang, China
| | - Jiuzhou Song
- Department of Animal and Avian Sciences, University of Maryland, College Park, MD, United States
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8
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Hocquette JF, Ellies-Oury MP, Legrand I, Pethick D, Gardner G, Wierzbicki J, Polkinghorne RJ. Research in Beef Tenderness and Palatability in the Era of Big Data. MEAT AND MUSCLE BIOLOGY 2020. [DOI: 10.22175/mmb.9488] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022] Open
Abstract
For decades, research has focused on predicting beef palatability using muscle biochemical traits, and various biomarkers. In these approaches, a precise definition of the variable to predict (tenderness assessed by panelists, untrained consumers, or shear force), and repeatability of the measurements are crucial for creating significant data resources for the derivation of robust predictive models, and rigorous validation testing. This “big data” approach also requires careful definition of traits and transparent principles for data sharing and management. As in other fields, meat science researchers should improve the Findability, Accessibility, Interoperability, and Reuse of data (known as the FAIR principles). Furthermore, with the rapid evolution of new measurement technologies, the traits that they measure must be consistently described, enhancing our ability to integrate these new measurements into existing description systems. For beef, strategic choices have been made in order to consider real consumers’ expectations, not well estimated correctly by lab approaches. This strategy has been successfully developed in Australia, which set up the “Meat Standards Australia” grading scheme, now partly adopted by the beef industry. The ambitions of the International Meat Research 3G Foundation is to develop beef ontology, to set up an international database with a huge number of consumers’ scores related to beef palatability and collected according to standard protocols. The foundation also aims to support the beef industry by offering an international predictive model of beef palatability, flexible enough to take into account any local livestock characteristics or regional consumer specificity. This approach is supported by the United Nations Economic Commission for Europe (UNECE), which is promoting development of regulations and norms, technical cooperation and exchange of best expertise and practices. This will substantially improve the transparency of data flow and price signaling between all participants of the value chain, from beef producers through to consumers at retail.
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Affiliation(s)
| | | | - Isabelle Legrand
- Institut de l’Elevage Service Qualité des Carcasses et des Viandes
| | - David Pethick
- Murdoch University School of Veterinary and Life Sciences
| | - Graham Gardner
- Murdoch University School of Veterinary and Life Sciences
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9
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Boudon S, Henry-Berger J, Cassar-Malek I. Aggregation of Omic Data and Secretome Prediction Enable the Discovery of Candidate Plasma Biomarkers for Beef Tenderness. Int J Mol Sci 2020; 21:E664. [PMID: 31963926 PMCID: PMC7013622 DOI: 10.3390/ijms21020664] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2019] [Revised: 01/15/2020] [Accepted: 01/16/2020] [Indexed: 12/18/2022] Open
Abstract
Beef quality is a complex phenotype that can be evaluated only after animal slaughtering. Previous research has investigated the potential of genetic markers or muscle-derived proteins to assess beef tenderness. Thus, the use of low-invasive biomarkers in living animals is an issue for the beef sector. We hypothesized that publicly available data may help us discovering candidate plasma biomarkers. Thanks to a review of the literature, we built a corpus of articles on beef tenderness. Following data collection, aggregation, and computational reconstruction of the muscle secretome, the putative plasma proteins were searched by comparison with a bovine plasma proteome atlas and submitted to mining of biological information. Of the 44 publications included in the study, 469 unique gene names were extracted for aggregation. Seventy-one proteins putatively released in the plasma were revealed. Among them 13 proteins were predicted to be secreted in plasma, 44 proteins as hypothetically secreted in plasma, and 14 additional candidate proteins were detected thanks to network analysis. Among these 71 proteins, 24 were included in tenderness quantitative trait loci. The in-silico workflow enabled the discovery of candidate plasma biomarkers for beef tenderness from reconstruction of the secretome, to be examined in the cattle plasma proteome.
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Affiliation(s)
- Sabrina Boudon
- Université Clermont Auvergne, INRAE, VetAgro Sup, UMR Herbivores, F-63122 Saint-Genes-Champanelle, France;
| | - Joelle Henry-Berger
- Université Clermont Auvergne, GReD, UMR CNRS 6293–Inserm U1103, 63001 Clermont-Ferrand, France;
| | - Isabelle Cassar-Malek
- Université Clermont Auvergne, INRAE, VetAgro Sup, UMR Herbivores, F-63122 Saint-Genes-Champanelle, France;
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10
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Berri C, Picard B, Lebret B, Andueza D, Lefèvre F, Le Bihan-Duval E, Beauclercq S, Chartrin P, Vautier A, Legrand I, Hocquette JF. Predicting the Quality of Meat: Myth or Reality? Foods 2019; 8:E436. [PMID: 31554284 PMCID: PMC6836130 DOI: 10.3390/foods8100436] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2019] [Revised: 09/16/2019] [Accepted: 09/20/2019] [Indexed: 01/19/2023] Open
Abstract
This review is aimed at providing an overview of recent advances made in the field of meat quality prediction, particularly in Europe. The different methods used in research labs or by the production sectors for the development of equations and tools based on different types of biological (genomic or phenotypic) or physical (spectroscopy) markers are discussed. Through the various examples, it appears that although biological markers have been identified, quality parameters go through a complex determinism process. This makes the development of generic molecular tests even more difficult. However, in recent years, progress in the development of predictive tools has benefited from technological breakthroughs in genomics, proteomics, and metabolomics. Concerning spectroscopy, the most significant progress was achieved using near-infrared spectroscopy (NIRS) to predict the composition and nutritional value of meats. However, predicting the functional properties of meats using this method-mainly, the sensorial quality-is more difficult. Finally, the example of the MSA (Meat Standards Australia) phenotypic model, which predicts the eating quality of beef based on a combination of upstream and downstream data, is described. Its benefit for the beef industry has been extensively demonstrated in Australia, and its generic performance has already been proven in several countries.
