• Development and Reproduction
• /
• v.18 no.4
• /
• pp.275-286
• /
• 2014

To successful molecular breeding, identification and functional characterization of breeding related genes and development of molecular breeding techniques using DNA markers are essential. Although the development of a useful marker is difficult in the aspect of time, cost and effort, many markers are being developed to be used in molecular breeding and developed markers have been used in many fields. Single nucleotide polymorphisms (SNPs) markers were widely used for genomic research and breeding, but has hardly been validated for screening functional genes in olive flounder. We identified single nucleotide polymorphisms (SNPs) from expressed sequence tag (EST) database in olive flounder; out of a total 4,327 ESTs, 693 contigs and 514 SNPs were detected in total EST, and these substitutions include 297 transitions and 217 transversions. As a result, 144 SNP markers were developed on the basis of 514 SNP to selection of useful gene region, and then applied to each of eight wild and culture olive flounder (total 16 samples). In our experimental result, only 32 markers had detected polymorphism in sample, also identified 21 transitions and 11 transversions, whereas indel was not detected in polymorphic SNPs. Heterozygosity of wild and cultured olive flounder using the 32 SNP markers is 0.34 and 0.29, respectively. In conclusion, we identified SNP and polymorphism in olive flounder using newly designed marker, it supports that developed markers are suitable for SNP detection and diversity analysis in olive flounder. The outcome of this study can be basic data for researches for immunity gene and characteristic with SNP.

• Animal Bioscience
• /
• v.34 no.4
• /
• pp.482-488
• /
• 2021

Objective: This study was conducted to estimate effect of single nucleotide polymorphisms (SNP) on the estimated breeding value of Hungarian Grey (HG) bulls and to find markers associated with horn colour. Methods: Genotypes 136 HG animals were determined on Geneseek high-density Bovine SNP 150K BeadChip. A multi-locus mixed-model was applied for statistical analyses. Results: Six SNPs were identified to be associated (-log10P>10) with green and white horn. These loci are located on chromosome 1, 3, 9, 18, and 25. Seven loci (on chromosome 1, 3, 6, 9, 10, 28) showed considerable association (-log10P>10) with the estimated breeding value. Conclusion: Analysis provides markers for further research of horn colour and supplies markers to achieve more effective selection work regarding estimated breeding value of HG.

• Asian-Australasian Journal of Animal Sciences
• /
• v.10 no.4
• /
• pp.422-427
• /
• 1997

Breeding efficiency was investigated to reveal crucial factors for constructing effective breeding system with subdivided populations under equal genetic level. Simulation study of selection experiment was performed for 20 generations with 20 replications each, comparing average breeding values and inbreeding coefficients between the two breeding systems; single population scheme and two population scheme, each of which had the same genetic parameters. Genetic correlations (-0.5 to 0.5) were assumed to be caused only by pleiotropic effect of a gene. Phenotypes of the two traits generated by polygenic effect with additive 36 loci and residuals distributed normally were selected by two traits selection index procedure. Comparing between the single population scheme and the two population scheme, the single population scheme showed higher genetic gain with lower inbreeding coefficient. This result was confirmed particularly for the situation of high selection intensity, high heritability and high degree of unevenness for economic weight. Genetic correlations in the single population scheme were significantly lower than the two population scheme when initial genetic correlation was negative. When terminal crossbreeding for the two population scheme is taken into account, superiority of the two population scheme was suggested. The terminal crossbreeding was effective under the situation of long term selection, existence of moderate inbreeding depression and use of less extreme economic weight.

• Asian-Australasian Journal of Animal Sciences
• /
• v.10 no.4
• /
• pp.428-434
• /
• 1997

The effect of genetic diversity in sub-populations on breeding efficiency was examined with prospect of potential crossbreeding. Simulation study of selection was performed for 20 generations with 20 replications each, comparing average breeding values and inbreeding coefficients between the two breeding systemes; single population scheme and two population scheme. The different genetic levels were assumed to be caused by different gene frequencies. Phenotypes of two traits generated polygenic effect with additive 36 loci and residuals distributed normally were selected by selection index procedure. High genetic gain with less inbreeding was clearly recognized in the single population scheme, independently of difference in genetic level, economic weight and genetic correlation. Genetic correlation after selection in the single population scheme was lower than the two population scheme. When crossbreeding between the sub-population was taken into account, superiority of the two population scheme was suggested under those restrictions; difference in genetic level is moderate, selection criterion for the two traits is not far from even economic weight, and genetic correlation is positive with low to moderate value. The use of complementarity increased the possibility of the two population scheme.

