Hostname: page-component-78c5997874-ndw9j Total loading time: 0 Render date: 2024-11-20T00:37:08.673Z Has data issue: false hasContentIssue false
  • English
  • Français

Genetic diversity in Vicia faba L. populations cultivated in Tunisia revealed by simple sequence repeat analysis

Published online by Cambridge University Press:  06 February 2014

Yassine Yahia ,
Hédia Hannachi ,
Antonio Jose Monforte ,
James Cockram ,
Mohamed Loumerem ,
Belkacem Zarouri  and
Ali Ferchichi
Yassine Yahia*
Affiliation:
Arid and Oases Cropping Laboratory, Arid Lands Institute (IRA), Médenine 4119, Tunisia
Hédia Hannachi
Affiliation:
Arid and Oases Cropping Laboratory, Arid Lands Institute (IRA), Médenine 4119, Tunisia
Antonio Jose Monforte
Affiliation:
Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universidad Politécnica de Valencia (UPV)-Consejo Superior de Investigaciones Científicas (CSIC), Ciudad Politécnica de la Innovación (CPI), Ed. 8E, Ingeniero Fausto Elio s/n, 46022Valencia, Spain
James Cockram
Affiliation:
National Institute of Agricultural Botany (NIAB), Huntington Road, CambridgeCB3 0LE, UK
Mohamed Loumerem
Affiliation:
Arid and Oases Cropping Laboratory, Arid Lands Institute (IRA), Médenine 4119, Tunisia
Belkacem Zarouri
Affiliation:
Departamento de Investigación Agroalimentaria, Instituto Madrileño de Investigación y Desarrollo, IMIDRA, Madrid, Spain
Ali Ferchichi
Affiliation:
Arid and Oases Cropping Laboratory, Arid Lands Institute (IRA), Médenine 4119, Tunisia
*
* Corresponding author. E-mail: [email protected]
Get access Rights & Permissions [Opens in a new window]

Abstract

Faba bean (Vicia faba L.) is one of the most important legumes in the world. Little is known about the genetic resources of faba bean in Southern Tunisia. In the present study, genetic diversity within Tunisian faba bean germplasms was investigated using 16 simple sequence repeat markers. In total, 50 alleles were detected. The number of alleles per marker ranged from 2 to 6, with an average of 3. Genetic diversity and polymorphism information content values averaged, respectively, 0.43 (range 0.34–0.51) and 0.36 (range 0.28–0.43). The mean heterozygosity value was 0.27. A model-based structure analysis based on neighbour-joining tree and factorial correspondence analysis revealed the presence of two subpopulations, consistent with the clustering based on genetic distance (GD). The overall Fis value was 0.36, indicating the importance of selfing in these populations. Analysis of molecular variance revealed that the within-population genetic variance component was much higher than the between-population or between-subpopulation variance component. The genetic relationships based on Nei's GD revealed that AGD (Aguadulce) and SAG (Super Aguadulce) and TF1 and TF2 (Tafartassa-Gafsa) were the most closely related populations. Assessment of genetic variation within faba bean populations will be informative for the conservation of germplasms and the implementation of effective breeding programmes in Tunisia.

Keywords

genetic diversityplant genetic resource conservationpopulation structuresimple sequence repeats (SSRs)Vicia faba L.
Type
Research Article
Information
Plant Genetic Resources , Volume 12 , Issue 3 , December 2014 , pp. 278 - 285
Copyright
Copyright © NIAB 2014 

