De Gruyter Open

From December 2015 Agricultura journal will be published in partnership with De Gruyter Open (degruyteropen.com), the world's second largest publisher of Open Access academic content, and part of the De Gruyter group which has over 260 years of publishing history. De Gruyter Open closely cooperates with the majority of abstracting and indexing services, universities and libraries, providing a wide availability of journal's content and increasing its visibility. Agricultura's full-text articles will be found also at the new address on the De Gruyter Open's platform in following weeks.


Publishing support

Publishing of the journal Agricultura is financially supported by Slovenian Research Agency.

Izdajanje revije Agricultura je finančno podprto s strani Javne agencije za raziskovalno dejavnost Republike Slovenije.


Our Profile

The journal AGRICULTURA (A) publishes scientific works from the following fields: animal science, plant production, farm mechanisation, land management, agricultural economics, ecology, biotechnology, microbiology
ISSN 1581-5439

Metka ŠIŠKOand Branka JAVORNIK
pp. 21-24

A comparative study of discriminating capacity of AFLP and SSR markers regarding their effectiveness in establishing genetic relationships among 94 pear genotypes was performed by calculating confusion probability, discriminating power and effective number of patterns per assay unit. The AFLPs analyses produced more polymorphic markers than SSRs. The average discriminating power was very high for AFLPs and a bit lower for SSRs.
Both molecular marker techniques proved their reliability to assess genetic relationships among pear genotypes.

Key words: AFLP, SSR, molecular markers, pear, Pyrus, discriminating capacity


Slovenian:

Učinkovitost AFLP in SSR molekulskih markerjev za določevanje genetske sorodnosti pri genotipih hrušk (Pyrus spp.)

Narejena je bila primerjalna študija učinkovitosti ločitvene sposobnosti dveh markerskih sistemov AFLP in SSR, v smislu njihove učinkovitosti pri ločitvi med 94 genotipih hrušk, z izračunom »confusion probability«, »discriminating power - DP« in »effective number of patterns« za vsako enoto. AFLP analize so producirale več polimorfnih markerjev, kot SSR. Povprečna DP je bila zelo visoka za AFLP in nekoliko nižja za SSR. Oba markerska sistema sta potrdila svojo učinkovitost pri določanju genetske sorodnosti med proučevanimi genotipi hrušk.

Ključne besede: AFLP, SSR, molekularni markerji, hruška, Pyrus, ločitvena sposobnost


CITATED REFERENCES :

1. Bassil N V, Postman J D, Neou C. Pyrus microsatellite markers from genbank sequences. Acta Hort. 2005; 671:289-92.

2. Belaj A, Satović Z, Cipriani G, Baldoni L, Testolin R, Rallo L, Trujillo I. Comparative study of the discriminating capacity of RAPD, AFLP and SSR markers and their effectiveness in establishing genetic relationship in olive. Theoretical and Applied Genetics 2003;107:736-44.

3. Botta R, Akkak A, Me G, Radicati L, Casavecchia V. Identification of pear cultivars by molecular markers. Acta Hort. 1998;457:63-70.

4. Ghosh A, Lukens L. N, Hunter D. M, Strommer J. N. European and Asian Pears: Simple Sequence Repeat – Polyacrylamide Gel Electrophoresis – based Analysis of Commercially Important North American Cultivars. Hort. Sci. 2006;41(2):304-9.

5. Gianfranceschi L, Seglias N, Tarchini R, Komjanc M, Gessler C. Simple sequence repeats for the genetic analysis of apple. Theoretical and Applied Genetics 1998;96:1069-76.

6. Guilford P, Prakash S, Zhu J. M, Rikkerink E, Gardiner S, Bassett H, Forster R. Microsatellites in Malus ×domestica (apple): abundance, polymorphism and cultivar identification. Theoretical and Applied Genetics, 1997;94:249-54.

7. Hemmat M, Weeden N F, Brown S K. Mapping and evaluation of Malus×domestica microsatellites in apple and pear. J. Am. Soc. Hort. Sci. 2003;128(4): 515-20.

8. Hokanson S C, Szewc-McFadden A K, Lamboy W F, McFerson J R. Microsatellite (SSR) markers reveal genetic identities, genetic diversity and relationships in a Malus×domestica Borkh. core subset collection. Theoretical and Applied Genetics, 1998;97:671-83.

