scholarly journals Associations of fifty single nucleotide polymorphisms within candidate genes with meatness in pigs

2014 ◽  
Vol 59 (No. 5) ◽  
pp. 227-237 ◽  
Author(s):  
A. Borowska ◽  
T. Szwaczkowski ◽  
M. Koćwin-Podsiadła ◽  
S. Kamiński ◽  
A. Ruść ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Candidate Genes ◽  
Linear Model ◽  
Generalized Linear Model ◽  
Continuous Variable ◽  
Chromosome 1 ◽  
Nucleotide Polymorphisms ◽  
Entropy Analysis ◽  
Large White ◽  
Single Nucleotide

The objective of the paper was to classify 50 SNPs (from 17 chromosomes) according to their contribution to the meatness of 293 boars of two breeds (Polish Landrace and Polish Large White) using entropy analysis and standard association analysis. The collected data were classified into two groups (according to the official EUROP procedure) and used for entropy analysis. Associations of single genotypes versus their groups (located at single chromosomes) with the trait studied were estimated by the use of the Generalized Linear Model (GLM). Thus meatness was included as a continuous variable. The most important contributions have been estimated by both approaches for the following SNPs: SULT1A1:g.76G>A (SSC3), PKLR:g.384C>T (SSC4), MYOD1:c.566G>C (SSC2), TNNT3:g.153T>C (SSC2), GAA:g.38T>C (SSC12), LDLRR1:c.459A>G (SSC8), MYF6:g.255T>C (SSC5), CAS:g.499A>C (SSC2), PPARGC:c.678T>A (SSC15). Moreover, interactions among some studied loci are suggested, especially for the loci at chromosome 1.  

scholarly journals Effect of single-nucleotide polymorphisms on specific reproduction parameters in Hungarian Large White sows

2019 ◽  
Vol 67 (2) ◽  
pp. 256-273
Author(s):  
Eszter Erika Balogh ◽  
György Gábor ◽  
Szilárd Bodó ◽  
László Rózsa ◽  
József Rátky ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Mixed Model ◽  
Chromosome 8 ◽  
Chromosome 1 ◽  
Nucleotide Polymorphisms ◽  
Large White ◽  
Single Nucleotide ◽  
Litter Weight ◽  
Minor Alleles ◽  
Data Screening

The aim of this study was to reveal the effect of single-nucleotide polymorphisms (SNPs) on the total number of piglets born (TNB), the litter weight born alive (LWA), the number of piglets born dead (NBD), the average litter weight on the 21st day (M21D) and the interval between litters (IBL). Genotypes were determined on a high-density Illumina Porcine SNP 60K BeadChip. Data screening and data identification were performed by a multi-locus mixed-model. Statistical analyses were carried out to find associations between individual genotypes of 290 Hungarian Large White sows and the investigated reproduction parameters. According to the analysis outcome, three SNPs were identified to be associated with TNB. These loci are located on chromosomes 1, 6 and 13 (−log10P = 6.0, 7.86 and 6.22, the frequencies of their minor alleles, MAF, were 0.298, 0.299 and 0.364, respectively). Two loci showed considerable association (−log10P = 10.35 and 10.46) with LWA on chromosomes 5 and X, the MAF were 0.425 and 0.446, respectively. Seven loci were found to be associated with NBD. These loci are located on chromosomes 5, 6, 13, 14, 15, 16 and 18 (−log10P = 10.95, 5.43, 8.29, 6.72, 6.81, 5.90, and 5.15, respectively). One locus showed association (−log10P = 5.62) with M21D on chromosome 1 (the MAF was 0.461). Another locus was found to be associated with IBL on chromosome 8 (−log10P = 7.56; the MAF was 0.438). The above-mentioned loci provide a straightforward possibility to assist selection by molecular tools and, consequently, to improve the competitiveness of the Hungarian Large White (HLW) breed.

Association studies of multiple candidate genes for Parkinson's Disease using single nucleotide polymorphisms

2002 ◽  
Vol 51 (4) ◽  
pp. 534-534 ◽  
Author(s):  
Yoshio Momose ◽  
Miho Murata ◽  
Kazuhiro Kobayashi ◽  
Masaji Tachikawa ◽  
Yuko Nakabayashi ◽  
...  
Keyword(s):  
Parkinson’S Disease ◽  
Parkinson's Disease ◽  
Single Nucleotide Polymorphisms ◽  
Candidate Genes ◽  
Association Studies ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide

Association between Single Nucleotide Polymorphisms of Atp2B1 Gene and Bone Parameters of Laying Hens

2018 ◽  
Vol 11 (3) ◽  
pp. 178-182
Author(s):  
Eliska Horecka ◽  
Cenek Horecky ◽  
Lenka Kovarikova ◽  
Anna Musilova ◽  
Ales Knoll ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Egg Production ◽  
Laying Hens ◽  
Compact Bone ◽  
Chromosome 1 ◽  
Nucleotide Polymorphisms ◽  
Bone Thickness ◽  
Single Nucleotide ◽  
Experimental Group ◽  
Exon 10

Experiments were performed in 110 ISA Brown egg production hens (Gallus gallus), kept from 15 to 26 weeks of age in enriched (furnished) housing technology. The present objective was to investigate the presence of single nucleotide polymorphisms (SNPs) of the ATP2B1 gene and their effects on calcium homeostasis in laying hens. The plasma membrane calcium-transporting ATPase 1 gene (ATP2B1) in hens is located on chromosome 1, region 43 273 706 – 43 305 815 bp. The ATP2B1 gene has 21 exons, and in this study three were genotyped. In each experimental group of animals, only alleles without deletions in exon 10 and only allele A in exon 12 were found. In exon 8, only genotypes CC/CC, TT/CC and TT/TT were found. These genotypes are associated with femur breaking strength, bone diameter, bone marrow diameter and compact bone thickness. No significant effects of SNPs in exon 8 on bone characteristics were found.

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