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Physiology and Molecular Biology of Plants

, Volume 25, Issue 4, pp 965–974 | Cite as

Characterization of genetic diversity and population structure of Moroccan lentil cultivars and landraces using molecular markers

  • Joseph Mbasani-Mansi
  • Mounia Ennami
  • Fatima Zahra Briache
  • Fatima Gaboun
  • Nadia Benbrahim
  • Zine El Abidine Triqui
  • Rachid MentagEmail author
Research Article
  • 494 Downloads

Abstract

Knowledge of genetic diversity and population structure is a crucial step for an efficient use of available material in a plant breeding program and for germplasm conservation strategies. Current study undertakes an assessment of the genetic variations and population structure of Moroccan lentil including nine landraces and eight released varieties using sequence-related amplified polymorphism (SRAP) and random amplified polymorphism DNA (RAPD) markers. Results revealed that the two markers used have a good efficiency to assess genetic diversity in lentil. A total of 115 and 90 bands were respectively scored for SRAP and RAPD, of which 98.3% and 93.3% were polymorphic. The polymorphic information content values were 0.350 with SRAP and 0.326 with RAPD. Analysis of molecular variance based on the combined data sets of both markers revealed lower variations within (35%) than among (65%) landraces (PhiPT = 0.652), implying significant genetic differentiation between landraces. Principal coordinate analysis and the ascendant hierarchical classification clustered samples into groups that were consistent with the geographical origin of the cultivars. Population structure corroborated the main groups and confirmed the high differentiation among them. Moroccan lentil germplasm showed a wide genetic diversity that might be conserved and assessed for tolerance to biotic and abiotic stresses.

Keywords

Genetic diversity Lens culinaris Medik. Morocco RAPD SRAP Population structure 

Notes

Acknowledgments

This research was supported by National Institute of Agricultural Research (INRA-Morocco) and Ministry of Higher Education, Scientific Research and Professional Training of Morocco (MESRSFC) through funding of MEDILEG Project within the European Union 7th Framework program for research, technological development and demonstration (ERA-Net Project, ARIMNet).

Compliance with ethical standards

Conflicts of interest

The authors declare no conflicts of interest.

Supplementary material

12298_2019_673_MOESM1_ESM.docx (18 kb)
Supplementary material 1 (DOCX 17 kb)
12298_2019_673_MOESM2_ESM.docx (43 kb)
Supplementary material 2 (DOCX 43 kb)

