Skip to main content

Genetic Diversity and Identity of Chinese Loquat Cultivars/Accessions (Eriobotrya japonica) Using Apple SSR Markers

Abstract

Loquat (Eriobotrya japonica) is an underutilized fruit crop that originated in China and for which only a small number of molecular markers are available. This number can be increased by identifying apple SSRs that are transferable to loquat cultivars/accessions to provide new insight into the level of genetic diversity within loquat and synteny with apple. We evaluated 71 apple SSR markers distributed across 17 linkage groups, and identified 39 SSRs transferable to loquat. Testing 54 loquat accessions, from Japan, Spain, four provinces in China, and two wild species gave a total of 155 different alleles with a mean value of 3.38 per locus. The mean effective number of alleles was 2.21, and the mean observed heterozygosity was 0.47. These values indicate a high degree of genetic diversity in the set of Chinese loquat accessions analyzed. Unweighted pair-group method analysis based on simple matching coefficent clustered the accessions into two groups, cultivated and wild loquat. The cultivated loquat can be subdivided into three subgroups which generally reflect their geographic origin in China. The Spanish cultivars clustered with those of the Jiangsu and Zhejiang provinces. A core set of five SSR markers could distinguish most accessions.

This is a preview of subscription content, access via your institution.

Fig. 1
Fig. 2
Fig. 3
Fig. 4
Fig. 5
Fig. 6

References

  • Brant J (1991) Fast and sensitive silver staining of DNA in polyacrylamide gels. Anal Biochem 196:80–83

    Article  Google Scholar 

  • Brini W, Mars M, Hormaza JI (2008) Genetic diversity in local Tunisian pears (Pyrus communis L.) studied with SSR markers. Sci Hortic 115:337–341

    CAS  Article  Google Scholar 

  • Cai LH, Huang HW, Deng XX, Zhang WC (2003) Allozyme analysis of genetic diversity, genetic structure and interspecific relationship in genus Eriobotrya. First International Symposium on Loquat. Zaragoza: CIHEAM-IAMZ. 31-40

  • Dirlewanger E, Cosson P, Tavaud M, Aranzana MJ, Poizat C, Zanetto A, Arús P, Laigret F (2002) Development of microsatellite markers in peach [Prunus persica (L.) Batsch] and their use in genetic diversity analysis in peach and sweet cherry (Prunus avium L.). Theor Appl Genet 105:127–138

    CAS  Article  PubMed  Google Scholar 

  • Dirlewanger E, Graziano E, Joobeur T, Garriga-Calderé F, Cosson P, Howad W, Arús P (2004) Comparative mapping and marker-assisted selection in Rosaceae fruit crops. Proc Natl Acad Sci 101:9891–9896

    CAS  Article  PubMed  Google Scholar 

  • Gianfranceschi L, Soglio V (2004) The European project HiDRAS: innovative multidisciplinary approaches to breeding high quality disease resistant apples. Acta Hort 663:327–330

    Google Scholar 

  • Gisbert AD, López-Capuz I, Soriano JM, Llácer G, Romero C, Badenes ML (2008) Development of microsatellite markers from loquat, Eriobotrya japonica (Thunb.) Lindl. Mol Ecol Resour 9(3):803–805

    Article  Google Scholar 

  • Gisbert AD, Martínez-Calvo J, Llácer G, Badenes ML, Romero C (2009a) Development of two loquat [Eriobotrya japonica (Thunb.) Lindl.] linkage maps based on AFLPs and SSR markers from different Rosaceae species. Mol Breeding 23:523–538

    CAS  Article  Google Scholar 

  • Gisbert AD, Romero C, Martínez-Calvo JM, Leida C, Llácer G, Badenes ML (2009b) Genetic diversity evaluation of a loquat (Eriobotrya japonica (Thunb) Lindl) germplasm collection by SSRs and S-allele fragments. Euphytica 168:121–134

    CAS  Article  Google Scholar 

  • Guilford P, Prakash S, Zhu JM, Rikkerink E, Gardiner S, Bassett H, Forster R (1997) Microsatellites in Malus × domestica (apple): abundance, polymorphism and cultivar identification. Theor Appl Genet 94:249–254

    CAS  Article  Google Scholar 

  • Liebhard R, Gianfranceschi L, Koller B, Ryder CD, Tarchini R, Van de Weg WE, Gessler C (2002) Development and characterization of 140 new microsatellites in apple (Malus × domestica Borkh.). Mol Breeding 10:217–241

    CAS  Article  Google Scholar 

  • Lin SQ (2007) World loquat production and research with special reference to China. Acta Hort 750:37–43

    Google Scholar 

  • Martínez-Calvo JM, Gisbert AD, Alamar MC, Hernandorena R, Romero C, Llácer G, Badenes ML (2008) Study of a germplasm collection of loquat (Eriobotrya japonica Lindl.) by multivariate analysis. Genet Resour Crop Evol 55:695–703

    Article  Google Scholar 

  • Patocchi A, Fernández-Fernández F, Evans K, Gobbin D, Rezzonico F, Boudichevskaia A, Dunemann F, Stankiewicz-Kosy M, Mathis F, Durel CE, Gianfranceschi L, Costa F, Toller C, Cova C, Mott D, Komjanc M, Barbaro E, Kodde L, Rikkerink E, Gessler C, Van de Weg WE (2008) Development and test of 21 multiplex PCRs composed of SSRs spanning 80% of the apple genome. Tree Gen Genomes 5:211–223