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Affiliation(s)
- Cécile Berri
- UMR Biologie des Oiseaux et Aviculture, INRA, Université de Tours, 37380 Nouzilly, France.
| | - Brigitte Picard
- UMR Herbivores, INRA, VetAgro Sup, Theix, 63122 Saint-Genès Champanelle, France.
| | - Bénédicte Lebret
- UMR Physiologie, Environnement et Génétique pour l'Animal et les Systèmes d'Élevage, INRA, AgroCampus Ouest, 35590 Saint-Gilles, France.
| | - Donato Andueza
- UMR Herbivores, INRA, VetAgro Sup, Theix, 63122 Saint-Genès Champanelle, France.
| | - Florence Lefèvre
- Laboratoire de Physiologie et Génomique des poissons, INRA, 35000 Rennes, France.
| | | | - Stéphane Beauclercq
- UMR Biologie des Oiseaux et Aviculture, INRA, Université de Tours, 37380 Nouzilly, France.
| | - Pascal Chartrin
- UMR Biologie des Oiseaux et Aviculture, INRA, Université de Tours, 37380 Nouzilly, France.
| | - Antoine Vautier
- Institut du porc, La motte au Vicomte, 35651 Le Rheu, CEDEX, France.
| | - Isabelle Legrand
- Institut de l'Elevage, Maison Régionale de l'Agriculture-Nouvelle Aquitaine, 87000 Limoges, France.
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Arora R, S. NK, S. S, Fairoze MN, Kaur M, Sharma A, Girdhar Y, M. SR, Devatkal SK, Ahlawat S, Vijh RK, S. MS. Transcriptome profiling of longissimus thoracis muscles identifies highly connected differentially expressed genes in meat type sheep of India. PLoS One 2019; 14:e0217461. [PMID: 31170190 PMCID: PMC6553717 DOI: 10.1371/journal.pone.0217461] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2018] [Accepted: 05/13/2019] [Indexed: 12/16/2022] Open
Abstract
This study describes the muscle transcriptome profile of Bandur breed, a consumer favoured, meat type sheep of India. The transcriptome was compared to the less desirable, unregistered local sheep population, in order to understand the molecular factors related to muscle traits in Indian sheep breeds. Bandur sheep have tender muscles and higher backfat thickness than local sheep. The longissimus thoracis transcriptome profiles of Bandur and local sheep were obtained using RNA sequencing (RNA Seq). The animals were male, non-castrated, with uniform age and reared under similar environment, as well as management conditions. We could identify 568 significantly up-regulated and 538 significantly down-regulated genes in Bandur sheep (p≤0.05). Among these, 181 up-regulated and 142 down-regulated genes in Bandur sheep, with a fold change ≥1.5, were considered for further analysis. Significant Gene Ontology terms for the up-regulated dataset in Bandur sheep included transporter activity, substrate specific transmembrane, lipid and fatty acid binding. The down-regulated activities in Bandur sheep were mainly related to RNA degradation, regulation of ERK1 and ERK2 cascades and innate immune response. The MAPK signaling pathway, Adipocytokine signaling pathway and PPAR signaling pathway were enriched for Bandur sheep. The highly connected genes identified by network analysis were CNOT2, CNOT6, HSPB1, HSPA6, MAP3K14 and PPARD, which may be important regulators of energy metabolism, cellular stress and fatty acid metabolism in the skeletal muscles. These key genes affect the CCR4-NOT complex, PPAR and MAPK signaling pathways. The highly connected genes identified in this study, form interesting candidates for further research on muscle traits in Bandur sheep.
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Affiliation(s)
- Reena Arora
- ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana, India
- * E-mail:
| | - Naveen Kumar S.
- Karnataka Veterinary Animal and Fisheries Sciences University, Bangalore, Karnataka, India
| | - Sudarshan S.
- Karnataka Veterinary Animal and Fisheries Sciences University, Bangalore, Karnataka, India
| | - Mohamed Nadeem Fairoze
- Karnataka Veterinary Animal and Fisheries Sciences University, Bangalore, Karnataka, India
| | - Mandeep Kaur
- ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana, India
| | - Anju Sharma
- ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana, India
| | - Yashila Girdhar
- ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana, India
| | - Sreesujatha R. M.
- Karnataka Veterinary Animal and Fisheries Sciences University, Bangalore, Karnataka, India
| | | | - Sonika Ahlawat
- ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana, India
| | - Ramesh Kumar Vijh
- ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana, India
| | - Manjunatha S. S.