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

Alvarez, MT, Sáenz de Miera, LE and Pérez de la Vega, M (1998) Genetic variation in common and runner bean of the Northern Meseta in Spain. Genetic Resources and Crop Evolution 45: 243–251.CrossRefGoogle Scholar
Bebeli, PJ and Kaltsikes, PJ (1993) New developments in varietal identification. In: van Gastel, AJG, Pagnotta, MA and Porceddu, E (eds) Seed Science and Technology. Aleppo: ICARDA, pp. 161–172.Google Scholar
Belaid, Y, Chtourou- Chorbel, N, Marrakchi, M and Trifi-Farah, N (2006) Genetic diversity within and between populations of Lathyrus genus (Fabaceae) revealed by ISSR markers. Genetic Resources and Crop Evolution 53: 1413–1418.CrossRefGoogle Scholar
Chaieb, N, Louis González, J, Lopez-Mesas, M, Bouslama, M and Valiente, M (2011) Polyphenol content and antioxidant capacity of thirteen faba bean (Vicia faba L.) genotypes cultivated in Tunisia. Food Research International 44: 970–977.Google Scholar
Cipriani, G, Marazzo, MT, Marconi, R and Cimato, A (2002) Microsatellite markers isolated in olive (Olea europaea L.) are suitable for individual fingerprinting and reveal polymorphism within ancient cultivars. Theoretical and Applied Genetics 104: 223–228.Google Scholar
Curley, J and Jung, G (2004) RAPD-based genetic relationships in Kentucky bluegrass: comparison of cultivars, interspecific hybrids, and plant introductions. Crop Science 44: 1299–1306.CrossRefGoogle Scholar
Duc, G (1997) Faba bean (Vicia faba L.). Field Crops Research 53: 99–109.Google Scholar
Engels, JMM, Ramanatha, RV, Brown, AHD and Jackson, MT (2002) Managing Plant Genetic Diversity. Rome: IPGRI.Google Scholar
Fatokun, CA, Menancio-Hautea, DI, Danesh, D and Young, ND (1992) Evidence for orthologous seed weight genes in cowpea and mung bean based on RFLP mapping. Genetics 132: 841–846.CrossRefGoogle ScholarPubMed
Gabriella, S, Angel a, RP and Domenico, P (1996) Distribution of allozyme variation in Vicia benghalensis (Leguminosae). Plant Systematics and Evolution 207: 99–110.Google Scholar
Gong, Y, Xu, S, Mao, W, Li, Z, Hu, Q, Zhang, G and Ding, J (2011) Genetic diversity analysis of faba bean (Vicia faba L.) based on EST-SSR markers. Journal of Integrative Agriculture 10: 838–844.Google Scholar
Gresta, F, Albertini, E, Raggi, L and Abbate, V (2009) A study of variability in the Sicilian faba bean landrace ‘Larga di Leonforte’. Genetic Resources and Crop Evolution 57: 523–531.Google Scholar
Hallauer, AR and Miranda, JB (1988) Quantitative Genetics in Maize Breeding. 2nd edn. Ames, IA: Iowa State Univers ity Press.Google Scholar
Hamrick, JL and Godt, MJW (1990) Allozyme diversity in plant species. In: Brown, AHD, Clegg, MT, Kahler, AL and Weir, BS (eds) Plant Population Genetics, Breeding and Genetic Resources. Sunderland, MA: Sinauer Associates, pp. 145–162.Google Scholar
Jin, Y, He, TH and Lu, BR (2006) Genetic spatial clustering: significant implications for conservation of wild soybean (Glycine soja: Fabaceae). Genetica 128: 41–49.Google Scholar
Johnson, WC, Menendez, C, Nodari, R, Koinange, EMK, Magnusson, S, Singh, SP and Gepts, P (1996) Association of a seed weight factor with the phaseolin seed storage protein locus across genotypes, environments and genomes in Phaseolus–Vigna spp.: Sax (1923) revisited. Journal of Agricultural Genomics 2: Article 5, .Google Scholar
Karanja, J, Amugune, NO, Ininda, J, Kimatu, JN and Danson, JW (2009) Microsatellite analysis of the correlation between molecular and morphological traits in assorted maize inbred lines. African Crop Science Journal 17: 133–144.Google Scholar