9. Kimura T, Shi Y Z, Shoda M, Kotobuki K, Matsuta N, Hayashi T, Ban Y, Yamamoto T. Identification of Asian pear varieties by SSR analysis. Breed. Sci. 2002;52(2):11 5-21.

10. Kump B, Svetek S, Javornik B. Izolacija visokomolekularne DNK iz rastlinskih tkiv. Zbornik Biotehniške fakultete. Univerza v Ljubljani, Kmetijstvo, 1992;59:63-6.

11. Lee G P, Lee C H, Kim C H. Molecular markers derived from RAPD, SCAR, and the conserved 18SrDNA sequences for classification and identification in Pyrus pyrifolia and P. communis. Theoretical and Applied Genetics, 2004;108:1487-91.

12. Monte-Covro L, Cabrita L, Oliveira C, Leitao J. Assessment of genetic relationships among Pyrus species and cultivars using AFLP and RAPD markers. Gen. Res. Crop. Evol. 2000;47: 257-65.

13. Monte-Covro L, Goulao L, Oliveira C. Discrimination tof pear cultivars with RAPD, AFLPTM and ISSR. Acta Hort. 2002;596:187-91.

1 4. Pierantoni L, Cho K H, Shin I S, Chiodini R, Tartarini S, Dondini L, Kang S J, Sansavini S. Characterisation and transferability of apple SSRs to two European pear F1 populations. Theoretical and Applied Genetics 2004;109:1519-24.

15. Schiliro E, Predieri S, Bertaccini A. Use of random amplified polymorfic DNA analysis to detect genetic variation in Pyrus species. Plant Mol. Biol. Rep. 2001; 19:271 a-h.

16. Shenghua L, Chengquan F, Wenqin S, Feng Z. AFLP molecular markers of 10 species of Pyrus in China. Acta Hort. 2002;587:233-36.

17. Stark-Urnau M. RAPD marker bei Malus×domestica (Apfel) und Pyrus communis (Birne) als Mittel zur Sortenidentifizierung – Teil II: Pyrus communis (Birne). Erwerbsobstbau, 2002;44(6):167-71.

18. Tartarini S, Sansavini S. The use of molecular markers in pome fruit breeding. Acta Hort. 2003;622: 129-40.

19. Teng Y, Tanabe K, Tamura F, Itai A. Genetic relationshipsof Pyrus species and cultivars native to east Asis relevated by randomly amplified polymorphic DNA markers. J. Am. Soc. Hort. Sci. 2002;127 (2): 262-270.

20. Tessier C, David J, This P, Boursiquot J M, Charrier A. Optimization of the choice of molecular markers for varietal identification in Vitis vinifera L. Theoretical and Applied Genetics 1999;98:171-7.

21. Van Dyk M M, Koning G, Simayi Z, Booi S, Maharaj R, Selala M C, Rees D J G. Development of microsatellite markers for marker-assisted breeding in pears (Pyrus spp.). Acta Hort. 2005;671:307-13.

22. Vos P, Hogers R, Bleeker M, Reijans M, Van de Lee T, Hornes M, Frijters A, Plot J, Peleman J, Kuiper M, Zabeau M. AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res. 1995;23:4407-14.

23. Westwood M N. Pear germplasm of the new national clonal respository: Its evaluation and use. Acta hort. 1982;124: 57-66.

24. Yamamoto T, Kimura T, Sawamura Y, Kotobuki K, Ban Y, Hayashi T, Matsuta N. Characterisation and transrability of apple SSRs to two European pear F1 populations. Theoretical and Applied Genetics, 2001;102: 865-70.

25. Yamamoto T, Kimura T, Sawamura Y, Manabe T, Kotobuki K, Hayashi T, Ban Y, Matsuta N. Simple sequence repeats for genetic analysis in pear. Euphytica, 2002a;124:129-37.

26. Yamamoto T, Kimura T, Shoda M, Ban Y, Hayashi T, Matsuta N. Development of mirosatellite markers in the Japanese pear (Pyrus pyrifolia Nakai). Molecular ecology notes, 2002b;2(1):14-6.

logo dg open        cm stacked 064 plain