Assessment of genetic diversity in faba bean based on single nucleotide polymorphism

Diversity

Volumn 6, Issue 1, 2014, Pages 88-101

  Kaur, Sukhjiwan ^a   Cogan, Noel O I ^a   Forster, John W ^a,b   Paull, Jeffrey G ^c  

^a LA TROBE UNIVERSITY   (Australia)

^b LA TROBE UNIVERSITY   (Australia)

^c UNIVERSITY OF ADELAIDE   (Australia)

Author keywords

Genetic distance; Principal co ordinate analysis; SNP markers

Indexed keywords

GENETIC MARKER; GENETIC STRUCTURE; GENETIC VARIATION; GENOTYPE; GERMPLASM; HETEROZYGOSITY; LEGUME; PLANT BREEDING; POLYMORPHISM; POPULATION GENETICS;

EID: 84896994389     PISSN: None     EISSN: 14242818     Source Type: Journal    
DOI: 10.3390/d6010088     Document Type: Article

References (41)

1. FAOSTAT. Crops. Available online: http://faostat.fao.org/site/567/default.aspx#ancor/ (accessed on 17 January 2014).
2. Cubero, J. On the evolution of Vicia faba L. Theor. Appl. Genet. 1974, 45, 47-51.
3. Alghamdi, S.; Al-Faifi, S.A.; Migdadi, H.M.; Ammar, M.H.; Siddique, K.H.M. Inter-simple sequence repeat (ISSR)-based diversity assessment among faba bean genotypes. Crop Pasture Sci. 2013, 62, 755-760.
4. Ye, Y.; Lang, L.; Xia, M.; Tu, J. Faba beans in China (in Chinese); China Agriculture Press: Beijing, China, 2003; pp 1-15.
5. Raina, S.; Ogihara, Y. Ribosomal DNA repeat unit polymorphism in 49 Vicia species. Theor. Appl. Genet. 1995, 90, 477-486.
6. Bennett, M.; Smith, J.B. Nuclear DNA amounts in angiosperms. Proc. Royal Soc. B: Biol. Sci. 1982, 216, 179-199.
7. Johnston, J.; Bennett, M.D.; Rayburn, A.L.; Galbraith, D.W.; Price, H.J. Reference standards for determination of DNA content of plant nuclei. Am. J. Bot. 1999, 86, 609-613.
8. Duc, G.; Bao, S.Y.; Baum, M.; Redden, B.; Sadiki, M.; Suso, M.J.; Vishniakova, M.; Zong, X.X. Diversity maintenance and use of Vicia faba L. genetic resources. Field Crops Res. 2010, 115, 270-278.
9. Link, W.; Dixkens, C.; Singh, M.; Schwall, M.; Melchinger, A.E. Genetic diversity in European and Mediterranean faba bean germplasm revealed by RAPD markers. Theor. Appl. Genet. 1995, 90, 27-32.
10. Zeid, M.; Schon, C.C.; Link, W. Genetic diversity in recent elite faba bean lines using AFLP markers. Theor. Appl. Genet. 2003, 107, 1304-1314.
11. Upadhyaya, H.; Dwivedi, S.L.; Ambrose, M.; Ellis, N.; Berger, J.; Smykal, P.; Debouck, D.; Duc, G.; Dumet, D.; Flavell, A.; Sharma, S.K.; et al. Legume genetic resources: Management, diversity assessment, and utilization in crop improvement. Euphytica 2011, 180, 27-47.
12. Zeid, M.; Schon, C.C.; Link, W. Genetic diversity in a group of recent elite faba bean lines. Czech J. Genet. Plant Breed. 2001, 37, 34-40.
13. Kwon, S.; Hu, J.; Coyne, C.J. Genetic diversity and relationship among faba bean (Vicia faba L.) germplasm entries as revealed by TRAP markers. Plant Genet. Resour. Char. Util. 2010, 8, 204-213.
14. Wang, H.; Zong, X.; Guan, J.; Yang, T.; Sun, X.; Ma, Y.; Redden, R. Genetic diversity and relationship of global faba bean (Vicia faba L.) germplasm revealed by ISSR markers. Theor. Appl. Genet. 2012, 124, 789-797.
15. Kaur, S.; Pembleton, L.; Cogan, N.; Savin, K.; Leonforte, T.; Paull, J.; Materne, M.; Forster, J. Transcriptome sequencing of field pea and faba bean for discovery and validation of SSR genetic markers. BMC Genom. 2012, 13, 104.
16. Akash, M.; Myers, G.O. The development of faba bean expressed sequence tag-simple sequence repeats (ESTSSRs) and their validity in diversity analysis. Plant Breed. 2012, 131, 522-530.
17. Yang, T.; Bao, S.; Ford, R.; Jia, T.; Guan, J.; He, Y.; Sun, X.; Jiang, J.; Hao, J.; Zhang, X.; et al. High-throughput novel microsatellite marker of faba bean via next generation sequencing. BMC Genom. 2012, 13, 602.
18. Kaur, S.; Kimber, R.B.E.; Cogan, N.O.I.; Materne, M.; Forster, J.W.; Paull, J.G. SNP discovery and high-density genetic mapping in faba bean (Vicia faba L.) permits identification of QTLs for ascochyta blight resistance. Plant Sci. 2014, 217-218, 47-55.