• Asian-Australasian Journal of Animal Sciences
• /
• v.24 no.2
• /
• pp.162-172
• /
• 2011

In this paper, simulation was used to determine accuracies of genomic breeding values for polygenic traits associated with many thousands of markers obtained from high density genome scans. The statistical approach was based upon stochastically simulating a pedigree with a specified base population and a specified set of population parameters including the effective and noneffective marker distances and generation time. For this population, marker and quantitative trait locus (QTL) genotypes were generated using either a single linkage group or multiple linkage group model. Single nucleotide polymorphism (SNP) was simulated for an entire bovine genome (except for the sex chromosome, n = 29) including linkage and recombination. Individuals drawn from the simulated population with specified marker and QTL genotypes were randomly mated to establish appropriate levels of linkage disequilibrium for ten generations. Phenotype and genomic SNP data sets were obtained from individuals starting after two generations. Genetic prediction was accomplished by statistically modeling the genomic relationship matrix and standard BLUP methods. The effect of the number of linkage groups was also investigated to determine its influence on the accuracy of breeding values for genomic selection. When using high density scan data (0.08 cM marker distance), accuracies of breeding values on juveniles were obtained of 0.60 and 0.82, for a low heritable trait (0.10) and high heritable trait (0.50), respectively, in the single linkage group model. Estimates of 0.38 and 0.60 were obtained for the same cases in the multiple linkage group models. Unexpectedly, use of BLUP regression methods across many chromosomes was found to give rise to reduced accuracy in breeding value determination. The reasons for this remain a target for further research, but the role of Mendelian sampling may play a fundamental role in producing this effect.

• Asian-Australasian Journal of Animal Sciences
• /
• v.33 no.9
• /
• pp.1400-1410
• /
• 2020

Objective: Genome-wide association study and two meta-analysis based on GWAS performed to explore the genetic mechanism underlying variation in pig number born alive (NBA) and total number born (TNB). Methods: Single trait GWAS and two meta-analysis (single-trait meta analysis and multi-trait meta analysis) were used in our study for NBA and TNB on 3,121 Yorkshires from 4 populations, including three different American Yorkshire populations (n = 2,247) and one British Yorkshire populations (n = 874). Results: The result of single trait GWAS showed that no significant associated single nucleotide polymorphisms (SNPs) were identified. Using single-trait meta analysis and multi-trait meta analysis within populations, 11 significant loci were identified associated with target traits. Spindlin 1, vascular endothelial growth factor A, forkhead box Q1, msh homeobox 1, and LHFPL tetraspan submily member 3 are five functionally plausible candidate genes for NBA and TNB. Compared to the single population GWAS, single-trait Meta analysis can improve the detection power to identify SNPs by integrating information of multiple populations. The multiple-trait analysis reduced the power to detect trait-specific loci but enhanced the power to identify the common loci across traits. Conclusion: In total, our findings identified novel genes to be validated as candidates for NBA and TNB in pigs. Also, it enabled us to enlarge population size by including multiple populations with different genetic backgrounds and increase the power of GWAS by using meta analysis.

• International Journal of Industrial Entomology and Biomaterials
• /
• v.11 no.2
• /
• pp.119-124
• /
• 2005

To determine the level of heterosis, higher cocoon shell weight multivoltine congenic lines (Con. L) and bivoltine syngenic lines (Syn. L) of silkworm were used for crosses. First filial generations $(F_1s)$ expressed heterobeltiotic genetic interaction at significant magnitude (p < 0.01) for single cocoon shell weight (SCSW). The other linked characters viz., single cocoon weight (SCW) and yield by weight per 10, 000 larvae were also significantly higher (p < 0.01) than the better parental lines. All the hybrids showed significant improvement for these aforesaid characters over standard heterosis (Standard check). The reeling parameters viz., filament length, raw silk, neatness, cohesionstrokes etc, also showed improvement among the hybrids than check in congenial environment. Overall results suggested that the cross between congenic and syngenic lines provide better heterosis with good quality silk than conventional hybrids and may be used for commercial exploitation.

