Article | 06. 2016 Vol. 34, Issue. 3
Confirmation of Parentage of the Pear Cultivar ‘Niitaka’ (Pyrus pyrifolia) Based on Self-incompatibility Haplotypes and Genotyping with SSR Markers



Department of Horticulture, Sunchon National University1




2016.06. 453:460


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The parentage of the horticulturally important pear cultivar ‘Niitaka’ was confirmed by determining its S -genotypes based on the S-RNase and PpSFBB genes, and genotyping using simple sequence repeat (SSR) markers. Previous reports suggested that the cultivars ‘Amanogawa’ and ‘Imamuraaki’ were the parents of ‘Niitaka’, although the cultivars ‘Chojuro’ and ‘Shinchu’ were also examined as candidate parents, along with two other cultivars. In the present study, the S -genotype of ‘Niitaka’ was determined to be S3S9. The S9-RNase of ‘Niitaka’ was found to be likely inherited from the parent ‘Amanogawa’ (S1S9) and the S3-RNase from ‘Chojuro’ (S3S5) or ‘Shinchu’ (S3S5). Based on the S-genotypes, the cultivar ‘Imamuraaki’ (S1S6) had no contribution to the parentage of ‘Niitaka’ (S3S9). A total of 67 polymorphic SSR markers were used to further confirm the parentage of ‘Niitaka’. Discrepancies were found at several SSR loci between ‘Niitaka’ and the cultivars ‘Imamuraaki’ and ‘Shinchu’, whereas ‘Niitaka’ inherited alleles from ‘Amanogawa’ and ‘Chojuro’ at all SSR loci. Therefore, our findings established that ‘Amanogawa’ and ‘Chojuro’ are the parents of pear cultivar ‘Niitaka’, and not ‘Imamuraaki’ as previously reported.



1. Castillo C, Takasaki T, Saito T, Yoshimura Y, Norioka S, Nakanishi T (2001) Reconsideration of S-genotype assignments and discovery of a new allele based on S-RNase PCRR-FLP in Japanese pear cultivars. Breed Sci 51:5-11. doi:10.1270/jsbbs.51.5   

2. Hashiyada M, Nata M, Adachi N, Kanetake J, Ji G, Sagisaka K, Kimura T, Ujiie K, Takaki T, Tsuchiya M (1997) Allele frequency and application to paternity test of STR loci in Japanese population utilizing multiplex fluorescent PCR kit. DNA Polymorphism 6:152-155. (In Japanese with English title)   

3. Hiratsuka S, Kubo T, Okada Y (1998) Estimation of self-incompatibility genotype in Japanese pear cultivars by stylar protein analysis. Jpn Soc Hortic Sci 67:491-496. doi:10.2503/jjshs.67.491  

4. Hwang HS, Shin IS, Kim WC, Cho HM, Shin YU, Hwang JH (2002) Breeding of the new early season pear cultivar ‘Shincheon’. Acta Hortic 587: 299-320. doi:10.17660/ActaHortic.2002.587.39  

5. Hwang HS, Shin IS, Kim WC, Shin YU, Hwang JH, Hong SS (2005a) Breeding of pear (Pyrus pyrifolia Nakai) cv. Hanareum characterized by early maturity and superior fruit quality. Korean J Hortic Sci Technol 23:60-63  

6. Hwang HS, Kim WC, Shin IS, Cho H M, Shin YU, Lee DK, Hong SS (2005b) Breeding of a new yellow green pear cultivar ‘Josengwhangkeum’ (Pyrus pyrifolia Nakai) with high quality for summer season. Korean J Hortic Sci Technol 23:56-59  

7. Ishimizu T, Norioka S, Nakanishi T, Sakiyama F (1998) S-genotype of Japanese pear ‘Housui’. J Jpn Soc Hortic Sci 67:35-38. doi:10.2503/jjshs.67.35  

8. Kakui H, Tsuzuki T, Koba T, Sassa H (2007) Polymorphisms of SFBB-γ and its use for S genotyping in Japanese pear (Pyrus pyrifolia).Plant Cell Rep 26:1619-1625. doi:10.1007/s00299-007-0386-8  

9. Kajiura M, Kanato K, Machida Y, Maeda M, Kozaki I, Tashiro T, Kishimoto O, Seike K (1974) New Japanese pear cultivar ‘Hakko’ and ‘Hosui’. Bull Fruit Tree Res Stn A 1:1-12. (In Japanese)  

10. Kajiura I, Sato Y (1990) Recent progress in Japanese pear (Pyrus pyrifolia) breeding and descriptions of cultivars based on literature review. Bull Fruit Tree Res Stn Extra No. 1:1-329. (In Japanese with English abstract)  