- Karnataka Veterinary Animal and Fisheries Sciences University, Bangalore, Karnataka, India
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12
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Temizkan MC, Bayraktaroglu AG, Kahraman T. Differential expression analysis of meat tenderness governing genes in different skeletal muscles of bovines. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2019; 99:3240-3245. [PMID: 30338532 DOI: 10.1002/jsfa.9434] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2018] [Revised: 10/15/2018] [Accepted: 10/15/2018] [Indexed: 06/08/2023]
Abstract
BACKGROUND The aim of this study was to compare 12 different skeletal muscles of bovine (n = 15) with each other in terms of tenderness and meat-quality-related gene expressions. Tenderness values were evaluated by shear force, and ANK1, CAPN1, CAST, HSPB1, HSPA1A gene expressions were analyzed by using quantitative real-time polymerase chain reaction. RESULTS ANK1 gene showed significant differences between tender and tough muscles (P < 0.001) and was found to be more closely related to meat quality than CAPN1. No difference was found for CAST, HSPB1, and HSPA1A gene expressions between different parts of skeletal muscles (P > 0.05). The results also showed that the most convenient skeletal muscle for the meat quality studies is musculus psoas major. Furthermore, comparative use of musculus longissimus thoracis and musculus extensor digitorum muscles may give the most accurate results, rather than using other muscle groups in comparative studies between tender and tough muscles. CONCLUSION ANK1 gene is a preferable biomarker for the determination of meat quality, and CAPN1 needs further studies. However, CAST, HSPB1, and HSPA1A genes may not be suitable biomarkers for the determination of meat quality based on this study. © 2018 Society of Chemical Industry.
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Affiliation(s)
- Mehmet C Temizkan
- Department of Genetics, Institute of Health Sciences, Ankara University, Ankara, Turkey
| | - Alev G Bayraktaroglu
- Faculty of Veterinary Medicine, Department of Histology and Embryology, Ankara University, Ankara, Turkey
| | - Tolga Kahraman
- Faculty of Veterinary Medicine, Department of Food Hygiene and Technology, Istanbul University, Istanbul, Turkey
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13
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Costa ASH, Costa P, Alves SP, Alfaia CM, Prates JAM, Vleck V, Cassar-Malek I, Hocquette JF, Bessa RJB. Does growth path influence beef lipid deposition and fatty acid composition? PLoS One 2018; 13:e0193875. [PMID: 29614102 PMCID: PMC5882120 DOI: 10.1371/journal.pone.0193875] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2017] [Accepted: 02/19/2018] [Indexed: 11/18/2022] Open
Abstract
Despite the recent advances in transcriptomics, gene expression studies addressing cattle´s skeletal muscle adaptations in response to compensatory growth are warranted, particularly regarding lipid metabolism due to its impact in meat sensory and nutritional traits. In the present study, in comparison to ad libitum feeding, a period of feed restriction was used in order to understand the changes in bull´s lipid metabolism and gene expression of the adipogenic and lipogenic pathways after re-alimentation. Thus, 40 young Alentejana bulls were either fed ad libitum (CG group) from 9 to 18 months of age or subjected to food restriction from 9 to 15 months of age, and fed ad libitum until 24 months of age (DG group). The intramuscular fat (IMF) and total fatty acids (FA) contents were similar between groups. The major FA (>2%) contents were similar (16:0, 16:1c9, 18:1c9 and 18:2n-6) between treatments with the exception of 18:0 content that was 15% lower in DG than in CG and 20:4n-6 that tended to be greater on DG bulls. Regarding minor FA (<2%), the DG group presented greater proportions (P<0.01) of 17:1c9, 18:1t9, 18:1t10 (, 18:1c11), 18:1c13, 18:3n-6, 22:0, 22:4n-6 and 22:6n-3 and lower (P<0.05) proportions of 20:0, 18:1t16+c14, and branched chain FA (iso-15:0, anteiso-15:0, iso-16:0 and anteiso-17:0) than the CG group. Delta-9 desaturase activity indices were consistently greater (P<0.05) in DG, when compared to the CG group. Regarding microarray analysis, differentially expressed genes between CG and DG bulls were grouped in 5 main biological functions: lipid and nucleic acid metabolisms, small molecule biochemistry, molecular transport and translational modification. Discontinuous growth down-regulated the expression of ACACB (FC (fold-change) = 1.32), FABP3 (FC = 1.45), HADHA (FC = 1.41) and SLC37A4 (FC = 1.40) genes, when compared to the CG system (FDR<0.05). In contrast, in the CG bulls, the expression of ELOVL5 (FC = 1.58) and FASN (FC = 1.71) was down-regulated when compared to DG bulls. These results were confirmed to be significant (P<0.05) in the case of ELOVL5, FASN and SLC37A4, and almost significant for FABP3 by qRT-PCR analysis. The SCD1 and SCD5 gene expressions were not found to be affected by growth path. These results contribute to the still scarce knowledge about the mechanisms involved in fatty acid metabolism during compensatory growth which have decisive role on meat quality produced in Mediterranean areas.
