131 Genetic variants and haplotype combination in the bovine SH2B2 gene and their associations with molecular breeding for body size traits in Qinchuan cattle (Bos taurus)

2020 ◽  
Vol 32 (2) ◽  
pp. 192
Author(s):  
S. H. A. Raza ◽  
L. Zan
Keyword(s):  
Body Weight ◽  
Bos Taurus ◽  
Janus Kinase ◽  
Nucleotide Polymorphisms ◽  
Qinchuan Cattle ◽  
Single Nucleotide ◽  
Body Measurement Traits ◽  
Src Homology ◽  
Selected Traits ◽  
Polymorphism Level

The Src homology 2B 2 (SH2B2) gene regulates energy balance and body weight at least partially by enhancing Janus kinase-2 (JAK2)-mediated cytokine signalling, including leptin or GH signalling. Leptin is an adipose hormone that controls body weight. The objective of the current study was to evaluate the association between body measurement traits and SH2B2 gene polymorphisms. For this purpose, we selected four single-nucleotide polymorphisms (SNPs) in the SH2B2 gene, including two in intron 5 (A20545G and G20570A), one synonymous SNP (T20693C) in exon 6, and one in intron 8 (C24070A), and genotyped these through DNA sequencing in Qinchuan cattle. The general linear model (GLM) in SPSS 20.0 software (SPSS Inc.) was used for the association analysis between SNPs and selected traits of carcass quality. The SNPs in sample populations were in medium polymorphism level (0.250<pic<0.500). This association study indicated that the G20570A, T20693C, and C24070A were significantly (P<0.05) associated with body length (BL) and chest circumference (CC) in Qinchuan cattle. In addition, the H4H3 and H5H5 diplotype were associated with significantly (P=0.01) greater BL and rump length than was H4H2. Our investigation will not only extend understanding of genetic variations in the bovine SH2B2 gene but also provide useful information for marker-assisted selection in beef cattle breeding programs.

scholarly journals Bioinformatics analysis and genetic polymorphisms in genomic region of the bovine SH2B2 gene and their associations with molecular breeding for body size traits in qinchuan beef cattle

2020 ◽  
Vol 40 (3) ◽  
Author(s):  
Sayed Haidar Abbas Raza ◽  
Rajwali Khan ◽  
Linsheng Gui ◽  
Nicola M. Schreurs ◽  
Xiaoyu Wang ◽  
...  
Keyword(s):  
Body Weight ◽  
Beef Cattle ◽  
Body Length ◽  
Genomic Region ◽  
Janus Kinase ◽  
Chest Circumference ◽  
Cytokine Signaling ◽  
Nucleotide Polymorphisms ◽  
Qinchuan Cattle ◽  
Body Measurement Traits

Abstract The Src homology 2 B 2 (SH2B2) gene regulate energy balance and body weight at least partially by enhancing Janus kinase-2 (JAK2)-mediated cytokine signaling, including leptin and/or GH signaling. Leptin is an adipose hormone that controls body weight. The objective of the present study is to evaluate the association between body measurement traits and SH2B2 gene polymorphisms as responsible mutations. For this purpose, we selected four single-nucleotide polymorphisms (SNPs) in SH2B2 gene, including two in intron 5 (g.20545A>G, and g.20570G>A, one synonymous SNP g.20693T>C, in exon 6 and one in intron 8 (g.24070C>A, and genotyped them in Qinchuan cattle. SNPs in sample populations were in medium polymorphism level (0.250<PIC<0.500). Association study indicated that the g.20570G>A, g.20693T>C, and g.24070C>A, significantly (P < 0.05) associated with body length (BL) and chest circumference (CC) in Qinchuan cattle. In addition, H4H3 and H5H5 diplotype had highly significantly (P < 0.01) greater body length (BL), rump length (RL), and chest circumference (CC) than H4H2. Our investigation will not only extend the spectrum of genetic variation of bovine SH2B2 gene, but also provide useful information for the marker assisted selection in beef cattle breeding program.

scholarly journals Correlating single nucleotide polymorphisms in the myostatin gene with performance traits in rabbit

