Genetic and phenotypic traits in livestock

SIMplyBee simulates honeybee populations and breeding programs, enabling testing of strategies for genetic gain and variability.

The paper compares two multi-trait association methods and fine-maps six QTL in pigs, finding similar results between methods but highlighting potential missed QTL in multi-trait analyses.

This study simulates the impact of importing genetic material on small cattle breeding programs, finding that benefits depend on genetic correlation, import extent, and breeding scheme.

The paper introduces the APY algorithm as an efficient method for approximating the inverse of large genomic relationship matrices, reducing computational cost while maintaining accuracy.

The paper maps splice QTLs in pigs to show distinct genetic regulation of alternative splicing and overall gene expression.

The paper uses whole exome sequencing to identify genetic variants associated with semen quality in Holstein Friesian and Hallikar bulls.

This study identifies genetic variation in the Fibromelanosis region on chromosome 20 to determine the purity of Indonesian Cemani chickens using PCR-RFLP methods.

This paper identifies a cis-regulatory variant near EDN3 linked to blood pressure regulation and elite racing performance in horses.

KBeagle improves imputation accuracy and reduces computing time by integrating K-Means clustering with Beagle software for genotype imputation.

The paper develops a robustness proxy for fattening pigs using longitudinal energetic allocation coefficients and finds it correlates with growth and feed efficiency traits.

The paper performs a genome-wide association study on yak body size traits using a compressed mixed linear model to identify significant SNPs and candidate genes.

The paper genotypes 50 Pakistani buffalo samples to assess the CSN2 7:32016718C>A marker's association with A1/A2 milk type, finding all samples are homozygous wild-type (CC), indicating exclusive A2 milk production.

The paper investigates the association of the CSN2 variant 6:85451298C>A with A1/A2 milk phenotype in Pakistani cows using ARMS-PCR and Chi-square test, finding significant genotype variability.

The paper investigates the association between the LDHA variant g.2582481G>A and racing performance in Pakistani pigeons, finding a significant genetic link.

The paper uses a linear multivariate animal model to analyze survival traits in white-leg shrimp, finding low heritability but high genetic correlations across survival time points.

The paper applies genomic selection to sugar kelp with a biphasic life cycle, predicting breeding values for gametophytes and achieving moderate prediction accuracy for yield and morphology traits.

The paper identifies a new sheep breed from West Bengal with distinct genetic identity using phylophenomic and phylogenomic analyses.

The paper analyzes whole mitochondrial genomes of sheep breeds to infer phylogenetic relationships and identify genetic lineages.

The paper introduces a neural network framework for genomic evaluations that integrates pedigree, genotypes, and phenotypes, showing improved prediction performance over traditional methods.

The paper uses polygenic risk scores to predict production performance in yeast crossbreeding, finding significant correlations between PRS and growth traits in F1 hybrids and their parents.

This paper demonstrates that average semivariance can estimate genetic variance components across different modes of inheritance in complex traits.

This paper introduces a new hyper-parameter, the scale factor, to improve the prediction accuracy of the HBLUP method in genetic evaluation using simulated and real cattle data.

This study compares clonal breeding strategies using stochastic simulation to determine their genetic gain per unit cost, finding that reciprocal recurrent selection (RRS) is optimal in diploids with high genomic selection intensity but not in autopolyploids.

This paper compares mate selection strategies with conventional methods in oil palm breeding to reduce inbreeding and increase genetic progress using genomic selection simulations.

The paper identifies genes associated with reproductive traits in ducks, finding upregulated and downregulated genes in high egg-producing ducks compared to non-layers.

This study improves genetic mapping resolution in pigs by developing a high-density haplotype reference panel and a public imputation server.

The paper introduces MegaBayesianAlphabet, a Bayesian regression framework for genome-wide prediction and association studies, showing improved accuracy in genetic value prediction and marker discovery using high-dimensional phenotypic data.