Genome architecture and tetrasomic inheritance of autotetraploid potato

Zhigui Bao, Canhui Li, Guangcun Li, Pei Wang, Zhen Peng, Lin Cheng, Hongbo Li, Zhiyang Zhang, Yuying Li, Wu Huang, Mingwang Ye, Daofeng Dong, Zhukuan Cheng, Peter VanderZaag, Evert Jacobsen, Christian W.B. Bachem, Suomeng Dong, Chunzhi Zhang, Sanwen Huang*, Qian Zhou

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

12 Citations (Scopus)


Potato (Solanum tuberosum) is the most consumed non-cereal food crop. Most commercial potato cultivars are autotetraploids with highly heterozygous genomes, severely hampering genetic analyses and improvement. By leveraging the state-of-the-art sequencing technologies and polyploid graph binning, we achieved a chromosome-scale, haplotype-resolved genome assembly of a cultivated potato, Cooperation-88 (C88). Intra-haplotype comparative analyses revealed extensive sequence and expression differences in this tetraploid genome. We identified haplotype-specific pericentromeres on chromosomes, suggesting a distinct evolutionary trajectory of potato homologous centromeres. Furthermore, we detected double reduction events that are unevenly distributed on haplotypes in 1021 of 1034 selfing progeny, a feature of autopolyploid inheritance. By distinguishing maternal and paternal haplotype sets in C88, we simulated the origin of heterosis in cultivated tetraploid with a survey of 3110 tetra-allelic loci with deleterious mutations, which were masked in the heterozygous condition by two parents. This study provides insights into the genomic architecture of autopolyploids and will guide their breeding.

Original languageEnglish
Pages (from-to)1211-1226
Number of pages16
JournalMolecular Plant
Issue number7
Publication statusPublished - 4 Jul 2022


  • haplotype diversity
  • haplotype-resolved assembly
  • polyploid genome
  • potato centromere
  • potato genome


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