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Peer-reviewedCC BYPlants (Basel, Switzerland)

Development of Core KASP Marker Panel for DNA Fingerprinting of Pear (Pyrus spp.) Germplasm Collections.

  • Dan Qi1,2
  • Luming Tian1,2
  • Hongliang Huo1,2
  • Jiayu Xu1,2
  • Simeng Zhang1,2
  • Ying Zhang1,2
  • Chao Liu1,2
  • Xingguang Dong1,2
  • Yufen Cao1,2
  1. 1Research Institute of Pomology, Chinese Academy of Agricultural Sciences, Xingcheng 125100, China.
  2. 2Key Laboratory of Germplasm Resources Utilization of Horticultural Crops, Ministry of Agriculture and Rural Affairs, Xingcheng 125100, China.
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Abstract

Accurate varietal identification remains a persistent issue in pear germplasm conservation, creating obstacles in breeding parent selection and impeding progress in elite cultivar research and cultivation. This study aims to develop a set of highly polymorphic single-nucleotide polymorphism (SNP) markers for pear variety identification. Based on the design criteria for highly polymorphic KASP primers, 34 primer pairs were synthesized, of which 25 produced reliable genotyping results, showing clear separation among different genotypes with minimal missing data. The 269 pear accessions were successfully genotyped, with observed heterozygosity (Ho) ranging from 0.33 to 0.56, polymorphism information content (PIC) values between 0.336 and 0.375, and minor allele frequency (MAF) ranging from 0.31 to 0.50. A total of 257 distinct genotypes were obtained from 269 pear accessions, among which two groups of known bud mutation were consistent, and ten groups of potential synonym accessions were detected. The cluster analysis based on the 25 KASP markers separated the 269 pear accessions into two clusters, which showed a broad association with taxonomic background and origin. This study shows that this CoreSNP-KASP marker set can be used for preliminary molecular screening of pear accessions and provides useful information to support subsequent breeding programs.

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Cite

BibTeXRIS
BibTeX
@article{qi2026development,
  title = {{Development of Core KASP Marker Panel for DNA Fingerprinting of Pear (Pyrus spp.) Germplasm Collections.}},
  author = {Dan Qi and Luming Tian and Hongliang Huo and Jiayu Xu and Simeng Zhang and Ying Zhang and Chao Liu and Xingguang Dong and Yufen Cao},
  journal = {Plants (Basel, Switzerland)},
  year = {2026},
  month = oct,
  doi = {10.3390/plants15203111},
  url = {https://europepmc.org/article/MED/42943064},
  note = {CC BY},
}
RIS
TY  - JOUR
TI  - Development of Core KASP Marker Panel for DNA Fingerprinting of Pear (Pyrus spp.) Germplasm Collections.
AU  - Dan Qi
AU  - Luming Tian
AU  - Hongliang Huo
AU  - Jiayu Xu
AU  - Simeng Zhang
AU  - Ying Zhang
AU  - Chao Liu
AU  - Xingguang Dong
AU  - Yufen Cao
PY  - 2026
DA  - 2026/10/11
JO  - Plants (Basel, Switzerland)
DO  - 10.3390/plants15203111
UR  - https://europepmc.org/article/MED/42943064
AB  - Accurate varietal identification remains a persistent issue in pear germplasm conservation, creating obstacles in breeding parent selection and impeding progress in elite cultivar research and cultivation. This study aims to develop a set of highly polymorphic single-nucleotide polymorphism (SNP) markers for pear variety identification. Based on the design criteria for highly polymorphic KASP primers, 34 primer pairs were synthesized, of which 25 produced reliable genotyping results, showing clear separation among different genotypes with minimal missing data. The 269 pear accessions were successfully genotyped, with observed heterozygosity (Ho) ranging from 0.33 to 0.56, polymorphism information content (PIC) values between 0.336 and 0.375, and minor allele frequency (MAF) ranging from 0.31 to 0.50. A total of 257 distinct genotypes were obtained from 269 pear accessions, among which two groups of known bud mutation were consistent, and ten groups of potential synonym accessions were detected. The cluster analysis based on the 25 KASP markers separated the 269 pear accessions into two clusters, which showed a broad association with taxonomic background and origin. This study shows that this CoreSNP-KASP marker set can be used for preliminary molecular screening of pear accessions and provides useful information to support subsequent breeding programs.
SN  - 2223-7747
ER  -