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Development of simple PCR-based markers linked to the Ms locus, a restorer-of-fertility gene in onion (Allium cepa L.)

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Abstract

In order to implement reliable marker-assisted selection systems for the restorer-of-fertility locus (Ms) in onions (Allium cepa L.), simple PCR-based codominant markers linked to the Ms locus were developed. Based on the EST probe sequences of previously reported RFLP markers, full-length genomic sequences of the gene encoding putative oligopeptide transporter (OPT) was obtained by RACE. The first intron contained two 108 and 439-bp indel polymorphisms between the two Ms allele-linked OPT alleles. A simple PCR marker for OPT was developed by designing a primer pair on the flanking regions of the 108-bp indel which is created by two tandem repeats. The second simple PCR marker was developed from the EST probe encoding photosystem I subunit O (PsaO). Two 14 and 39-bp tandem repeats were identified from the 5′ upstream sequences of the PsaO-coding gene, which were isolated by genome walking. Three different compositions of these tandem repeats were identified from diverse onion germplasm. A primer set binding to the flanking sequence of these polymorphic repeats was used to amplify three different marker haplotypes. The OPT marker was tightly linked to the Ms locus at a distance of 1.5 cM, but the analysis of the linkage relationship showed little linkage disequilibrium between the marker and the Ms locus. Even so, these simple PCR markers are valuable tools for the marker-assisted selection of segregating individuals in onion F1 hybrid breeding programs.

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Acknowledgments

This research was supported by the Agriculture Research Center program and a grant (110046-3) of the Ministry for Food, Agriculture, Forestry and Fisheries, Korea, and also partially supported by a grant (PJ005407), the Specific Joint Agricultural Research-promoting Projects, RDA, Republic of Korea. We thank Seung-Hee Kim and Seon Chong for their dedicated technical help.

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Correspondence to Sunggil Kim.

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Bang, H., Cho, D.Y., Yoo, KS. et al. Development of simple PCR-based markers linked to the Ms locus, a restorer-of-fertility gene in onion (Allium cepa L.). Euphytica 179, 439–449 (2011). https://doi.org/10.1007/s10681-010-0342-5

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