Abstract
Altering the flowering habit of strawberry (Fragaria × ananassa) from seasonal flowering to perpetual flowering (PF) can extend its production period and increase yields. Traditional linkage analysis with DNA markers revealed that the single dominant Perpetual Flowering Runnering (PFRU) locus controls the PF trait in strawberry. Additional DNA markers for PFRU were developed using the linkage map; however, they have only been applied to the limited cultivars showing polymorphisms at this locus. Furthermore, only dominant markers were previously available, making it difficult to distinguish PFRU homozygotes and heterozygotes. Here, we delimited the PFRU genomic region by performing a genome-wide association study with whole-genome sequencing data and a publicly available reference genome and mapped the previously reported DNA markers onto a physical map of F. × ananassa. Our study will facilitate the development of more DNA markers to accelerate breeding PF-type strawberry cultivars and further delimit the candidate region to isolate the causal gene for PFRU.
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Data availability
The accession numbers for the sequence data are listed in Supplementary Table 1. All data can be accessed in the National Center for Biotechnology Information (NCBI).
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Acknowledgements
Computations were partially performed on the NIG supercomputer at ROIS (Research Organization of Information and Systems) National Institute of Genetics (Mishima, Shizuoka, Japan). A part of strawberry cultivars used in this study were distributed from the National Agriculture and Food Research Organization (NARO) Genebank.
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SS performed GWAS and blast analysis, MT designed DNA markers, TS performed GWAS, YS performed phylogenetic analysis, MN performed phylogenetic analysis, NM performed genotyping, MS confirmed the phenotype of flowering habit, KT confirmed the phenotype of flowering habit, TW conceived and supervised the entire study, HT designed the research and wrote the paper. All authors contributed to the manuscript.
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Saiga, S., Tada, M., Segawa, T. et al. NGS-based genome wide association study helps to develop co-dominant marker for the physical map-based locus of PFRU controlling flowering in cultivated octoploid strawberry. Euphytica 219, 6 (2023). https://doi.org/10.1007/s10681-022-03132-7
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DOI: https://doi.org/10.1007/s10681-022-03132-7