Pig Pan-genome Database

Welcome to Pig Pan-genome Database

The domestic pig is a critical agricultural species and biomedical model, yet its reference genome has remained incomplete for a long time. Here, we assembled the telomere-to-telomere (T2T), gap-free new pig reference genome (T2T-Sscrofa, GCA_000003025.7) from the same individual that provided the original reference. This assembly resolves 274.8 Mb of previously unassembled sequence and identifies 256 new protein-coding genes. Comparative analyses further uncovered a Robertsonian translocation in western European wild boar and extensive structural variation across global pig populations. By integrating T2T-Bamei, we evaluated the advantages of T2T references and highlighted potential (reference) biases in Eurasian pig genomes. Furthermore, we predicted structural divergence of homologous proteins across humans, mice, and different pig breeds, revealing breed-specific molecular features that enhance the utility of pigs as models for human biomedical research. Together, T2T-Sscrofa and the pangenome provide a comprehensive genomic foundation that will advance agricultural, evolutionary, and biomedical research.