Development of insertion and deletion markers associated with pollen fertility in pears (Pyrus spp.)
Insertion and deletion (InDel) marker is a valuable complement to another sequence-based molecular marker such as single nucleotide polymorphism and simple sequence repeat for genetic analysis in plants. InDel marker shows co-dominant inheritance and wide genomic distribution. In our previous study, a genomic region related to pollen fertility was identified on the high-density genetic linkage map. Re-sequencing data of the parents were re-analyzed by customized bioinformatic pipeline to discover in silico InDel structures in the proximity to the genomic region. Candidate polymorphic InDel variations between the parents were used to design a set of primers generating 200-400 bp of PCR amplicon. InDel markers were applied to pollenless cultivar 'Whangkeumbae' (Pyrus pyrifolia), normal cultivar 'Minibae' (P. hybrid), and their 88 F1 individuals. Predicting pollen fertility using an InDel marker (CPID154) showed 80.7% of accuracy in F1 individuals. The developed InDel markers in the present study will be used for marker-assisted selection of pollen fertility in Pyrus spp.
Han, H., Oh, Y., Kim, K., Oh, S., Cho, S., Kim, Y., Kim, Y.K. and Kim, D. (2021). Development of insertion and deletion markers associated with pollen fertility in pears (Pyrus spp.). Acta Hortic. 1307, 193-198
genotyping-by-sequencing, marker-assisted selection, Minibae, single nucleotide polymorphism, Whangkeumbae