Differential expression of <i><scp>CYB</scp>5A</i> in Chinese and European pig breeds due to genetic variations in the promoter region

Bai, Ying; Zhang, J.; Xue, Yadong; Peng, YL; Chen, Gang; Fang, Meiying

doi:10.1111/age.12257

Cited by 13 publications

(8 citation statements)

References 22 publications

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“…DNA was extracted from ear tissue using the phenol-chloroform method [ 17 ]. The quality and quantity of the DNA extracted was checked with a NanoDrop™ 2000 (Thermo Fisher Scientific Inc., USA).…”

Section: Methodsmentioning

confidence: 99%

Genome Wide Association Analysis Reveals New Production Trait Genes in a Male Duroc Population

et al. 2015

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In this study, 796 male Duroc pigs were used to identify genomic regions controlling growth traits. Three production traits were studied: food conversion ratio, days to 100 KG, and average daily gain, using a panel of 39,436 single nucleotide polymorphisms. In total, we detected 11 genome-wide and 162 chromosome-wide single nucleotide polymorphism trait associations. The Gene ontology analysis identified 14 candidate genes close to significant single nucleotide polymorphisms, with growth-related functions: six for days to 100 KG (WT1, FBXO3, DOCK7, PPP3CA, AGPAT9, and NKX6-1), seven for food conversion ratio (MAP2, TBX15, IVL, ARL15, CPS1, VWC2L, and VAV3), and one for average daily gain (COL27A1). Gene ontology analysis indicated that most of the candidate genes are involved in muscle, fat, bone or nervous system development, nutrient absorption, and metabolism, which are all either directly or indirectly related to growth traits in pigs. Additionally, we found four haplotype blocks composed of suggestive single nucleotide polymorphisms located in the growth trait-related quantitative trait loci and further narrowed down the ranges, the largest of which decreased by ~60 Mb. Hence, our results could be used to improve pig production traits by increasing the frequency of favorable alleles via artificial selection.

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Section: Methodsmentioning

confidence: 99%

Genome Wide Association Analysis Reveals New Production Trait Genes in a Male Duroc Population

et al. 2015

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“…Genetic variation in the promoter region could also affect gene expression [56][57][58]. The results showed that the site mutation in the promoter of the EREG gene could induce the enhancement of transcriptional activity and could be further analyzed as a molecular marker.…”

Section: Discussionmentioning

confidence: 99%

miR-215 Targeting Novel Genes EREG, NIPAL1 and PTPRU Regulates the Resistance to E.coli F18 in Piglets

Dai

Wang

et al. 2020

Genes

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Previous research has revealed that miR-215 might be an important miRNA regulating weaned piglets’ resistance to Escherichia coli (E. coli) F18. In this study, target genes of miR-215 were identified by RNA-seq, bioinformatics analysis and dual luciferase detection. The relationship between target genes and E. coli infection was explored by RNAi technology, combined with E. coli stimulation and enzyme linked immunosorbent assay (ELISA) detection. Molecular regulating mechanisms of target genes expression were analyzed by methylation detection of promoter regions and dual luciferase activity assay of single nucleotide polymorphisms (SNPs) in core promoter regions. The results showed that miR-215 could target EREG, NIPAL1 and PTPRU genes. Expression levels of three genes in porcine intestinal epithelial cells (IPEC-J2) in the RNAi group were significantly lower than those in the negative control pGMLV vector (pGMLV-NC) group after E. coli F18 stimulation, while cytokines levels of TNF-α and IL-1β in the RNAi group were significantly higher than in the pGMLV-NC group. Variant sites in the promoter region of three genes could affect their promoter activities. These results suggested that miR-215 could regulate weaned piglets’ resistance to E. coli F18 by targeting EREG, NIPAL1 and PTPRU genes. This study is the first to annotate new biological functions of EREG, NIPAL1 and PTPRU genes in pigs, and provides a new experimental basis and reference for the research of piglets disease-resistance breeding.

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“…Nowadays, growing observations indicate that genetic variations in the promoter region can influence economical traits in livestock [ 25 ]. Both g.-85 G > T and g.-63 G > A in promoter region of the bovine SIX1 gene were significantly related to body measurements in Qinchuan cattle via modification of several binding sites for transcription factors [ 26 ].…”

Section: Discussionmentioning

confidence: 99%

Genetic variants in the SIRT6 transcriptional regulatory region affect gene activity and carcass quality traits in indigenous Chinese beef cattle (Bos taurus)

et al. 2018

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BackgroundThe aim of this study was to analyze potential influences of polymorphisms within the regulatory region of the bovine SIRT6 gene on carcass quality traits. Expression analyses suggested that SIRT6 gene is predominately expressed in kidney, compared with other tissues. In 535 indigenous Chinese beef cattle, two novel single nucleotide polymorphisms (SNPs) were identified within the promoter region of the SIRT6 gene.ResultsAssociation analysis indicated that G allele of the c.-1100 A > G had a positive effect on fat deposition, and the Hap4/4 diplotype had more favourable results than other dipoltypes with respect to the evaluation of carcass quality traits. Furthermore, promoter activity associated with the Hap3 haplotype was measured at higher levels than the Hap1 haplotype, which would be in agreement with the previously described association analysis.ConclusionThe SIRT6 promoter variants significantly affect transcriptional levels and subsequently significantly influence bovine intramscular fat content.

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Differential expression of CYB5A in Chinese and European pig breeds due to genetic variations in the promoter region

Cited by 13 publications

References 22 publications

Genome Wide Association Analysis Reveals New Production Trait Genes in a Male Duroc Population

Genome Wide Association Analysis Reveals New Production Trait Genes in a Male Duroc Population

miR-215 Targeting Novel Genes EREG, NIPAL1 and PTPRU Regulates the Resistance to E.coli F18 in Piglets

Genetic variants in the SIRT6 transcriptional regulatory region affect gene activity and carcass quality traits in indigenous Chinese beef cattle (Bos taurus)

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