Association between a non-synonymous HSD17B4 single nucleotide polymorphism and meat-quality traits in Berkshire pigs

Jo, Jung Hyun; Hwang, Jung Hye; Kwon, Seul Gi; Park, D H; Kim, T W; Kang, Dong Jin; Yu, Go Eun; Kim, I S; Ha, Ji Hee; Kim, C W

doi:10.4238/gmr15048970

Cited by 14 publications

(16 citation statements)

References 24 publications

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“…NT5E associated to Deoxycytidine in Landrace TP2 was identified as a candidate gene for RFI in the QTL database 46 . HSD17B4, which was associated to 3,4-Dihydroxy-L-phenylalanine in Duroc TP1, was identified as a candidate gene for carcass weight, backfat at tenth rib, and drip loss in Berkshire pigs 47 . Previous studies show the relation of FE with pork quality.…”

Section: Discussionmentioning

confidence: 99%

Metabolomic networks and pathways associated with feed efficiency and related-traits in Duroc and Landrace pigs

Carmelo

Banerjee

Diniz

et al. 2020

Sci Rep

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Improving feed efficiency (FE) is a major goal of pig breeding, reducing production costs and providing sustainability to the pig industry. Reliable predictors for fe could assist pig producers. We carried out untargeted blood metabolite profiling in uncastrated males from Danbred Duroc (n = 59) and Danbred Landrace (n = 50) pigs at the beginning and end of a FE testing phase to identify biomarkers and biological processes underlying fe and related traits. By applying linear modeling and clustering analyses coupled with WGCNA framework, we identified 102 and 73 relevant metabolites in Duroc and Landrace based on two sampling time points. Among them, choline and pyridoxamine were hub metabolites in Duroc in early testing phase, while, acetoacetate, cholesterol sulfate, xanthine, and deoxyuridine were identified in the end of testing. In Landrace, cholesterol sulfate, thiamine, L-methionine, chenodeoxycholate were identified at early testing phase, while, D-glutamate, pyridoxamine, deoxycytidine, and L-2-aminoadipate were found at the end of testing. Validation of these results in larger populations could establish fe prediction using metabolomics biomarkers. We conclude that it is possible to identify a link between blood metabolite profiles and FE. These results could lead to improved nutrient utilization, reduced production costs, and increased fe.With the expanding human population and requirement for nutrient-rich food, there is an increasing demand for improvement of meat production, but simultaneously, to decrease the input costs in terms of feed 1 . Thus, feed efficiency (FE) is the most important trait in commercial pig farming 2 as increasing the amount of meat produced per feed is beneficial both economically and environmentally. Thereby, improving FE is beneficial for producers and increases the sustainability of pork meat production. Fortunately, FE is a highly heritable trait in Danish pigs (ranging from 0.34 in Duroc to 0.40 in Landrace), thus suitable for the genetic selection of pigs with high breeding values in breeding programs aimed at improving this economically important phenotype 3 .Since FE cannot be measured directly, feed conversion ratio (FCR) and residual feed intake (RFI) have been used to evaluate the animal efficiency 4 . FCR determines the ratio of feed intake (FI) to output and found to correlate with growth rate and body weight 3,5 . RFI calculates the difference between the actual and expected FI 6 predicted based on production traits such as average daily gain (ADG) 7 . ADG is also considered important in commercial pig production as pigs with higher ADG can achieve a target market weight within a shorter period than those with lower ADG, thereby saving feeding costs 8 . Thus, selection for RFI has proved to be effective in improving the FE in pigs 3,9,10 . Selection for FCR will results in co-selection for other traits, such as body composition and ADG. In contrast, RFI selects for increased metabolic efficiency without the same side effects [11][12][13] . RFI and FCR are well c...

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Section: Discussionmentioning

confidence: 99%

Metabolomic networks and pathways associated with feed efficiency and related-traits in Duroc and Landrace pigs

Carmelo

Banerjee

Diniz

et al. 2020

Sci Rep

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“…an important role during the early stages of myogenesis when expression of its mRNA is significantly high[40].Lead SNPs, identified in this study, were located close or intercepted several strong functional candidate genes associated with body and growth traits in previous studies.Some genes were found in windows within 100 kb downstream and upstream from the lead SNP, such as COL4AI, located in LG16, associated with different body traits, including…”

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confidence: 49%

Multi-trait GWAS using high-density genotypes identifies genes associated with body traits in Nile tilapia