References

  1. Abd El Moneim AM, Ryan J (2004) Forage legumes for dryland agriculture in Central and West Asia and North Africa. In: Rao, Ryan J (eds) Challenges and strategies of dryland agriculture, crop science. Society of America and American Society of Agronomy, Madison, pp 243–256Google Scholar
  2. Abo-elwafa A, Murai K, Shimada T (1995) Intra- and inter-specific variations in Lens revealed by RAPD markers. Theor Appl Genet 90:335–340CrossRefPubMedGoogle Scholar
  3. Ahmad M, McNeil DL (1996) Comparison of crossability, RAPD, SDS-PAGE and morphological markers for revealing genetic relationships within and among Lens species. Theor Appl Genet 93:788–793CrossRefPubMedGoogle Scholar
  4. Alghamdi SS, Khan AM, Ammar MH, El-Harty EH, Migdadi HM, El-Khalik SM, Al-Shameri AM, Javed MM, Al-Faifi SA (2014) Phenological, nutritional and molecular diversity assessment among 35 introduced lentil (Lens culinaris Medik.) genotypes grown in Saudi Arabia. Int J Mol Sci 15:277–295CrossRefGoogle Scholar
  5. Arber W, Illmensee K, Peacock WJ, Starlinger P (1984) Genetic manipulation: impact on man and society. Cambridge University Press, CambridgeGoogle Scholar
  6. Arumuganathan K, Earle ED (1991) Nuclear DNA content of some important plant species. Plant Mol Biol Rep 9:208–218CrossRefGoogle Scholar
  7. Benbrahim N, Taghouti M, Zouahri A, Gaboun F (2017) On-farm conservation of Zaer lentil landrace in context of climate change and improved varieties competition. Univ J Agric Res 5:27–38Google Scholar
  8. Bermejo C, Gatti I, Caballero N, Cravero V, Martin E, Cointry E (2014) Study of diversity in a set of lentil RILs using morphological and molecular markers. Aust J Crop Sci 8:689–696Google Scholar
  9. Boye J, Zare F, Pletch A (2010) Pulse proteins: processing, characterization, functional properties and applications in food and feed. Food Res Int 43:414–431CrossRefGoogle Scholar
  10. Cubero JI, Pérez de la Vega M, Fratini R (2009) Origin, phylogeny, domestication and spread. In: Erskine W, Muehlbauer FJ, Sarker A, Sharma B (eds) The lentil: botany, production and uses. CAB International, Wallingford, pp 13–33CrossRefGoogle Scholar
  11. Devendra C (1997) Crop residues for feeding animals in Asia: technology development and adoption in crop/livestock systems. CAB International, WallingfordGoogle Scholar
  12. Erskine W, Muehlbauer FJ (1991) Allozyme and morphological variability, outcrossing rate and core collection formation in lentil germplasm. Theor Appl Genet 83:119–125CrossRefPubMedGoogle Scholar
  13. Erskine W, Rihawi S, Capper BS (1990) Variation in lentil straw quality. Anim Feed Sci Technol 28:61–69CrossRefGoogle Scholar
  14. Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software structure: a simulation study. Mol Ecol 14:2611–2620CrossRefPubMedGoogle Scholar
  15. Idrissi O, Udupa SM, Houasli C, De Keyser E, Van Damme P, De Riek J (2015) Genetic diversity analysis of Moroccan lentil (Lens culinaris Medik.) landraces using Simple Sequence Repeat and amplified fragment length polymorphisms reveals functional adaptation towards agro-environmental origins. Plant Breed 134:322–332CrossRefGoogle Scholar
  16. Idrissi O, Udupa MS, De Keyser E, Van Damme P, De Riek J (2016) Functional genetic diversity analysis and identification of associated simple sequence repeats and amplified fragment length polymorphism markers to drought tolerance in lentil (Lens culinaris ssp. culinaris Medicus) landraces. Plant Mol Biol Rep 34:659–680CrossRefGoogle Scholar
  17. Joshi M, Aldred P, McKnight S, Panozzo JF, Kasapis S, Adhikari R, Adhikari B (2013) Physicochemical and functional characteristics of lentil starch. Carbohydr Polym 92:1484–1496CrossRefPubMedGoogle Scholar
  18. Keify F, Beiki AH (2012) Exploitation of random amplified polymorphic DNA (RAPD) and sequence-related amplified polymorphism (SRAP) markers for genetic diversity of saffron collection. J Med Plants Res 6:2761–2768Google Scholar
  19. Khazaei H, Street K, Bari A, Mackay M, Stoddard FL (2013) The FIGS (Focused Identification of Germplasm Strategy) approach identifies traits related to drought adaptation in Vicia faba genetic resources. PLoS ONE 8:e63107CrossRefPubMedPubMedCentralGoogle Scholar