• KOREAN JOURNAL OF CROP SCIENCE
• /
• v.43 no.4
• /
• pp.250-253
• /
• 1998

Somaclonal variation was observed in the field on doubled haploid plants derived from single pollen of a rice cultivar "Hwaseongbyeo". The variations of seven quantitative traits including plant height and one qualitative trait (pubescence) in 436 lines ($R_2$ generation) were analyzed. The number of lines which fell beyond the boundaries of the 95% confidence intervals of the check variety, Hwaseongbyeo was checked for each quantitative trait, and of those fertility showed the highest variation frequency (85.6%), followed by plant height (77.5%), flag leaf length (66.5%), grains per panicle (42.2%), days to heading (34.5%), panicle length (30.7%) and panicles per hill (22.7%). And the variations of quantitative traits except days to flowering appeared to move in the negative direction compared to "Hwaseongbyeo". Variability within lines was also observed for quantitative and qualitative traits. Twenty-nine $R_2$ lines (7%) segregated for pubescence and 130 $R_2$ lines (30%) showed variation with regard to fertility. This suggests that mutations usually occur before diploidization. Twenty-nine $R_2$ lines representing a wide spectrum of variation were chosen for RAPD analysis. The number of lines showing DNA polymorphism compared to Hwaseongbyeo ranged 0 from to 10 according to the primer used and this seems to indicate that specific loci have highly mutable genomic site.utable genomic site.

• Animal Bioscience
• /
• v.35 no.12
• /
• pp.1839-1849
• /
• 2022

Objective: The study aims to uncover the genetic diversity and unique genetic structure of the Min pig conserved population, divide the nucleus conservation population, and construct the molecular pedigree. Methods: We used KPS Porcine Breeding Chip v1 50K for SNP detection of 94 samples (31♂, 63♀) in the Min pig conserved population from Lanxi breeding Farm. Results: The polymorphic marker ratio (PN), the observed heterozygosity (Ho), and the expected heterozygosity (He) were 0.663, 0.335, and 0.330, respectively. The pedigree-based inbreeding coefficients (F_PED) was significantly different from those estimated from runs of homozygosity (F_ROH) and single nucleotide polymorphism (F_SNP) based on genome. The Pearson correlation coefficient between F_ROH and F_SNP was significant (p<0.05). The effective population content (Ne) showed a continuously decreasing trend. The rate of decline was the slowest from 200 to 50 generations ago (r = 0.95), then accelerated slightly from 50 to 5 generations ago (1.40

• Korean Journal of Veterinary Service
• /
• v.16 no.1
• /
• pp.82-89
• /
• 1993

In order to detection of the intestinal parasites, fecal samples were taken from broiler (n=262), laying hen(n=244), parent stock(n=207) and native stock(n=287) in Chonbuk province. The prevalence and identification of intestinal parasites were determined by the fecal examination using the floatation and /or sedimentation methods and microscopical examination, respectively. The results were obtained as follows : 1. The detection rate of parasite-eggs from 4 flocks(total=1,000) was 65.7%. 2. In the breed and type of breeding, infection rate of parasite-eggs was detected 84.0％ as native stock (floor breeding, 241 chicken), 79.7％ as parent stock (floor breeding, 165 chickens), 73.3% as broiler(floor breeding, 192 chicken) and 24.2% as laying hen(cage breeding, 59 chicken), in order. 3. In the concern of mixed infection such as single, double and triple, the rate was 55.1%, 8.7% and 1.9%, respectively. 4. Ten kinds of infective eggs were isolated from 657 fecal sample of 4 flock. They were classified 51.l% as Eimeria spp., 12.7% as Ascaridia galli, 5.1% as Capillaria spp., 4.1% as Strongyloides avium, 2.3% as Heterakis gallinarum, 0.5% as Hymenolepis spp., 0.3% as Railleina spp. and 0.2% as Syngamus spp., Trichostrongilus spp., or Choanoteania spp., single or in combination.