Development of Indel markers for the selection of Satsuma mandarin (Citrus unshiu Marc.) hybrids that can be used for low-cost genotyping with agarose gels

Cross-breeding between cultivars of Satsuma mandarins is difficult because of the seeds’ polyembryonic characteristics. Even if a seed is obtained by hybridization, the seed contains only one zygotic embryo (hybrid embryo) and many nucellar embryos. Therefore, for efficient cross-breeding, it is nec...

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Bibliographic Details
Published in:Euphytica 2020-07, Vol.216 (7), Article 115
Main Authors: Noda, Takahiro, Daiou, Kaoru, Mihara, Takashi, Nagano, Yukio
Format: Article
Language:English
Subjects:
Analysis
Biomedical and Life Sciences
Biotechnology
Citrus
Citrus fruits
Citrus unshiu
Cross-breeding
Cultivars
Deoxyribonucleic acid
DNA
Electrophoresis
Embryos
Gel electrophoresis
Gels
Genetic markers
Genomes
Genomics
Genotypes
Genotyping
Hybridization
Hybrids
Life Sciences
Low cost
Mandarins
Markers
Plant breeding
Plant Genetics and Genomics
Plant Pathology
Plant Physiology
Plant Sciences
Seeds
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Summary:Cross-breeding between cultivars of Satsuma mandarins is difficult because of the seeds’ polyembryonic characteristics. Even if a seed is obtained by hybridization, the seed contains only one zygotic embryo (hybrid embryo) and many nucellar embryos. Therefore, for efficient cross-breeding, it is necessary to select a zygotic embryo from among the nucellar embryos. To identify the zygotic embryo, we have developed 119 Indel markers that can be clearly detected by simple agarose gel electrophoresis by mining the Indel region from the resequencing analysis of the short reads of Satsuma mandarin against the reference genome of Satsuma mandarin . Additionally, we showed that the genotype determined by these markers can be used as an indicator for the selection of zygotic embryo-derived individuals. In addition, many of the developed Indel markers were found to be used for genotyping Satsuma mandarin as well as other citrus species and relatives. This codominant DNA marker that can be detected by low-cost, simple electrophoresis is expected to be used for the identification of zygotic embryo-derived individuals and for various purposes such as cultivar identification.
ISSN:0014-2336
1573-5060
DOI:10.1007/s10681-020-02654-2