    Article  Google Scholar 

  • Qiao YC (2008) Construction of molecular genetic linkage map and genetic diversity of genus Eriobotrya. Dissertation, South-China Agr Univ

  • Qiu WL, Zhang HZ (1996) Fruit flora of China (longan and loquat). China Forestry Press, Beijing

    Google Scholar 

  • Roche P, Alston FH, Maliepaard C, Evans KM, Vrielink R, Dunemann F, Markussen T, Tartarini S, Brown LM, Ryder C, King GJ (1997) RFLP and RAPD markers linked to the rosy leaf curling aphid resistance gene (Sd 1) in apple. Theor Appl Genet 94:528–533

    CAS  Article  Google Scholar 

  • Rohlf FJ (2000) NTSYS-pc: Numerical taxonomy and multivariate analysis system, version 2.1. Exeter Publications, New York

    Google Scholar 

  • Sargent DJ, Fernandéz-Fernandéz F, Ruiz-Roja JJ, Sutherland BG, Passey A, Whitehouse AB, Simpson DW (2009) A genetic linkage map of the cultivated strawberry (Fragaria × ananassa) and its comparison to the diploid Fragaria reference map. Mol Breeding 24:293–303

  • Silfverberg-Dilworth E, Matasci CL, Van de Weg WE, Van Kaauwen MPW, Walser M, Kodde LP, Soglio V, Gianfranceschi L, Durel CE, Costa F, Yamamoto T, Koller B, Gessler C, Patocchi A (2006) Microsatellite markers spanning the apple (Malus × domestica Borkh) genome. Tree Genet Genomes 2:202–224

    Article  Google Scholar 

  • Soriano JM, Romero C, Vilanova S, Llácer G, Badenes ML (2005) Genetic diversity of loquat germplasm (Eriobotrya japonica (Thunb) Lindl) assessed by SSR markers. Genome 48:108–114

    CAS  Article  PubMed  Google Scholar 

  • Tang B (1997) A study of the sibship among Eriobotrya japonica Lindl, E. prinoides Rehd. & Wils. var. daduheensis H.Z. Zhang and E. prinoides Rehd.&wils. J Chongqing Teachers College (Natural Science Edition). 14:18-25

  • Vilanova S, Badenes ML, Martínez-Calvo J, Llácer G (2001) Analysis of loquat germplasm (Eriobotrya japonica Lindl) by RAPD molecular markers. Euphytica 121:25–29

    CAS  Article  Google Scholar 

  • Vinatzer BA, Patocchi A, Tartarini S, Gianfranceschi L, Sansavini S, Gessler C (2004) Isolation of two microsatellite markers from BAC clones of the Vf scab resistance. Plant Breed 123:321–326

    CAS  Article  Google Scholar 

  • Watanabe M, Yamamoto T, Ohara M, Nishitani C, Yahata S (2008) Cultivar differentiation identified by SSR markers and the application for polyploidy loquat plants. J Jpn Soc Hortic Sci 77:388–394

    CAS  Article  Google Scholar 

  • Weber JL, May PE (1989) Abundant class of human DNA polymorphisms which can be typed using the polymerase chain reaction. Am J Hum Genet 44:388–396

    CAS  PubMed  Google Scholar 

  • Wünsch A, Hormaza JI (2007) Characterization of variability and genetic similarity of European pear using microsatellite loci developed in apple. Sci Hortic 113:37–43

    Article  Google Scholar 

  • Yang XH, Liu CM, Lin SQ (2007) The Genetic relationship among common loquat, Daduhe loquat and Oakleaf loquat, according to RAPD and AFLP analysis. Subtropical Plant Sci 36:9–12

    CAS  Google Scholar 

  • Zhang CY, Chen XS, Zhang YM, Yuan ZH, Liu ZC, Wang YL, LIN Q (2009) Method of constructing core collection for Malus sieversii in Xinjiang, China using molecular markers. Agric Sci China 8:276–284

    Google Scholar 

Download references

Acknowledgments

This work was supported by the Special Research Fund for Public Welfare in Chinese Agriculture (contract no. 200903041) and the Ministry of Education of the PR China Visiting PhD Students, also by Southwest University Postgraduate Science and Technology Innovation Foundation Projects (contract no. 2006013). We gratefully acknowledge Lin S.Q. of South China Agricultural University and Wu J.C. of Putian College for kindly providing the Spanish and Fujian Province accessions, respectively. We thank Dr. Luud Gilissen for his critical comments.

Author information

Authors and Affiliations

Authors

Corresponding authors

Correspondence to Guo Lu Liang or Zhong Shan Gao.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Appendix 1

XLS 106 kb

Rights and permissions

Reprints and Permissions

About this article

Cite this article

He, Q., Li, X.W., Liang, G.L. et al. Genetic Diversity and Identity of Chinese Loquat Cultivars/Accessions (Eriobotrya japonica) Using Apple SSR Markers. Plant Mol Biol Rep 29, 197–208 (2011). https://doi.org/10.1007/s11105-010-0218-9

Download citation

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11105-010-0218-9

Keywords

  • Eriobotrya japonica
  • Genetic diversity
  • Simple sequence repeat
  • Genetic relationship