Yoshida¹,

Yáñez²

2020

Preprint

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Background: Body traits are generally controlled by several genes in vertebrates (i.e. polygenes), which in turn make them difficult to identify through association mapping. Increasing the power of association studies by combining approaches such as genotype imputation and multi-trait analysis improves the ability to detect quantitative trait loci associated with polygenic traits, such as body traits. Results: A multi-trait genome-wide association study (mtGWAS) was performed to identify quantitative trait loci (QTL) and genes associated with body traits in Nile tilapia (Oreochromos niloticus) using genotypes imputed to whole-genome sequence (WGS). To increase the statistical power of mtGWAS for the detection of genetic associations, summary statistics from single-trait genome-wide association studies (stGWAS) for eight different body traits recorded in 1,309 animals were used. The mtGWAS increased the statistical power from the original sample size from 13% to 44%, depending on the trait analyzed. The better resolution of the WGS data combined with the increased power of the mtGWAS approach, allowed the detection of significant markers not previously found in the stGWAS. Some lead single nucleotide polymorphisms (SNPs) were found within important functional candidate genes previously associated with growth-related traits. For instance, we identified SNP within the α1,6-fucosyltransferase (FUT8), solute carrier family 4 member 2 (SLC4A2), A disintegrin and metalloproteinase with thrombospondin motifs 9 (ADAMTS9) and heart development protein with EGF like domains 1 (HEG1) genes, which have been associated with average daily gain in sheep, osteopetrosis in cattle, chest size in goats, and growth and meat quality in sheep, respectively. Conclusions: The high-resolution mtGWAS presented, allowed identification of significant SNPs, linked to strong functional candidate genes, associated with body traits in Nile tilapia. These results provide further insights about the genetic variants and genes underlying body trait variation in cichlid fish with high accuracy and strong statistical support.

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“…The effect of animal energy on fatty acid composition has been demonstrated in several studies [ 33 , 34 ]. The enzymes 3-Oxoacyl-[acyl-carrier-protein] synthase (OXSM), oestradiol 17-beta-dehydrogenase 8 (HSD17B8) and malonate-CoA ligase ACSF3 (ACSF3) are involved in the positive regulation of the synthesis of SFAs, such as decanoic acid, dodecanoic acid, tetradecanoic acid, hexadecenoic acid and octadecanoic acid [ 35 , 36 ]. The expression levels of the OXSM , HSD17B8 and ACSF3 genes were downregulated in the subcutaneous fat of the yaks under ES ( q < 0.05).…”

Section: Discussionmentioning

confidence: 99%

The Study of the Response of Fat Metabolism to Long-Term Energy Stress Based on Serum, Fatty Acid and Transcriptome Profiles in Yaks

Xiong

Pei

et al. 2020

Animals

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Long-term energy stress (ES) during the cold season is a serious problem for the breeding of yaks. In this paper, the response of fat metabolism in yaks to long-term ES during the cold season was studied. Gas chromatography (GC) analysis showed that the percentage of saturated fatty acids (SFAs) in the subcutaneous fat of the yaks in the ES group was 42.7%, which was less than the 56.6% in the CO group (p < 0.01) and the percentage of polyunsaturated unsaturated fatty acids (PUFAs) in the subcutaneous fat of the yaks in the ES group was 38.3%, which was more than the 26.0% in the CO group (p < 0.01). The serum analysis showed that fatty acid oxidation in yaks was increased under long-term ES. In the subcutaneous fat of yaks under long-term ES, the gene expression levels of glycerol-3-phosphate acyltransferase 4 (GPAT4), hormone-sensitive lipase (HSL), patatin-like phospholipase domain-containing protein 2 (PNPLA2), acyl-CoA dehydrogenase (ACAD), acyl-coenzyme A thioesterase 8 (ACOT8), facilitated glucose transporter (GLUT4), 3-oxoacyl-[acyl-carrier-protein] synthase (OXSM), oestradiol 17-beta-dehydrogenase 8 (HSD17B8) and malonate-Co-A ligase ACSF3 (ACSF3) were downregulated (q < 0.05), whereas the gene expression levels of aquaporin-7 (AQP7), long-chain-fatty-acid-CoA ligase (ACSL), elongation of very long chain fatty acids protein (ELOVL) and fatty acid desaturase 1 (FADS1) were upregulated (q < 0.05), indicating the inhibition of fat catabolism, fat anabolism, fatty acid oxidation, glucose (GLU) intake and SFA synthesis and the promotion of glycerinum (GLY) transportation and PUFA synthesis. Additional findings showed that the gene expression levels of leptin (LEP), adenosine 5′-monophosphate-activated protein kinase (AMPK) and phosphatidylinositol 3-kinase (PI3K) were upregulated (q < 0.05), whereas the gene expression levels of malonyl-CoA decarboxylase (MCD), sterol regulatory element-binding protein 1 (SREBF1), mammalian target of rapamycin (mTOR) and serine/threonine-protein kinase (AKT) were downregulated (q < 0.05), indicating that fat metabolism in the subcutaneous fat of yaks under ES was mainly regulated by AMPK signaling and mTOR and PI3K-AKT signaling were also involved. Energy consumption was inhibited in the subcutaneous fat itself. This study can provide a theoretical basis for the healthy breeding and genetic breeding of yaks.

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Association between a non-synonymous HSD17B4 single nucleotide polymorphism and meat-quality traits in Berkshire pigs

Cited by 14 publications

References 24 publications

Metabolomic networks and pathways associated with feed efficiency and related-traits in Duroc and Landrace pigs

Metabolomic networks and pathways associated with feed efficiency and related-traits in Duroc and Landrace pigs

Multi-trait GWAS using high-density genotypes identifies genes associated with body traits in Nile tilapia

The Study of the Response of Fat Metabolism to Long-Term Energy Stress Based on Serum, Fatty Acid and Transcriptome Profiles in Yaks

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