2016 ◽  
Vol 24 (3) ◽  
pp. 213 ◽  
Author(s):  
E.M. Abdel-Kafy ◽  
S.F. Darwish ◽  
D. ElKhishin
Keyword(s):  
Body Weight ◽  
Weight Gain ◽  
Single Nucleotide Polymorphisms ◽  
Untranslated Region ◽  
Carcass Traits ◽  
Reproductive Traits ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Mstn Gene ◽  
Positive Effects

The Myostatin (MSTN), or Growth and Differentiation Factor 8 (GDF8), gene has been implicated in the double muscling phenomenon, in which a series of mutations render the gene inactive and unable to properly regulate muscle fibre deposition. Single nucleotide polymorphisms (SNPs) in the MSTN gene have been correlated to production traits, making it a candidate target gene to enhance livestock and fowl productivity. This study aimed to assess any association of three SNPs in the rabbit MSTN gene (c.713T>A in exon 2, c.747+34C>T in intron 2, and c.*194A>G in 3’-untranslated region) and their combinations, with carcass, production and reproductive traits. The investigated traits included individual body weight, daily body weight gain, carcass traits and reproductive traits. The 3 SNPs were screened using PCR-restriction fragment length polymorphism (RFLP)-based analysis and the effects of the different SNP genotypes and their combinations were estimated in a rabbit population. Additionally, additive and dominance effects were estimated for significant traits. The results found no significant association between the c.713 T>A SNP and all the examined traits. Allele T at the c.747+34C>T SNP was only significantly associated (P<0.05) with increased body weight at 12 wk of age. However, for the SNP residing in the 3’ untranslated region (c.*194A>G), allele G was significantly associated (P<0.05) with increased body weight and high growth rate. Genotype GG at the c.*194A>G SNP also had positive effects on most carcass traits. The estimated additive genetic effect for the c.*194A>G SNP was significant (P<0.05) with most body weight, daily gain and carcass traits. No significant association was obtained between any MSTN SNPs and reproductive traits. In the combinations analysis, regardless of the genotypes of SNPs at c.713T>A and c.747+34C>T, GG at the c.*194A>G SNP correlated with highest values in body weight and daily weight gain. In conclusion, the ‘G’ allele at the c.*194A>G SNP had positive effects on growth and carcass traits and so could be used as a favourable allele in planning rabbit selection. Further population-wide studies are necessary to test the association of the c.*194A>G SNP with carcass traits. We also recommend evaluation of the potential effects of the c.*194A>G SNP on MSTN gene expression.

scholarly journals Identification and annotation of breed-specific single nucleotide polymorphisms in Bos taurus genomes

PLoS ONE ◽  
2018 ◽  
Vol 13 (6) ◽  
pp. e0198419 ◽  
Author(s):  
Bartosz Czech ◽  
Magdalena Frąszczak ◽  
Magda Mielczarek ◽  
Joanna Szyda
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Bos Taurus ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide

Characterisation of the melanocortin-1 receptor gene in alpaca and identification of possible markers associated with phenotypic variations in colour

2009 ◽  
Vol 49 (8) ◽  
pp. 675 ◽  
Author(s):  
N. L. Feeley ◽  
K. A. Munyard
Keyword(s):  
Mus Musculus ◽  
Bos Taurus ◽  
Receptor Gene ◽  
Nucleotide Polymorphisms ◽  
Wild Type ◽  
Single Nucleotide ◽  
Melanocortin 1 Receptor ◽  
Mc1r Gene ◽  
Pcr Products ◽  
Phenotypic Variations

