Genetic Mapping and Diversity in Plants and Animals

The paper develops a cost-effective seed-chipping protocol using clipping pliers for maize genotyping, showing comparable DNA quality to leaf-based methods and no genotyping miscalls.

This study applies XGBoost with SHAP to QTL mapping, showing comparable performance to traditional methods for main effects and superior performance for interaction effects.

The paper develops improved statistical tests for segregation distortion in tetraploid F1 populations by incorporating double reduction, preferential pairing, and genotype uncertainty, showing better performance than existing methods.

The paper identifies a frame-shift mutation in InCO causing early flowering in Japanese morning glory, which may have facilitated its northward expansion into temperate Asia.

This study identifies genomic loci associated with grain protein and mineral nutrient concentrations in tef under contrasting water regimes, revealing genetic basis and environmental interactions.

This study maps QTLs for floral traits in Mimulus species to reveal a polygenic and modular genetic architecture underlying pollination syndrome divergence.

This study evaluates genomic prediction of metabolic content in rice grains under control and high night temperature conditions, finding moderate heritability and improved accuracy with non-additive models.

This study develops SSPA to prioritize SNPs associated with canopy height and growth rate in sorghum using GWAS and feature engineering.

This study conducts a genome-wide association analysis to identify genetic factors influencing growth and metabolic traits in duckweed, revealing correlations between biomass and specific metabolites.

This study analyzes genetic diversity in maize landraces from Northern Argentina using genome-wide SNPs, identifying two gene pools at risk of genetic erosion due to climate change.

The paper provides a unified VCF dataset from 1,498 maize accessions to explore genomic diversity using a standardized variant-calling pipeline.

This study identifies genetic loci modulating ionomic composition in Populus trichocarpa leaves using GWAS and multi-platform ionome profiling.

This study combines family and population data to analyze recombination patterns in the barn owl, revealing sex-specific and chromosomal differences in crossover placement and recombination rates.

This study constructs a lettuce super-pangenome to reduce bias in reference genes, identifying novel QTLs for disease resistance and origins of non-reference resistance loci from wild relatives.

This study uses high-temporal-resolution plant height data to show that genetic and environmental factors influence plant growth differently across the growing season.

PrunusMap is a web tool that maps genetic markers to peach and almond genomes, aiding breeders in locating SNPs and genes.

This study performs a genome-wide association analysis to identify genetic loci influencing flowering date in cultivated olive trees using capture sequencing data from 318 genotypes.

The paper updates the MiniMUGA genotyping array's bioinformatic pipeline to enhance genetic QC in laboratory mice by improving marker annotation, consensus genotypes, and report usability.

This study validates and identifies new QTLs for eggplant traits under low nitrogen conditions using introgression lines and hybrids.

This study uses k-mer GWAS to identify genetic associations with maize traits and shows comparable prediction accuracy to SNP-based methods.

This paper identifies molecular markers associated with stem traits in alfalfa using GWAS and machine learning, finding thirteen significant markers linked to traits like stem color and winter injury.

The paper genotypes Y and mitochondrial chromosomes in heterogeneous stock rats and finds no significant associations with complex traits, except for gene expression on these chromosomes.

The paper presents an improved chromosome-scale genome assembly for Populus tremula and integrates population genetics and genomics data to study leaf physiognomy traits through GWAS and functional analysis.

The paper identifies a major QTL for sodium accumulation in tomato shoots under salt stress and links it to the expression of SlHKT1.2, a sodium transporter gene.

This paper identifies GF14h as the causal gene for low-temperature seed germination in rice and demonstrates its utility in breeding for direct seeding in cold climates.

The paper develops a complete chromosome substitution mapping panel in Arabidopsis thaliana to enable high power mapping of genome-wide epistasis.

This study identifies genomic regions associated with C4 photosynthesis traits in Alloteropsis semialata using GWAS, highlighting key regulators of the C4 cycle and leaf anatomy.

This study maps ethanol consumption traits in Diversity Outbred mice, identifying narrow QTLs and candidate genes, including Car8, with significant cis-eQTL linkage.

The paper develops a mid-density targeted GBS assay for potato using DArTag technology and evaluates its performance with polyBreedR software for imputation and trait tracking.

This study identifies QTLs and DEGs in tomato under nitrogen deficiency to find candidate genes for improving nitrogen use efficiency.