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Affiliation(s)
- Ana S. H. Costa
- CIISA – Centro de Investigação Interdisciplinar em Sanidade Animal, Faculdade de Medicina Veterinária, Universidade de Lisboa, Avenida da Universidade Técnica, Pólo Universitário do Alto da Ajuda, Lisboa, Portugal
| | - Paulo Costa
- CIISA – Centro de Investigação Interdisciplinar em Sanidade Animal, Faculdade de Medicina Veterinária, Universidade de Lisboa, Avenida da Universidade Técnica, Pólo Universitário do Alto da Ajuda, Lisboa, Portugal
- * E-mail:
| | - Susana P. Alves
- CIISA – Centro de Investigação Interdisciplinar em Sanidade Animal, Faculdade de Medicina Veterinária, Universidade de Lisboa, Avenida da Universidade Técnica, Pólo Universitário do Alto da Ajuda, Lisboa, Portugal
| | - Cristina M. Alfaia
- CIISA – Centro de Investigação Interdisciplinar em Sanidade Animal, Faculdade de Medicina Veterinária, Universidade de Lisboa, Avenida da Universidade Técnica, Pólo Universitário do Alto da Ajuda, Lisboa, Portugal
| | - José A. M. Prates
- CIISA – Centro de Investigação Interdisciplinar em Sanidade Animal, Faculdade de Medicina Veterinária, Universidade de Lisboa, Avenida da Universidade Técnica, Pólo Universitário do Alto da Ajuda, Lisboa, Portugal
| | - Veronica Vleck
- CIPER – Faculdade de Motricidade Humana, Universidade de Lisboa, Estrada da costa, Cruz Quebrada-Dafundo, Lisboa, Portugal
| | - Isabelle Cassar-Malek
- INRA, UR 1213, Unité de Recherches sur les Herbivores (URH), Theix, Saint-Genés Champanelle, France
- Clermont Université, VetAgro Sup, UMR1213, Herbivores, Clermont-Ferrand, France
| | - Jean-François Hocquette
- INRA, UR 1213, Unité de Recherches sur les Herbivores (URH), Theix, Saint-Genés Champanelle, France
- Clermont Université, VetAgro Sup, UMR1213, Herbivores, Clermont-Ferrand, France
| | - Rui J. B. Bessa
- CIISA – Centro de Investigação Interdisciplinar em Sanidade Animal, Faculdade de Medicina Veterinária, Universidade de Lisboa, Avenida da Universidade Técnica, Pólo Universitário do Alto da Ajuda, Lisboa, Portugal
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Reverse phase protein arrays for the identification/validation of biomarkers of beef texture and their use for early classification of carcasses. Food Chem 2018; 250:245-252. [PMID: 29412918 DOI: 10.1016/j.foodchem.2018.01.070] [Citation(s) in RCA: 33] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2017] [Revised: 01/04/2018] [Accepted: 01/09/2018] [Indexed: 01/25/2023]
Abstract
The validation of biomarkers and tools for the prediction of beef texture remains a challenging task. In this study, reverse phase protein arrays (RPPA) quantified 29 protein biomarkers in the m. Longissimus thoracis of Charolais cattle sampled early post-mortem. Myosin heavy chain 1 (MHC1, slow-oxidative fibers) and Retinal dehydrogenase 1 (ALDH1A1, oxidative enzyme) discriminated between tender and juicy vs. tough meat with residues classes and are validated as prime biomarkers of beef texture. Several proteins belonging to energy metabolism, heat shock and oxidative stress, cytoskeletal, cell signaling and apoptosis were related with tenderness. Among the unusual proteins, Four and a half LIM domains 1 (FHL1) and Tripartite motif protein 72 (TRIM72) correlated respectively negatively and positively with beef tenderness. Principal component regression was used for the first time to explain beef texture traits using biomarkers. The results are very promising as they revealed sophisticated mechanisms behind the tenderizing process.
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15
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Cassar-Malek I, Boby C, Picard B, Reverter A, Hudson NJ. Molecular regulation of high muscle mass in developing Blonde d'Aquitaine cattle foetuses. Biol Open 2017; 6:1483-1492. [PMID: 28838967 PMCID: PMC5665461 DOI: 10.1242/bio.024950] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The Blonde d'Aquitaine (BA) is a French cattle breed with enhanced muscularity, partly attributable to a MSTN mutation. The BA m. Semitendinosus has a faster muscle fibre isoform phenotype comprising a higher proportion of fast type IIX fibres compared to age-matched Charolais (CH). To better understand the molecular network of modifications in BA compared to CH muscle, we assayed the transcriptomes of the m. Semitendinosus at 110, 180, 210 and 260 days postconception (dpc). We used a combination of differential expression (DE) and regulatory impact factors (RIF) to compare and contrast muscle gene expression between the breeds. Prominently developmentally regulated genes in both breeds reflected the replacement of embryonic myosin isoforms (MYL4, MYH3) with adult isoforms (MYH1) and the upregulation of mitochondrial metabolism (CKMT2, AGXT2L1) in preparation for birth. However, the transition to a fast, glycolytic muscle phenotype in the MSTN mutant BA is detectable through downregulation of various slow twitch subunits (TNNC1, MYH7, TPM3, CSRP3) beyond 210 dpc, and a small but consistent genome-wide reduction in mRNA encoding the mitoproteome. Across the breeds, NRIP2 is the regulatory gene possessing a network change most similar to that of MSTN. Summary: We explored the molecular basis of high muscle mass in Blonde d’Aquitaine cattle, and found that mRNA encoding slow fibres and mitochondrial proteins were downregulated in this breed.
