High-density interspecific genetic maps of kiwifruit and the identification of sex-specific markers

DNA Res. 2015 Oct;22(5):367-75. doi: 10.1093/dnares/dsv019. Epub 2015 Sep 14.


Kiwifruit (Actinidia chinensis Planchon) is an important specialty fruit crop that suffers from narrow genetic diversity stemming from recent global commercialization and limited cultivar improvement. Here, we present high-density RAD-seq-based genetic maps using an interspecific F1 cross between Actinidia rufa 'MT570001' and A. chinensis 'Guihai No4'. The A. rufa (maternal) map consists of 2,426 single-nucleotide polymorphism (SNP) markers with a total length of 2,651 cM in 29 linkage groups (LGs) corresponding to the 29 chromosomes. The A. chinensis (paternal) map consists of 4,214 SNP markers over 3,142 cM in 29 LGs. Using these maps, we were able to anchor an additional 440 scaffolds from the kiwifruit draft genome assembly. Kiwifruit is functionally dioecious, which presents unique challenges for breeding and production. Three sex-specific simple sequence repeats (SSR) markers can be used to accurately sex type male and female kiwifruit in breeding programmes. The sex-determination region (SDR) in kiwifruit was narrowed to a 1-Mb subtelomeric region on chromosome 25. Localizing the SDR will expedite the discovery of genes controlling carpel abortion in males and pollen sterility in females.

Keywords: Actinidia chinensis; Actinidia rufa; RAD-seq; genome assembly; sex determination.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Actinidia / genetics*
  • Chromosome Mapping
  • Fruit / genetics*
  • Genetic Linkage
  • Genetic Markers
  • Genome, Plant
  • Genotype
  • Microsatellite Repeats
  • Plant Breeding
  • Polymorphism, Single Nucleotide
  • Quantitative Trait Loci
  • Sequence Analysis, DNA


  • Genetic Markers