The aim of this study was to determine if any correlation exists between melanocortin-1 receptor (MC1R) polymorphisms and skin and fibre colour in alpacas. Primers capable of amplifying the entire alpaca MC1R gene were designed from a comparative alignment of Bos taurus and Mus musculus MC1R gene sequences. The complete MC1R gene of 41 alpacas exhibiting a range of fibre colours, and which were sourced from farms across Australia, was sequenced from PCR products. Twenty-one single nucleotide polymorphisms were identified within MC1R. Two of these polymorphisms (A82G and C901T) have the potential to reduce eumelanin production by disrupting the activity of MC1R. No agreement was observed between fibre colour alone and MC1R genotype in the 41 animals in this study. However, when the animals were assigned to groups based on the presence or absence of eumelanin in their fibre and skin, only animals that had at least one allele with the A82/C901 combination expressed eumelanin. We propose that A82/C901 is the wild-type dominant ‘E’ MC1R allele, while alpacas with either G82/T901 or G82/Y901 are homozygous for the recessive ‘e’ MC1R allele and are therefore unable to produce eumelanin.

scholarly journals Polymorphisms in the Chicken Growth Differentiation Factor 9 Gene Associated with Reproductive Traits

2018 ◽  
Vol 2018 ◽  
pp. 1-11 ◽  
Author(s):  
Lingbin Liu ◽  
Zhifu Cui ◽  
Qihai Xiao ◽  
Haihan Zhang ◽  
Xiaoling Zhao ◽  
...  
Keyword(s):  
Body Weight ◽  
Single Nucleotide Polymorphisms ◽  
Gene Polymorphisms ◽  
Reproductive Traits ◽  
Missense Mutations ◽  
Nucleotide Polymorphisms ◽  
Rt Pcr ◽  
Single Nucleotide ◽  
Egg Weight ◽  
Growth Differentiation Factor 9

The aim of the study was to investigateGDF9gene polymorphisms and their association with reproductive traits in chicken using DNA sequencing. A total of 279 Dongxiang blue-shelled (DX) chickens and 232 Luhua (LH) chickens were used for validation. We detected 15 single nucleotide polymorphisms (SNPs): nine SNPs were previously unreported in chicken, two were missense mutations, and only three exhibited significant associations with reproductive traits. G.17156387C>T was significantly associated with age at first egg (AFE) and weight of first egg (WFE) in both breeds. Birds carrying the CC genotype exhibited higher AFE and WFE values than those with the TT genotype. The SNP g.17156427A>G exhibited an association with egg weight at 300 days of age (EWTA) in DX but not in LH chickens. The SNP g.17156703A>C affected the AFE and EN (total number of eggs at 300 days of age) in DX chickens. In addition, certain diplotypes significantly affected AFE, BWTA (body weight at 300 days of age), and EN in both breeds. RT-PCR results showed that theGDF9gene was highly expressed in stroma with cortical follicles (STR) and prehierarchal follicles. These results provided further evidence that theGDF9gene is involved in determining reproductive traits in chicken.

scholarly journals Genome-Wide Association Study of Body Weight Traits in Chinese Fine-Wool Sheep

Animals ◽  
2020 ◽  
Vol 10 (1) ◽  
pp. 170 ◽  
Author(s):  
Zengkui Lu ◽  
Yaojing Yue ◽  
Chao Yuan ◽  
Jianbin Liu ◽  
Zhiqiang Chen ◽  
...  
Keyword(s):  
Body Weight ◽  
Muscle Development ◽  
Genome Wide Association Study ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Genome Wide ◽  
Economic Trait ◽  
Significance Levels ◽  
Genomic Regions ◽  
Selection Of

Body weight is an important economic trait for sheep and it is vital for their successful production and breeding. Therefore, identifying the genomic regions and biological pathways that contribute to understanding variability in body weight traits is significant for selection purposes. In this study, the genome-wide associations of birth, weaning, yearling, and adult weights of 460 fine-wool sheep were determined using resequencing technology. The results showed that 113 single nucleotide polymorphisms (SNPs) reached the genome-wide significance levels for the four body weight traits and 30 genes were annotated effectively, including AADACL3, VGF, NPC1, and SERPINA12. The genes annotated by these SNPs significantly enriched 78 gene ontology terms and 25 signaling pathways, and were found to mainly participate in skeletal muscle development and lipid metabolism. These genes can be used as candidate genes for body weight in sheep, and provide useful information for the production and genomic selection of Chinese fine-wool sheep.

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