Kaur, S, Pembleton, LW, Cogan, NO, Savin, KW, Leonforte, T, Paull, J, Materne, M and Forster, JW (2012) Transcriptome sequencing of field pea and faba bean for discovery and validation of SSR genetic markers. BMC Genomics 13: 104–115.Google Scholar
Khaldi, S and Zekri, S (2002) Production and Marketing of Legumes in Tunisia. In French. L'étude des légumineuses alimentaires dans les systèmes de production du Nord de la Tunisie. Ministry of Agriculture, Tunis, Tunisia, p. 92.Google Scholar
Kumar, S, Nei, M, Dudley, J and Tamura, K (2008) MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences. Briefings in Bioinformatics 9: 299–306.Google Scholar
Lawes, DA, Bond, DA and Poulsen, MH (1983) Classification, origin, breeding methods and objectives. In: Hebblethwaite, PD (ed.) The faba bean (Vicia faba L.), a basis for improvement. Butterworths, London, UK, pp. 23–76.Google Scholar
Link, W, Dixkens, C, Singh, M, Schwall, M and Melchinger, AE (1995) Genetic diversity in European and Mediterranean faba bean germplasm revealed by RAPD markers. Theoretical Applied Genetics 90: 27–32.Google Scholar
Link, W, Schill, B, Barbera, AC, Cubero, JI, Filippetti, A, Stringi, L, von Kittlitz, E and Melchinger, AE (1996) Comparison of intra- and inter-pool crosses in faba beans (Vicia faba L.). I. Hybrid performance and heterosis in Mediterranean and German environments. Plant Breeding 115: 352–360.Google Scholar
Liu, K and Muse, SV (2005) Power Marker: an integrated analysis environment for genetic marker analysis. Bioinformatics 21: 2128–2129.Google Scholar
Lopes, MS, Mendoca, D, Sefc, KM, Sabino Gil, F and Da Camara Machado, A (2004) Genetic evidence of intra-cultivar variability within Iberian olive cultivars. HortScience 39: 1562–1565.Google Scholar
Ma, Y, Bao, S, Yang, T, Hu, J, Quan, J, He, Y, Wang, X, Wan, Y, Sun, X, Jiang, J, Gong, C and Zong, X (2013) Genetic linkage map of Chinese native variety faba bean (Vicia faba L.) based on simple sequence repeat markers. Plant Breeding 132: 397–400.Google Scholar
Mantzavinou, A, Bebeli, PJ and Kaltsikes, PJ (2005) Estimating genetic diversity in Greek durum wheat landraces with RAPD markers. Australian Journal Agricultural Research 56: 1355–1364.Google Scholar
Metayer, N (2004) Vicia faba L. breeding for sustainable agriculture in Europe-Identification of regional priorities and definition of target genotypes. GIE Feverole, Paris, France, p17.Google Scholar
Mohammadi, SA and Prasanna, BM (2003) Analysis of genetic diversity in crop plants: salient statistical tools and considerations. Crop Science 43: 1235–1248.Google Scholar
Nei, M (1983) Genetic polymorphism and the role of mutation in evolution. In: Nei, M and Koehn, R (eds) Evolution of Genes and Proteins. Sunderland, MA: Sinauer Associates, pp. 165–190.Google Scholar
Ouji, A, Suso, MJ, Rouaissi, M, Abdellaoui, R and El Gazzah, M (2011 a) Genetic diversity of nine faba bean (Vicia faba L.) populations revealed by isozyme markers. Genes and Genomics 33: 31–38.Google Scholar
Ouji, A, Rouaissi, M, Abdellaoui, R and El Gazzah, M (2011 b) The use of reproductive vigor descriptors in studying genetic variability in nine Tunisian faba bean (Vicia faba L.) populations. African Journal of Biotechnology 10: 896–904.Google Scholar
Powell, W, Machray, GC and Provan, J (1996) Polymorphism revealed by simple sequence repeats. Trends in Plant Science 1: 215–222.Google Scholar