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Affiliation(s)
- Isabelle Cassar-Malek
- UMR1213 Herbivores, Institut National de la Recherche Agronomique, VetAgro Sup, 63122 Saint Genès Champanelle, Clermont-Ferrand F-63122, France
| | - Céline Boby
- UMR1213 Herbivores, Institut National de la Recherche Agronomique, VetAgro Sup, 63122 Saint Genès Champanelle, Clermont-Ferrand F-63122, France
| | - Brigitte Picard
- UMR1213 Herbivores, Institut National de la Recherche Agronomique, VetAgro Sup, 63122 Saint Genès Champanelle, Clermont-Ferrand F-63122, France
| | - Antonio Reverter
- Agriculture, Commonwealth Science and Industrial Research Organisation, Queensland Bioscience Precinct, St. Lucia, Brisbane 4075, Australia
| | - Nicholas J Hudson
- School of Agriculture and Food Sciences, University of Queensland, Brisbane 4075, Australia
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16
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Tricarico D, Selvaggi M, Passantino G, De Palo P, Dario C, Centoducati P, Tateo A, Curci A, Maqoud F, Mele A, Camerino GM, Liantonio A, Imbrici P, Zizzo N. ATP Sensitive Potassium Channels in the Skeletal Muscle Function: Involvement of the KCNJ11(Kir6.2) Gene in the Determination of Mechanical Warner Bratzer Shear Force. Front Physiol 2016; 7:167. [PMID: 27242541 PMCID: PMC4862255 DOI: 10.3389/fphys.2016.00167] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2016] [Accepted: 04/25/2016] [Indexed: 12/25/2022] Open
Abstract
The ATP-sensitive K+-channels (KATP) are distributed in the tissues coupling metabolism with K+ ions efflux. KATP subunits are encoded by KCNJ8 (Kir6.1), KCNJ11 (Kir6.2), ABCC8 (SUR1), and ABCC9 (SUR2) genes, alternative RNA splicing give rise to SUR variants that confer distinct physiological properties on the channel. An high expression/activity of the sarco-KATP channel is observed in various rat fast-twitch muscles, characterized by elevated muscle strength, while a low expression/activity is observed in the slow-twitch muscles characterized by reduced strength and frailty. Down-regulation of the KATP subunits of fast-twitch fibers is found in conditions characterized by weakness and frailty. KCNJ11 gene knockout mice have reduced glycogen, lean phenotype, lower body fat, and weakness. KATP channel is also a sensor of muscle atrophy. The KCNJ11 gene is located on BTA15, close to a QTL for meat tenderness, it has also a role in glycogen storage, a key mechanism of the postmortem transformation of muscle into meat. The role of KCNJ11 gene in muscle function may underlie an effect of KCNJ11 genotypes on meat tenderness, as recently reported. The fiber phenotype and genotype are important in livestock production science. Quantitative traits including meat production and quality are influenced both by environment and genes. Molecular markers can play an important role in the genetic improvement of animals through breeding strategies. Many factors influence the muscle Warner-Bratzler shear force including breed, age, feeding, the biochemical, and functional parameters. The role of KCNJ11gene and related genes on muscle tenderness will be discussed in the present review.
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Affiliation(s)
- Domenico Tricarico
- Department of Pharmacy-Drug Science, University of Bari Aldo Moro Bari, Italy
| | - Maria Selvaggi
- Section of Veterinary Science and Animal Production, Department of Emergency and Organ Transplantation (DETO), University of Bari Aldo Moro Valenzano, Italy
| | | | - Pasquale De Palo
- Department of Veterinary Medicine, University of Bari Aldo Moro Bari, Italy
| | - Cataldo Dario
- Section of Veterinary Science and Animal Production, Department of Emergency and Organ Transplantation (DETO), University of Bari Aldo Moro Valenzano, Italy
| | | | - Alessandra Tateo
- Department of Veterinary Medicine, University of Bari Aldo Moro Bari, Italy
| | - Angela Curci
- Department of Pharmacy-Drug Science, University of Bari Aldo Moro Bari, Italy
| | - Fatima Maqoud
- Department of Pharmacy-Drug Science, University of Bari Aldo MoroBari, Italy; Faculty of Science, Chouaib Doukkali UniversityEl Jadida, Morocco
| | - Antonietta Mele
- Department of Pharmacy-Drug Science, University of Bari Aldo Moro Bari, Italy
| | - Giulia M Camerino
- Department of Pharmacy-Drug Science, University of Bari Aldo Moro Bari, Italy
| | - Antonella Liantonio
- Department of Pharmacy-Drug Science, University of Bari Aldo Moro Bari, Italy
| | - Paola Imbrici
- Department of Pharmacy-Drug Science, University of Bari Aldo Moro Bari, Italy
| | - Nicola Zizzo
- Department of Veterinary Medicine, University of Bari Aldo Moro Bari, Italy
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17
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Expression Marker-Based Strategy to Improve Beef Quality. ScientificWorldJournal 2016; 2016:2185323. [PMID: 27066527 PMCID: PMC4811623 DOI: 10.1155/2016/2185323] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2015] [Revised: 02/12/2016] [Accepted: 02/17/2016] [Indexed: 12/12/2022] Open
Abstract
For beef cattle research, a main objective is to control concomitantly the development of muscles and the qualities of beef cuts. Beef quality is a complex phenotype that is only detectable after slaughter and is highly variable. The beef industry is in need of tools to estimate beef quality of live cattle or online in abattoirs, with specific attention towards sensory attributes (tenderness, juiciness, flavour, and colour). Identification of relevant genetic and genomic markers is ongoing, especially for tenderness—a top priority quality attribute. In this paper, we describe the steps of an expression marker-based strategy to improve beef sensory quality, from the discovery of biomarkers that identify consistent beef and the biological functions governing beef tenderness to the integration of the knowledge into detection tests for desirable animals. These tools should soon be available for the management of sensory quality in the beef production chain for meeting market's demands and assuring good quality standards.