19. Rohlf, F. NTSYS-pc Numerical Taxonomy and Multivariate Analysis System, version 2.1; Stony Brook: New York, NY, USA, 2000.
20. Liu, K.; Muse, S.V. PowerMarker: Integrated analysis environment for genetic marker data. Bioinformatics 2005, 21, 2128-2129.
21. Nei, M. Genetic distance between populations. Am. Nat. 1972, 106, 283-292.
22. Perrier, X.; Flori, A.; Bonnot, F. Data analysis methods. In Genetic Diversity of Cultivated Tropical Plants; Hamon, P., Seguin, M., Perrier, X., Glaszmann, J.C., Eds.; Enfield Science Publishers: Montpellier, France, 2003; pp. 43-76.
23. Peakell, R.; Smouse, P.E. GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research. Mol. Ecol. Notes 2006, 6, 288-295.
24. Cottage, A.; Gostkiewicz, K.; Thomas, J.E.; Borrows, R.; Torres, A.M.; O'Sullivan, D.M. Heterozygosity and diversity analysis using mapped SNPs in a faba bean inbreeding programme. Mol. Breed. 2012, 30, 1799-1809.
25. Emanuelli, F.; Lorenzi, S.; Grzeskowiak, L.; Catalano, V.; Stefanini, M.; Troggio, M.; Myles, S.; Martinez-Zapater, J.M.; Zyprian, E.; Moreira, F.M.; et al. Genetic diversity and population structure assessed by SSR and SNP markers in a large germplasm collection of grape. BMC Plant Biol. 2013, 13, 39.
26. Wurschum, T.; Langer, S.M.; Friedrich, C.; Longin, H.; Korzun, V.; Akhunov, E.; Ebmeyer, E.; Schachschneider, R.; Schacht, J.; Kazman, E.; et al. Population structure, genetic diversity and linkage disequilibrium in elite winter wheat assessed with SNP and SSR markers. Theor. Appl. Genet. 2013, 126, 1477-1486.
27. Zong, X.; Ren, J.; Guan, J.; Wang, S.; Liu, Q.; Paull, J.G.; Redden, R. Molecular variation among Chinese and global germplasm in spring faba bean areas. Plant Breeding 2010, 129, 508-513.
28. Ouji, A.; Suso, M.J.; Rouaissi, M.; Abdellaoui, R.; Gazzah, M.E. Genetic diversity of nine faba bean (Vicia faba L.) populations revealed by isozyme markers. Genes Genom. 2011, 33, 31-38.
29. Gnanasambandam, A.; Paull, J.; Torres, A.; Kaur, S.; Leonforte, T.; Li, H.; Zong, X.; Yang, T.; Materne, M. Impact of molecular technologies on faba bean (Vicia faba L.) breeding strategies. Agronomy 2012, 2, 132-166.
30. Piepho, H.; Laidig, F. A Review of Methods for Cluster Analysis of Marker Data; In proceedings of the UPOV-Working Group on Biochemical & Molecular Techniques & DNA-Profiling in Particular, Cambridge, UK, 11-13 March 1997.
31. Van Leur, J.A.G. New South Wales Department of Primary Industries, Tamworth, Australia, Personnal communication, 2013.
32. Hanounik, S.B.; Maliha, N. Horizontal and vertical resistance in Vicia faba to chocolate spot caused by Botrytis fabae. Plant Dis. 1986, 70, 770-773.
33. Hanounik, S.B.; Robertson, L.D. New sources of resistance in Vicia faba to chocolate spot caused by Botrytis fabae. Plant Dis. 1988, 72, 696-698.
34. Bond, D.A.; Jellis, G.J.; Rowland, G.G.; Le Guen, J.; Robertson, L.D.; Khalil, S.A.; Li-Juan, L. Present status and future strategy in breeding faba beans (Vicia faba L.) for resistance to biotic and abiotic stresses. Euphytica 1994, 73, 151-166.
35. Zong, X.; Liu, X.; Guan, J.; Wang, S.; Liu, Q.; Paull, J.G.; Redden, R. Molecular variation among Chinese and global winter faba bean germplasm. Theor. Appl. Genet. 2009, 118, 971-978.
36. Kimber, R.B.E.; Davidson, J.A.; Paull, J.G. Using Genetic Diversity within Faba Bean Germplasm to Develop Resistance to Ascochyta Blight. In Proceedings of the 1st International Ascochyta Workshop on Grain Legumes, Le Tronchet, France, 2006.
37. Knight, R. Ascot VF. Plant Var. J. 1997, 10, 33.
38. Paull, J. Farah. Plant Var. J. 2003, 16, 64.
39. Paull, J. PBA Kareema. Plant Var. J. 2010, 23, 51.
40. Van de Ven, M.; Powell, W.; Ramsay, G.; Waugh, R. Restriction fragment length polymorphisms as genetic markers in Vicia. Heredity 1990, 65, 329-342.
41. Glaszmann, J.; Kilian, B.; Upadhyaya, H.D.; Varshney, R.K. Accessing genetic diversity for crop improvement. Curr. Opin. Plant Biol. 2010, 13, 167-173.