Leveraging a phased pangenome for haplotype design of hybrid potato

The tetraploid genome and clonal propagation of the cultivated potato (Solanum tuberosum L.)1,2 dictate a slow, non-accumulative breeding mode of the most important tuber crop. Transitioning potato breeding to a seed-propagated hybrid system based on diploid inbred lines has the potential to greatly accelerate its improvement3. Crucially, the development of inbred lines is impeded by manifold deleterious variants; explaining their nature and finding ways to eliminate them is the current focus of hybrid potato research4–10. However, most published diploid potato genomes are unphased, concealing crucial information on haplotype diversity and heterozygosity11–13. Here we develop a phased potato pangenome graph of…

• NN
  National Natural Science Foundation of China

  Awards: 32488302, 32422079
• CA
  Chinese Academy of Agricultural Sciences
• NK
  National Key Research and Development Program of China
• AS
  Agricultural Science and Technology Innovation Program

  Award: CAAS-ZDRW202404