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18
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Saccà E, Corazzin M, Pizzutti N, Lippe G, Piasentier E. Earlypost mortemexpression of genes related to tenderization in two Italian Simmental young bulls' skeletal muscles differing in contractile type. Anim Sci J 2015; 86:992-9. [DOI: 10.1111/asj.12386] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2014] [Accepted: 12/19/2014] [Indexed: 11/30/2022]
Affiliation(s)
- Elena Saccà
- Department of Agricultural and Environmental Sciences; University of Udine; Udine Italy
| | - Mirco Corazzin
- Department of Agricultural and Environmental Sciences; University of Udine; Udine Italy
| | - Nicoletta Pizzutti
- Department of Agricultural and Environmental Sciences; University of Udine; Udine Italy
| | - Giovanna Lippe
- Department of Food Science; University of Udine; Udine Italy
| | - Edi Piasentier
- Department of Agricultural and Environmental Sciences; University of Udine; Udine Italy
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19
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Shabtay A. Adaptive traits of indigenous cattle breeds: The Mediterranean Baladi as a case study. Meat Sci 2015; 109:27-39. [PMID: 26025652 DOI: 10.1016/j.meatsci.2015.05.014] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2015] [Revised: 05/15/2015] [Accepted: 05/16/2015] [Indexed: 10/23/2022]
Abstract
Generally taken, breeds of Bos taurus ancestry are considered more productive, in comparison with Bos indicus derived breeds that present enhanced hardiness and disease resistance, low nutritional requirements and higher capability of feed utilization. While breeds of B. taurus have been mostly selected for intensive production systems, indigenous cattle, developed mostly from indicine and African taurines, flourish in extensive habitats. Worldwide demographic and economic processes face animal production with new challenges - the increasing demand for animal food products. Intensification of animal husbandry is thus a desired goal in stricken parts of the world. An introduction of productive traits to indigenous breeds might serve to generate improved biological and economic efficiencies. For this to succeed, the genetic merit of traits like efficiency of feed utilization and product quality should be revealed, encouraging the conservation initiatives of indigenous cattle populations, many of which are already extinct and endangered. Moreover, to overcome potential genetic homogeneity, controlled breeding practices should be undertaken. The Baladi cattle are a native local breed found throughout the Mediterranean basin. Purebred Baladi animals are rapidly vanishing, as more European breeds are being introduced or used for backcrosses leading to improved production. The superiority of Baladi over large-framed cattle, in feedlot and on Mediterranean pasture, with respect to adaptability and efficiency, is highlighted in the current review.
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Affiliation(s)
- Ariel Shabtay
- Agricultural Research Organization, Beef Cattle Section, Newe Ya'ar P.O. Box 1021, Israel.
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20
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Recent advances in omic technologies for meat quality management. Meat Sci 2015; 109:18-26. [PMID: 26002117 DOI: 10.1016/j.meatsci.2015.05.003] [Citation(s) in RCA: 62] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2015] [Revised: 05/10/2015] [Accepted: 05/11/2015] [Indexed: 12/24/2022]
Abstract
The knowledge of the molecular organization of living organisms evolved considerably during the last years. The methodologies associated also progressed with the development of the high-throughput sequencing (SNP array, RNAseq, etc.) and of genomic tools allowing the simultaneous analysis of hundreds or thousands of genes, proteins or metabolites. In farm animals, some proteins, mRNAs or metabolites whose abundance has been associated with meat quality traits have been detected in pig, cattle, chicken. They constitute biomarkers for the assessment and prediction of qualities of interest in each species, with potential biomarkers across species. The ongoing development of rapid methods will allow their use for decision-making and management tools in slaughterhouses, to better allocate carcasses or cuts to the appropriate markets. Besides, their application on living animals will help to improve genetic selection and to adapt a breeding system to fulfill expected quality level. The ultimate goal is to propose effective molecular tools for the management of product quality in meat production chains.
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21
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Zhao C, Zan L, Wang Y, Scott Updike M, Liu G, Bequette BJ, Baldwin VI RL, Song J. Functional proteomic and interactome analysis of proteins associated with beef tenderness in Angus cattle. Livest Sci 2014. [DOI: 10.1016/j.livsci.2013.11.030] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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22
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Sadkowski T, Ciecierska A, Majewska A, Oprządek J, Dasiewicz K, Ollik M, Wicik Z, Motyl T. Transcriptional background of beef marbling - novel genes implicated in intramuscular fat deposition. Meat Sci 2014; 97:32-41. [PMID: 24491505 DOI: 10.1016/j.meatsci.2013.12.017] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2013] [Revised: 12/02/2013] [Accepted: 12/24/2013] [Indexed: 01/04/2023]
Abstract
The purpose of this study was to identify novel marbling-related genes by comparison of the global gene expression in semitendinosus muscle of 15-month-old Limousin (LIM), Holstein-Friesian (HF) and Hereford (HER) bulls. Muscle of LIM was lean with low intramuscular fat (IMF) content (0.53%) unlike the marbled muscles of HER and HF characterized by higher amounts of IMF (1.10 and 0.81%, respectively). The comparison of muscle transcriptional profile between marbled and lean beef revealed significant differences in expression of 144 genes, presumably involved in consecutive stages of adipose tissue development, such as preadipocyte proliferation and differentiation, adipocyte maturation, lipid filling and lipid metabolism leading to increased IMF deposition and marbling development. Correlation coefficients and regression analysis for nine of them (gadd45a, pias3, ccrn4l, diras3, pou5f1, hoxa9, atp2a2 and pim1) validated by real-time qPCR confirmed their moderate-high correlation with IMF% and explained up to 70.5% of the total variability in IMF deposition in the bulls.
