Pan-genomics and multi-omics for deciphering genetic variation and accelerating genetic improvement in ruminant livestock

Multi-omics integration and artificial intelligence for the conservation and utilization of local chicken genetic resources.

Local chicken genetic resources (LCGRs), representing a unique gene pool shaped by millennia of natural and artificial selection, not only sustain the supply of high-quality protein but also serve as useful biological models for deciphering the evolution of complex traits and environmental adaptability. However, extens...

Source of genome-wide deleterious variation in a global cattle cohort

Background Identifying deleterious DNA changes underpins efforts to improve animal health, welfare, and sustainable breeding. In cattle, current variant prioritization focuses on coding changes, uses single annotation types, and gives limited resolution in non-coding sequence. Results We developed BovCADD (bovine Combi...

SwinePan for pig graph-based pangenome and multiomics data mining.

SwinePan, a comprehensive and integrated multiomics database for pigs built on a graph-based pangenome framework, is developed, enabling genome-wide association studies (GWAS), expression quantitative trait locus (eQTL) mapping, and colocalization, while interactive modules visualize population structure and multiomics...

Genomic Signals of Adaptation and Evolution Uncovered through Whole-Genome SNPs and InDels in Pandharpuri Buffaloes

From Association to Causality: Next-Generation GWAS, Pangenomes, and Multi-Omics Driving Gene Discovery and Precision Breeding in Cereal Crops

Simple Summary Cereal crops such as rice, wheat, maize, and barley are fundamental to global food security, yet their production is increasingly challenged by climate change, emerging pests and diseases, and environmental stresses. Identifying the genetic basis of traits related to stress tolerance, disease resistance,...

Regional diversity meets global representation in large-scale human pangenomics

Human pangenomics is moving beyond the single linear reference paradigm towards population-scale representations that better capture complex genomic variation. Many current human pangenomes include both global and regional initiatives, but their limited sample sizes constrain the representation of population diversity....