Novel SNPs in the growth arrest and DNA damage-inducible protein 45 alpha gene (GADD45A) associated with meat quality traits in Berkshire pigs

Cho, E S; Lee, K T; Choi, Jung-Suk; Jeon, Hee Jung; Lee, S W; Cho, Y M; Kim, T H

doi:10.4238/2015.july.31.6

Cited by 9 publications

(7 citation statements)

References 28 publications

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“…GADD45A is up-regulated under stressful growth arrest conditions and by treatment with DNA-damaging agents. The protein encoded by this gene activates p38/JNK signaling via MEKK4/MTK1 kinase, which is known to regulate fat deposition in pork (Cho et al, 2015). In the present study, the expression of DUSP1 was fivefold higher in the LP group (13,073 reads) than in the HP group (2,380 reads), suggesting that high expression levels of DUSP1 modulate lipid metabolism and synthesis (Nukitrangsan et al, 2011).…”

Section: Discussionmentioning

confidence: 99%

Comparative Transcriptomic and Proteomic Analyses Identify Key Genes Associated With Milk Fat Traits in Chinese Holstein Cows

et al. 2019

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Milk fat is the most important energy substance in milk and contributes to its quality and health benefits. However, the genetic mechanisms underlying milk fat synthesis are not fully understood. The development of RNA sequencing and tandem mass tag technologies has facilitated the identification of eukaryotic genes associated with complex traits. In this study, we used these methods to obtain liver transcriptomic and proteomic profiles of Chinese Holstein cows ( n = 6). Comparative analyses of cows with extremely high vs. low milk fat percentage phenotypes yielded 321 differentially expressed genes (DEGs) and 76 differentially expressed proteins (DEPs). Functional annotation of these DEGs and DEPs revealed 26 genes that were predicted to influence lipid metabolism through insulin, phosphatidylinositol 3-kinase/Akt, mitogen-activated protein kinase, 5′ AMP-activated protein kinase, mammalian target of rapamycin, and peroxisome proliferator-activated receptor signaling pathways; these genes are considered as the most promising candidate regulators of milk fat synthesis. The findings of this study enhance the understanding of the genetic basis and molecular mechanisms of milk fat synthesis, which could lead to the development of cow breeds that produce milk with higher nutritional value.

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Section: Discussionmentioning

confidence: 99%

Comparative Transcriptomic and Proteomic Analyses Identify Key Genes Associated With Milk Fat Traits in Chinese Holstein Cows

et al. 2019

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“…In recent years, many researchers have been focused on the identification of SNPs and the expression profile of candidate genes that might have close association with meat quality (Chai et al, 2015;Wu et al, 2015). Finally, they put their effort to adjust these results in breeding for improved economic traits in pig industry (Cho et al, 2015a).…”

Section: Introductionmentioning

confidence: 99%

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

Hwang

Kwon

et al. 2016

Genet. Mol. Res.

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Single nucleotide polymorphisms (SNPs) are useful genetic markers that allow correlation of genetic sequences with phenotypic traits. It is shown here that HSD17B4, a bifunctional enzyme mediating dehydrogenation and anhydration during β-oxidation of long-chain fatty acids, contains a non-synonymous SNP (nsSNP) of chr2:128,825,976A>G, c.2137A>G, I690V, within the sterol carrier protein-2 domain of the HSD17B4 gene, by RNA-Seq of liver RNA. The HSD17B4 mRNA was highly expressed in the kidney and liver among various other tissues in four pig breeds, namely, Berkshire, Duroc, Landrace, and Yorkshire. The nsSNP was significantly associated with carcass weight, backfat thickness, and drip loss (P < 0.05). Furthermore, HSD17B4 may play a crucial role during the early stages of myogenesis when expression of its mRNA was significantly high. In conclusion, HSD17B4 may serve as a possible regulator of muscle development, and its identification should help to select for improved economic traits of Berkshire pigs such as carcass weight, backfat thickness, and drip loss.

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“…Adiponectin (ADIPOQ) has the glucose regulation and fatty acid oxidation function [18]. A SNP in Growth arrest and DNA damage-inducible protein GADD45 Alpha (GADD45A) showed signi cant association patterns for IMF and backfat thickness in Berkshire pigs [19]. Mitochondrially Encoded NADH: Ubiquinone oxidoreductase core subunit 6 (ND6) could participated in regulates mitochondrial fatty acid oxidative metabolism, and two rare variants in ND6 were associated with BMI [20,21].…”

Section: Discussionmentioning

confidence: 99%

IRLnc: A novel functional noncoding RNA contributes to intramuscular fat deposition

Wang

Zhou

Zhang

et al. 2021

Preprint

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BackgroundIntramuscular fat (IMF) is associated with meat quality and insulin resistance in animals. Research on genetic mechanism of IMF decomposition has positive meaning to pork quality and diseases such as obesity and type 2 diabetes treatment. In this study, an IMF trait segregation population was used to perform RNA sequencing and to analyze the joint or independent effects of genes and long intergenic non-coding RNAs (lincRNAs) on IMF.ResultsA total of 26 genes including six lincRNA genes show significantly different expression between high- and low-IMF pigs. Interesting, one lincRNA gene, named IMF related lincRNA (IRLnc) not only has a 292-bp conserved region in 100 vertebrates but also has conserved up and down stream genes (<10 kb) in pig and humans. Real-time quantitative polymerase chain reaction (RT-qPCR) validation study indicated that nuclear receptor subfamily 4 group A member 3 (NR4A3) which located at the downstream of IRLnc has similar expression pattern with IRLnc. RNAi-mediated loss of function screens identified that IRLnc silencing could inhibit both of the RNA and protein expression of NR4A3. And the in-situ hybridization co-expression experiment indicates that IRLnc may directly binding to NR4A3. As the NR4A3 could regulate the catecholamine catabolism, which could affect insulin sensitivity, we inferred that IRLnc influence IMF decomposition by regulating the expression of NR4A3.ConclusionsIn conclusion, a novel functional noncoding variation named IRLnc has been found contribute to IMF by regulating the expression of NR4A3. These findings suggest novel mechanistic approach for treatment of insulin resistance in human beings and meat quality improvement in animal.

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Novel SNPs in the growth arrest and DNA damage-inducible protein 45 alpha gene (GADD45A) associated with meat quality traits in Berkshire pigs

Cited by 9 publications

References 28 publications

Comparative Transcriptomic and Proteomic Analyses Identify Key Genes Associated With Milk Fat Traits in Chinese Holstein Cows

Comparative Transcriptomic and Proteomic Analyses Identify Key Genes Associated With Milk Fat Traits in Chinese Holstein Cows

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

IRLnc: A novel functional noncoding RNA contributes to intramuscular fat deposition

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