Pradhan, A, Plummer, JA and Yan, G (2004) Comparison of morphological and molecular variation in seeds and seedlings of radish cultivars. Acta Horticulturae 637: 263–270.Google Scholar
Ramakrishnan, AP, Meyer, SE, Waters, J, Stevens, MR, Coleman, CE and Fairbanks, DJ (2004) Correlation between molecular markers and adaptively significant genetic variation in Bromus tectorum (Poaceae), an inbreeding annual grass. American Journal of Botany 1: 797–803.Google Scholar
Rohlf, FJ (1997) NTSYS-pc 2.1. Numerical Taxonomy and Multivariate Analysis System. Setauket, NY: Exeter Software.Google Scholar
Sheng, Y, Zheng, W, Pei, K and Ma, K (2005) Genetic variation within and among populations of a dominant desert tree Haloxylon ammodendron (Amaranthaceae) in China. Annals of Botany 96: 245–252.Google Scholar
Sonnante, G, Piergiovanni, AR and Pignone, D (1997) Distribution of allozyme variation in Vicia benghalensis (Leguminosae) suggests the existence of two genepools. Plant Systematics and Evolution 207: 99–110.CrossRefGoogle Scholar
Sreelakshmi, Y, Gupta, S, Bodanapu, R, Chauhan, VS, Hanjabam, M, Thomas, S, Mohan, V, Sharma, S, Srinivasan, R and Sharma, R (2010) NEATTILL: a simplified procedure for nucleic acid extraction from arrayed tissue for TILLING and other high-throughput reverse genetic applications. Plant Methods 6: 3. DOI: 10.1186/1746-4811-6-3.CrossRefGoogle ScholarPubMed
Schuelke, M (2000) An economic method for the fluorescent labelling of PCR fragments. Nature Biotechnology 18: 233–234.Google Scholar
Terzopoulos, PJ and Bebeli, PJ (2008) Genetic diversity of Mediterranean faba bean (Vicia faba L.) with ISSR markers. Field Crops Research 108: 39–44.Google Scholar
Terzopoulos, PJ, Kaltsikes, PJ and Bebeli, PJ (2003) Collection, evaluation and classification of Greek populations of faba bean (Vicia faba L.). Genetic Resources and Crop Evolution 50: 373–381.Google Scholar
Terzopoulos, PJ, Kaltsikes, PJ and Bebeli, PJ (2008) Determining the sources of heterogeneity in Greek faba bean local populations. Field Crops Research 105: 124–130.Google Scholar
Wang, HF, Zong, XX, Guan, JJ, Yang, T, Sun, XL, Ma, Y and Redden, R (2012) Genetic diversity and relationship of global faba bean (Vicia faba L.) germplasm revealed by ISSR markers. Theoretical Applied Genetics 124: 789–797.Google Scholar
Yahia, Y, Guetat, A, Elfalleh, W, Ferchichi, A, Yahia, H and Loumerem, M (2012) Analysis of agromorphological diversity of southern Tunisia faba bean (Vicia faba L.) germplasm. African Journal of Biotechnology 11: 11913–11924.Google Scholar
Yang, T, Bao, S, Ford, R, Jia, T, Guan, J, He, Y, Sun, X, Jiang, J, Hao, J, Zhang, X and Zong, X (2013) High-throughput novel microsatellite marker of faba bean via next generation sequencing. Molecules 18: 1844–1856.Google Scholar
Zeid, M, Schon, CC and Link, W (2003) Genetic diversity in recent elite faba bean lines using AFLP markers. Theoretical Applied Genetics 107: 1304–1314.Google Scholar
Zeid, M, Mitchell, S, Link, W, Carter, M, Nawar, A, Fulton, T and Kresovich, S (2009) Simple sequence repeats (SSRs) in faba bean: new loci from Orobanche-resistant cultivar ‘Giza 402’. Plant Breeding 128: 149–155.Google Scholar
Zong, X, Ren, J, Guan, J, Wang, S, Liu, Q, Paull, JG and Redden, R (2010) Molecular variation among Chinese and global germplasm in spring faba bean areas. Plant Breeding 129: 508–513.Google Scholar
Supplementary material: File

Yahia Supplementary Material

Table S1

Download Yahia Supplementary Material(File)
File 67.6 KB