11. Katsumata Y, Katsumata R, Yamamoto T, Tamaki K (2001) Estimating probabilities and dealing with mutations in paternity testing: verification of DNA testing with commercially available STR kits. Jpn J Legal Med 55: 205-216. (In Japanese)  

12. Kikuchi A (1927) Some studies on pear and pear breeding. Bull Agric Exp St Kanagawa 53:1-104. (In Japanese)  

13. Kim H, Kakui H, Koba T, Hirata Y, Sassa H (2007) Cloning of a new S-RNase and development of a PCR-RFLP system for the determination of the S-genotypes of Japanese pear. Breed Sci 57:159-164. doi:10.1270/jsbbs.57.159  

14. Kim H, Hirata Y, Nou I (2002) Determination of S-genotype of pear (Pyrus pyrifolia) cultivars by S-RNase sequencing and PCR-RFLP analyses. Mol Cells 13:444-451  

15. Kim YS, Hong KH, Kim JB, Yiem MS, Lee UJ, Kim WC, Kim JH, Hong SB, Kim SB, Moon JY, Kim KY, Cho MD, Lee DK (1986) A new late-season pear cultivar ‘Chuwhangbae’. Res Rpt RDA (Hortic) 28:57-61  

16. Kimura T, Sawamura Y, Kotobuki K, Matsuta N, Hayashi T, Ban Y, Yamamoto T (2003) Parentage analysis in pear cultivars characterized by SSR marker. J Jpn Soc Hortic Sci 72:182-189. doi:10.2503/jjshs.72.182  

17. Neff MM, Neff JD, Chory J, Pepper AE (1998) dCAPS, a simple technique for the genetic analysis of single nucleotide polymorphisms: experimental applications in Arabidopsis thaliana genetics. Plant J 14:387-392. doi:10.1046/j.1365-313X.1998.00124.x  

18. Sassa H, Kakui H, Miyamoto M, Suzuki Y, Hanada T, Ushijima K, Kusaba M, Hirano H, Koba T (2007) S locus F-box brothers: multiple and pollen-specific F-box genes with S haplotype-specific polymorphisms in apple and pear. Genetics 175:1869-1881. doi:10.1534/genetics.106.068858  

19. Sawamura Y, Saito T, Takada N, Yamamoto T, Kimura T, Hayashi T, Kotobuki K (2004) Identification of parentage of Japanese pear ‘Housui’. J Jpn Soc Hortic Sci 73:511-518. doi:10.2503/jjshs.73.511  

20. Sawamura Y, Takada N, Yamamoto T, Saito T, Kimura T, Kotobuki K (2008) Identification of parent-offspring relationships in 55 Japanese pear cultivars using S-RNase allele and SSR markers. J Jpn Soc Hortic Sci 77:364-373. doi:10.2503/jjshs1.77.364  

21. Shin IS, Kim WC, Hwang HS, Shin YU (2002) Achievements of pear breeding in Korea. Acta Hortic 596:247-250. doi:10.17660/ActaHortic.2002.596.36  

22. Shin IS, Hwang HS, Shin YU, Kim WC (2007) ‘Sooyoung’: a mid-season pear (Pyrus pyrifolia Nakai) cultivar with high soluble solids and medium size. J Am Pomol Soc 61:170-173  

23. Takasaki T, Okada K, Castillo C, Moriya Y, Saito T, Sawamura Y, Norioka N, Norioka S, Nakanishi T (2004) Sequence of the S9-RNase cDNA and PCR-RFLP system for discriminating S1- to S9-allele in Japanese pear. Euphytica 135:157-167. doi:10.1023/B:EUPH.0000014907.50575.d0  

24. Washio K, Takahashi T, Handa M (2006) A new Japanese pear cultivar, ‘Kirari’. Bull Tochigi Agric Exp Stn 58:1-5. (In Japanese)  

25. Yamamoto T, Kimura T, Hayashi T, Ban Y (2006) DNA profiling of fresh and processed fruits in pear. Breed Sci 56:165-171. doi:10.1270/jsbbs.56.165  

26. Yamamoto T, Kimura T, Soejima J, Sanada T, Ban Y,Hayashi T (2004) Identification of quince varieties using SSR markers developed from pear and apple. Breed Sci 54:239-244. doi:10.1270/jsbbs.54.239  

27. Yamamoto T, Kimura T, Shoda M, Ban Y, Hayashi T, Matsuta N (2002) Development of microsatellite markers in Japanese pear (Pyrus pyrifolia Nakai). Molec Ecol Notes 2:14-16. doi:10.1046/j.1471-8286.2002.00128.x