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Affiliation(s)
- T Sadkowski
- Department of Physiological Sciences, Faculty of Veterinary Medicine, Warsaw University of Life Sciences - SGGW, Warsaw, Poland.
| | - A Ciecierska
- Department of Physiological Sciences, Faculty of Veterinary Medicine, Warsaw University of Life Sciences - SGGW, Warsaw, Poland
| | - A Majewska
- Department of Physiological Sciences, Faculty of Veterinary Medicine, Warsaw University of Life Sciences - SGGW, Warsaw, Poland
| | - J Oprządek
- Institute of Genetics and Animal Breeding, Polish Academy of Sciences, Jastrzębiec, Poland
| | - K Dasiewicz
- Department of Food Technology, Faculty of Food Sciences, Warsaw University of Life Sciences - SGGW, Warsaw, Poland
| | - M Ollik
- Department of Experimental Design and Bioinformatics, Warsaw University of Life Sciences - SGGW, Warsaw, Poland
| | - Z Wicik
- Department of Physiological Sciences, Faculty of Veterinary Medicine, Warsaw University of Life Sciences - SGGW, Warsaw, Poland
| | - T Motyl
- Department of Physiological Sciences, Faculty of Veterinary Medicine, Warsaw University of Life Sciences - SGGW, Warsaw, Poland
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23
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Hiller B. Recent developments in lipid metabolism in ruminants – the role of fat in maintaining animal health and performance. ANIMAL PRODUCTION SCIENCE 2014. [DOI: 10.1071/an14555] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
Optimising farm animal performance has long been the key focus of worldwide livestock production research. Advances in the understanding of metabolism/phenotype associations have outlined the central role of the lipid metabolism of farm animals for economically relevant phenotypic traits, such as animal health (immune status, fertility/reproductive capacity, adaptability/metabolic flexibility, robustness, well being) and performance aspects (meat/milk quality and quantity) and have led to an extensive exploitation of lipid metabolism manipulation strategies (e.g. tailored nutritional regimes, alimentary/intravenous fat supplementation, rumen-protected fat feeding, hormone application). This contribution gives an overview of established concepts to tailor animals’ lipid metabolism and highlights novel strategies to expand these application-oriented approaches via improved analysis tools, omics-approaches, cell model systems and systems biology methods.
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Hocquette JF, Botreau R, Legrand I, Polkinghorne R, Pethick DW, Lherm M, Picard B, Doreau M, Terlouw EMC. Win–win strategies for high beef quality, consumer satisfaction, and farm efficiency, low environmental impacts and improved animal welfare. ANIMAL PRODUCTION SCIENCE 2014. [DOI: 10.1071/an14210] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Meat quality includes intrinsic qualities (the characteristics of the product itself) and extrinsic qualities (e.g. animal health and welfare, environmental impacts, price). There is still a high level of variability in beef palatability, which induces consumer dissatisfaction. We also observe a general trend towards an increasing importance of healthiness and safety (intrinsic) and environmental issues and animal welfare (extrinsic). Most grading systems describe carcasses using only animal traits (e.g. weight, conformation, fatness, animal age and sex). In North American and Asian countries, emphasis has been put on maturity and marbling. The European system is mainly based on yield estimation. The Meat Standards Australia grading scheme, which predicts beef palatability for each cut, proved to be effective in predicting beef palatability in many other countries. Some genetic markers are available to improve beef quality. In addition, gene and protein expression profiling of the bovine muscle revealed that the expression level of many genes and the abundance of many proteins may be potential indicators of muscle mass, tenderness, flavour or marbling of meat. The integration of all these parameters is likely to predict better beef palatability. The integration of extrinsic qualities in the prediction model increases the difficulty of achieving a global evaluation of overall meat quality. For instance, with respect to environmental issues, each feeding system has its own advantages and disadvantages. Despite this, win–win strategies have been identified. For example, animals that were less stressed at slaughter also produced more tender meat, and in some studies the most economically efficient farms had the lowest environmental impact. In other cases, there are trade-offs among and between intrinsic and extrinsic qualities. In any case, the combination of the different integrative approaches appears promising to improve the prediction of overall beef quality. A relevant combination of indicators related to sensory and nutritional quality, social and environmental considerations (such as e.g. carbon footprint, animal welfare, grassland biodiversity, rural development) and economic efficiency (income of farmers and of other stakeholders of the supply chain, etc.) will allow the prediction of the overall quality of beef mainly for consumers but also for any stakeholder in the supply chain.
