scholarly journals Effects of Observed Incubation Behavior on Egg Production in Laying Hens of a Commercial Chicken Breed and Detection of Single-Nucleotide Polymorphisms Associated with the Incubation Behavior

2021 ◽  
Author(s):  
Yuichiro Yonetani ◽  
Atsushi J. Nagano ◽  
Hideki Ueno ◽  
Tomoko Amano
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Egg Production ◽  
Laying Hens ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Chicken Breed ◽  
Incubation Behavior ◽  
Commercial Chicken

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.

Association of single nucleotide polymorphisms in the insulin and growth hormone gene with growth traits of Mia Chicken

2019 ◽  
Author(s):  
Nguyen Hoang Thinh ◽  
Hoang Anh Tuan ◽  
Nguyen Thi Vinh ◽  
Bui Huu Doan ◽  
Nguyen Thi Phuong Giang ◽  
...  
Keyword(s):  
Growth Hormone ◽  
Single Nucleotide Polymorphisms ◽  
Growth Traits ◽  
Marker Gene ◽  
Average Daily Gain ◽  
Growth Hormone Gene ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Chicken Breed ◽  
Gh Gene

This study was conducted in Mia chicken breed to evaluate the association between four single nucleotide polymorphisms (SNPs), in insulin (INS) and growth hormone (GH) genes, with growth traits. Three genotypes for the SNP A3971G of INS gene and the SNP G662A and C423T of GH gene were present in the population while only two genotypes were found in the Mia chicken breed for SNP T3737C of INS gene (TT and TC). The SNP T3737C INS gene and G662A GH gene had significant association with growth traits (P less than 0.05). A significant association of T3737C INS gene with body weight (BW) was observed at 10 to 12 weeks of age and average daily gain (ADG) at 6-8 weeks of age. The SNP G662A of the GH gene was significantly associated (P less than 0.05) with BW of Mia chicken at ages from 7 to 14 weeks and with ADG (4-6; 6-8; 8-10; 10-12 and 2-16 weeks). Chicken with the GG genotype had greater BW and ADG compared to the other genotypes. The results demonstrated that this SNP G662A GH gene may be used as a candidate marker gene for genetic improvement of growth traits in Mia chicken breed.

scholarly journals Assessment of linkage disequilibrium patterns between structural variants and single nucleotide polymorphisms in three commercial chicken populations

2021 ◽  
Author(s):  
Johannes Geibel ◽  
Nora Paulina Praefke ◽  
Steffen Weigend ◽  
Henner Simianer ◽  
Christian Reimer
Keyword(s):  
Linkage Disequilibrium ◽  
Single Nucleotide Polymorphisms ◽  
Phenotypic Traits ◽  
Strong Linkage Disequilibrium ◽  
Nucleotide Polymorphisms ◽  
Production Traits ◽  
Single Nucleotide ◽  
Tag Snps ◽  
Commercial Chicken ◽  
Translocation Breakpoints

Abstract BackgroundStructural variants (SV) are causative for some prominent phenotypic traits of livestock as different comb types in chickens or color patterns in pigs. Their effects on production traits are also increasingly studied. Nevertheless, accurately calling SV remains challenging. It is therefore of interest, whether close-by single nucleotide polymorphisms (SNPs) are in strong linkage disequilibrium (LD) with SVs and can serve as markers. Literature comes to different conclusions on whether SVs are in LD to SNPs on the same level as SNPs to other SNPs. The present study aimed to generate a precise SV callset from whole-genome short-read sequencing (WGS) data for three commercial chicken populations and to evaluate LD patterns between the called SV and surrounding SNPs.ResultsThe final callset consisted of 12,294,329 bivariate SNPs, 4,301 deletions (DEL), 224 duplications (DUP), 218 inversions (INV) and 117 translocation breakpoints (BND). While average LD between DELs and SNPs was at the same level as between SNPs and SNPs, LD between other SVs and SNPs was strongly reduced (DUP: 40 %, INV: 27 %, BND: 19 % of between-SNP LD). A main factor for the reduced LD was the presence of local minor allele frequency differences, which accounted for 50 % of the difference between SNP – SNP and DUP – SNP LD. This was potentially accompanied by lower genotyping accuracies for DUP, INV and BND compared with SNPs and DELs. An evaluation of the presence of tag SNPs (SNP in highest LD to the variant of interest) further revealed DELs to be slightly less tagged by WGS SNPs than WGS SNPs by other SNPs. This difference, however, was no longer present when reducing the pool of potential tag SNPs to SNPs located on four different chicken genotyping arrays.ConclusionsThe results imply that genomic variance due to DELs in the chicken populations studied can be captured by different SNP marker sets as good as variance from WGS SNPs, whereas separate SV calling might be advisable for DUP, INV, and BND effects.

Development of a simple method for the determination of single nucleotide polymorphisms

2010 ◽  
Vol 34 (8) ◽  
pp. S75-S75
Author(s):  
Weifeng Zhu ◽  
Zhuoqi Liu ◽  
Daya Luo ◽  
Xinyao Wu ◽  
Fusheng Wan
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Nucleotide Polymorphisms ◽  
Simple Method ◽  
Single Nucleotide
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