DNA profiling of pineapple cultivars in Japan discriminated by SSR markers

Shoda, M.; Urasaki, Naoya; SAKIYAMA, Sumisu; Terakami, Shingo; Hosaka, Fumiko; Shigeta, Narumi; Nishitani, Chikako; Yamamoto, Takatsugu

doi:10.1270/jsbbs.62.352

Cited by 32 publications

(36 citation statements)

References 14 publications

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“…Similar results were reported by other studies that used DNA marker analysis to classify pineapple cultivars (Kato et al, 2005;Shoda et al, 2012). Collins (1960) showed that whether the outside edge of the leaf is spiny or lack spines is controlled by a single gene.…”

Section: Discussionsupporting

confidence: 83%

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Cultivar identification and genetic relationship of pineapple (Ananas comosus) cultivars using SSR markers

Lin¹,

Kuan²,

Weng³

et al. 2015

Genet. Mol. Res.

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ABSTRACT. The genetic relationships among 27 pineapple [Ananas comosus (L.) Merr.] cultivars and lines were examined using 16 simple sequence repeat (SSR) markers. The number of alleles per locus of the SSR markers ranged from 2 to 6 (average 3.19), for a total of 51 alleles. Similarity coefficients were calculated on the basis of 51 amplified bands. A dendrogram was created according to the 16 SSR markers by the unweighted pair-group method. The banding patterns obtained from the SSR primers allowed most of the cultivars and lines to be distinguished, with the exception of vegetative clones. According to the dendrogram, the 27 pineapple cultivars and lines were clustered into three main clusters and four individual clusters. As expected, the dendrogram showed that derived cultivars and lines are closely related to their parental cultivars; the genetic relationships between pineapple cultivars agree with the genealogy of (2015) their breeding history. In addition, the analysis showed that there is no obvious correlation between SSR markers and morphological characters.In conclusion, SSR analysis is an efficient method for pineapple cultivar identification and can offer valuable informative characters to identify pineapple cultivars in Taiwan.

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Section: Discussionsupporting

confidence: 83%

“…SSRs in expressed sequence tags (EST-SSRs) have been developed to analyze cross-amplification in pineapple at the species, genus, subfamily, and family levels (Wöhrmann and Weising, 2011). SSR markers have also been used to discriminate pineapple cultivars in Japan (Shoda et al, 2012).…”

Section: Introductionmentioning

confidence: 99%

Cultivar identification and genetic relationship of pineapple (Ananas comosus) cultivars using SSR markers

Lin¹,

Kuan²,

Weng³

et al. 2015

Genet. Mol. Res.

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“…In other infringement cases, DNA profiling methods were developed for the sweet cherry (Prunus avium L.), rush (Juncus effuses L.), kidney beans (Phaseolus vulgaris L.), and adzuki beans (Vigna angularis (Willd.) Ohwi & Ohashi), among others (Shoda et al, 2012). Our results show that it is possible to identify 59 citrus cultivars, local varieties, and selections, including new cultivars recently developed by the citrus breeding program in the national institute of Japan and that are now commercially produced and frequently used as citrus breeding parents in Japan, on the basis of their genotypes by using eight selected CAPS markers.…”

Section: Discussionmentioning

confidence: 65%

“…The International Union for the Protection of New Varieties of Plants (UPOV; http://www.upov.int/index_en.html, June 14, 2016) has provided and promoted effective systems of plant variety protection. For example, UPOV's working group on Biochemical and Molecular Techniques, and DNA-profiling in particular (BMT), has encouraged the use of DNA profiling techniques to protect the rights of plant breeders (Shoda et al, 2012). To help identify citrus cultivars developed in Japan by using DNA-profiling techniques, several research groups have reported the development of DNA markers (Matsuyama et al, 1992;Omura et al, 2004;Ueda et al, 2003).…”

Section: Introductionmentioning

confidence: 99%

Identification and Parentage Analysis of Citrus Cultivars Developed in Japan by CAPS Markers

et al. 2017

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To protect the rights of breeders of the major citrus cultivars developed under breeding programs by the national institute of Japan, we developed a method of cultivar identification based on cleaved amplified polymorphic sequence (CAPS) markers, and used it to evaluate their identity and parentage. We selected 19 CAPS markers that had a single-locus origin and moderate polymorphism, and used them to construct genotyping data for 59 citrus cultivars (including American accessions), local varieties, and selections. Of the 19 CAPS markers, 8 were sufficient to discriminate among all accessions except 'Mato' buntan (Citrus grandis Osbeck) and 'Hirado' buntan (Citrus grandis Osbeck). Among the 33 Japanese cultivars, the parentage of 30 agreed with that reported, but 'Setoka', 'Southern Red', and 'Reikou' had discrepancies at one or more loci. Using 15 to 18 CAPS markers to validate the putative parentage revealed that the seed parent of 'Setoka' was 'KyEn No. 4', not 'Tsunonozomi', and the pollen parent of 'Southern Red' was 'Osceola', not ponkan (C. reticulate Blanco). The seed parent of 'Reikou' remains unknown.

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“…The size of amplified bands was scored using an internal DNA standard (GeneScan-400HD ROX; PE Applied Biosystems) with GeneScan software (PE Applied Biosystems). The parent-offspring relationships of Korean bred pear cultivars were analyzed by comparing the SSR alleles in each cultivars with registrant parents using the MARCO software (Fujii et al unpublished as cited by Shoda et al 2012). Furthermore, to identify minimal number of marker subsets, MinimalMarker software (Fujii et al 2007) was used because that was necessary to distinguish all of the cultivars to find out identical genotypes of the 21 cultivars generated by the 53 SSR markers.…”

Section: Data Analysis and Ssr Genotyping By Ssr Markersmentioning

confidence: 99%

Parentage Confirmation of Korean Bred Pear Cultivars by Simple Sequence Repeat SSR Genotyping and S-Genotypes Analysis

Kim

Robin

Nou

2016

Plant Breed. Biotech.

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This is an Open-Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. , S 6 , or S 7 of 450 bp in length whereas the Japanese control cultivars had four other comparatively longer S-RNase. Out of nine pear cultivars only 'Chuwhangbae' and 'Whangkeumbae' had identical SSR genotypes and S-genotype with previously reported parents. For another cultivar, 'Sujeonbae', the parents were the mutants of reported parent, 'Niitaka'. For four other cultivars, SSR and S-genotypes of offspring matched with only one reported parent 'Niitaka' but those of another parent did not match. For the two other pear cultivars 'Soowhangbae' and 'Sooyoung' none of reported parents were confirmed by SSR genotyping and S-genotype analysis. Historically, the parent 'Niitaka' was predominant in the Korean pear breeding programs because of its high yield potential and quality. The methods have been used in this study could be used to identify pear cultivars with diverse S-genotypes to eliminate any existing obscure parent-offspring relations.

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DNA profiling of pineapple cultivars in Japan discriminated by SSR markers

Cited by 32 publications

References 14 publications

Cultivar identification and genetic relationship of pineapple (Ananas comosus) cultivars using SSR markers

Cultivar identification and genetic relationship of pineapple (Ananas comosus) cultivars using SSR markers

Identification and Parentage Analysis of Citrus Cultivars Developed in Japan by CAPS Markers

Parentage Confirmation of Korean Bred Pear Cultivars by Simple Sequence Repeat SSR Genotyping and S-Genotypes Analysis

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