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Strydom PE, Rosenvold K. Muscle metabolism in sheep and cattle in relation to high rigor temperature – overview and perspective. ANIMAL PRODUCTION SCIENCE 2014. [DOI: 10.1071/an13437] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
An increasing number of Australian slaughter plants were found not to meet the Meat Standards Australia (MSA) pH–temperature window, due to high rigor temperatures, particularly at plants where grain-fed animals were slaughtered. Hence, the red meat processing industry in Australia supported a research program focused on resolving this issue, as carcasses that do not meet the MSA pH–temperature window are excluded from MSA grading. This special issue of Animal Production Science describes the outcomes of a major program identifying ante- and post-mortem factors related to heat-induced toughening in both beef and sheep meat through literature reviews and targeted research to find interventions to prevent the impact of high rigor temperature on meat quality, particularly tenderness. This paper provides an overview of the outcomes of the research program, some of which require further research before implementation. It is suggested that an entire supply-chain approach be applied to establish the most efficient and cost-effective way of reducing the incidence of high rigor temperature.
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Tizioto PC, Decker JE, Taylor JF, Schnabel RD, Mudadu MA, Silva FL, Mourão GB, Coutinho LL, Tholon P, Sonstegard TS, Rosa AN, Alencar MM, Tullio RR, Medeiros SR, Nassu RT, Feijó GLD, Silva LOC, Torres RA, Siqueira F, Higa RH, Regitano LCA. Genome scan for meat quality traits in Nelore beef cattle. Physiol Genomics 2013; 45:1012-20. [PMID: 24022219 DOI: 10.1152/physiolgenomics.00066.2013] [Citation(s) in RCA: 96] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
Abstract
Meat quality traits are economically important because they affect consumers' acceptance, which, in turn, influences the demand for beef. However, selection to improve meat quality is limited by the small numbers of animals on which meat tenderness can be evaluated due to the cost of performing shear force analysis and the resultant damage to the carcass. Genome wide-association studies for Warner-Bratzler shear force measured at different times of meat aging, backfat thickness, ribeye muscle area, scanning parameters [lightness, redness (a*), and yellowness] to ascertain color characteristics of meat and fat, water-holding capacity, cooking loss (CL), and muscle pH were conducted using genotype data from the Illumina BovineHD BeadChip array to identify quantitative trait loci (QTL) in all phenotyped Nelore cattle. Phenotype count for these animals ranged from 430 to 536 across traits. Meat quality traits in Nelore are controlled by numerous QTL of small effect, except for a small number of large-effect QTL identified for a*fat, CL, and pH. Genomic regions harboring these QTL and the pathways in which the genes from these regions act appear to differ from those identified in taurine cattle for meat quality traits. These results will guide future QTL mapping studies and the development of models for the prediction of genetic merit to implement genomic selection for meat quality in Nelore cattle.
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Affiliation(s)
- P C Tizioto
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, São Carlos, São Paulo, Brazil
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Kammoun M, Picard B, Henry-Berger J, Cassar-Malek I. A network-based approach for predicting Hsp27 knock-out targets in mouse skeletal muscles. Comput Struct Biotechnol J 2013; 6:e201303008. [PMID: 24688716 PMCID: PMC3962151 DOI: 10.5936/csbj.201303008] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2013] [Revised: 07/04/2013] [Accepted: 07/10/2013] [Indexed: 12/16/2022] Open
Abstract
Thanks to genomics, we have previously identified markers of beef tenderness, and computed a bioinformatic analysis that enabled us to build an interactome in which we found Hsp27 at a crucial node. Here, we have used a network-based approach for understanding the contribution of Hsp27 to tenderness through the prediction of its interactors related to tenderness. We have revealed the direct interactors of Hsp27. The predicted partners of Hsp27 included proteins involved in different functions, e.g. members of Hsp families (Hsp20, Cryab, Hsp70a1a, and Hsp90aa1), regulators of apoptosis (Fas, Chuk, and caspase-3), translation factors (Eif4E, and Eif4G1), cytoskeletal proteins (Desmin) and antioxidants (Sod1). The abundances of 15 proteins were quantified by Western blotting in two muscles of HspB1-null mice and their controls. We observed changes in the amount of most of the Hsp27 predicted targets in mice devoid of Hsp27 mainly in the most oxidative muscle. Our study demonstrates the functional links between Hsp27 and its predicted targets. It suggests that Hsp status, apoptotic processes and protection against oxidative stress are crucial for post-mortem muscle metabolism, subsequent proteolysis, and therefore for beef tenderness.
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Affiliation(s)
- Malek Kammoun
- INRA, UMR1213 Herbivores, F-63122 Saint-Genès-Champanelle, France
- Clermont University, VetAgro Sup, UMR1213 Herbivores, BP 10448, F-63000, Clermont-Ferrand, France
| | - Brigitte Picard
- INRA, UMR1213 Herbivores, F-63122 Saint-Genès-Champanelle, France
- Clermont University, VetAgro Sup, UMR1213 Herbivores, BP 10448, F-63000, Clermont-Ferrand, France
| | | | - Isabelle Cassar-Malek
- INRA, UMR1213 Herbivores, F-63122 Saint-Genès-Champanelle, France
- Clermont University, VetAgro Sup, UMR1213 Herbivores, BP 10448, F-63000, Clermont-Ferrand, France
- Corresponding author: E-mail address: (Isabelle Cassar-Malek)
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