  20. Khazaei H, Caron CT, Fedoruk M, Diapari M, Vandenberg A, Coyne CJ, McGee R, Bett KE (2016) Genetic diversity of cultivated lentil (Lens culinaris Medik.) and its relation to the world’s agro-ecological zones. Front Plant Sci 7:1093CrossRefPubMedPubMedCentralGoogle Scholar
  21. Kumar J, Gupta S, Dubey S, Gupta P, Gupta DS, Singh NP (2018) Genetic diversity changes in Indian lentils over the times. J Plant Biochem Biotechnol 27:415–424CrossRefGoogle Scholar
  22. Ladizinsky G (1979) Species relationships in the genus Lens as indicated by seed-protein electrophoresis. Bot Gaz 140:449–451CrossRefGoogle Scholar
  23. Lardy G, Anderson V (2009) Alternative feeds for ruminants. NDSU, FargoGoogle Scholar
  24. Lassner MW, Peterson P, Yoder JI (1989) Simultaneous amplification of multiple DNA fragments by polymerase chain reaction in the analysis of transgenic plants and their progeny. Plant Mol Biol Rep 7:116–128CrossRefGoogle Scholar
  25. Li G, Quiros CF (2001) Sequence-related amplified polymorphism (SRAP), a new marker system based on a simple PCR reaction: its application to mapping and gene tagging in Brassica. Theor Appl Genet 103:455–461CrossRefGoogle Scholar
  26. Lombardi M, Materne M, Cogan NO, Rodda M, Daetwyler HD, Slater AT, Forster JW, Kaur S (2014) Assessment of genetic variation within a global collection of lentil (Lens culinaris Medik) cultivars and landraces using SNP markers. BMC Genet 15:150CrossRefPubMedPubMedCentralGoogle Scholar
  27. Marić S, Bolarić S, Martinčić J, Pejić I, Kozumplik V (2004) Genetic diversity of hexaploid wheat cultivars estimated by RAPD markers, morphological traits and coefficients of parentage. Plant Breed 123:366–369CrossRefGoogle Scholar
  28. Mbasani-Mansi J, Briache FZ, Ennami M, Gaboun F, Benbrahim N, Triqui ZEA, Mentag R (2019) Resistance of Moroccan lentil genotypes to Orobanche crenata infestation. J Crop Improv 33(3):306–326CrossRefGoogle Scholar
  29. Migliozzi M, Thavarajah D, Thavarajah P, Smith P (2015) Lentil and kale: complementary nutrient-rich whole food sources to combat micronutrient and calorie malnutrition. Nutrients 7:9285–9298CrossRefPubMedPubMedCentralGoogle Scholar
  30. Peakall ROD, Smouse PE (2006) GenAlEx 6: genetic analysis in excel. Population genetic software for teaching and research. Mol Ecol Notes 6:288–295CrossRefGoogle Scholar
  31. Pinkas R, Zamir D, Ladizinsky G (1985) Allozyme divergence and evolution in the genus Lens. Plant Syst Evol 151:131–140CrossRefGoogle Scholar
  32. Prakesh V, Tandon J, Prasad K (1986) Studies on intercropping rainfed wheat. Ann Agric Sci 7:258–262Google Scholar
  33. Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155:945–959PubMedPubMedCentralGoogle Scholar
  34. Rana MK, Kumari R, Singh S, Bhat KV (2013) Genetic analysis of indian lentil (Lens culinaris Medikus) cultivars and landraces using RAPD and STMS markers. J Plant Biochem Biotechnol 16:53–57CrossRefGoogle Scholar
  35. Roldán-Ruiz I, Dendauw J, Van Bockstaele E, Depicker A, De Loose M (2000) AFLP markers reveal high polymorphic rates in ryegrasses (Lolium spp.). Mol Breed 6(2):125–134CrossRefGoogle Scholar
  36. Sexton JP, Hangartner SB, Hoffmann AA (2014) Genetic isolation by environment or distance: Which pattern of gene flow is most common? Evolution 68:1–15CrossRefPubMedGoogle Scholar
  37. Seyedimoradi H, Talebi R (2014) Detecting DNA polymorphism and genetic diversity in lentil (Lens culinaris Medik.) germplasm: comparison of ISSR and DAMD marker. Physiol Mol Biol Plants 20:495–500CrossRefPubMedPubMedCentralGoogle Scholar
  38. Shah Z, Shah SH, Peoples MB, Schwenke GD, Herridge DF (2003) Crop residue and fertiliser N effects on nitrogen fixation and yields of legume—cereal rotations and soil organic fertility. Front Plant Sci 83:1–11Google Scholar
  39. Solanki IS, Kapoor AC, Singh U (1999) Nutritional parameters and yield evaluation of newly developed genotypes of lentil (Lens culinaris Medik.). Plant Foods Hum Nutr 54:79–87CrossRefPubMedGoogle Scholar
  40. Sonnante G, Pignone D (2001) Assessment of genetic variation in a collection of lentil using molecular tools. Euphytica 120:301–307CrossRefGoogle Scholar
  41. Sonnante G, Pignone D (2007) The major Italian landraces of lentil (Lens culinaris Medik.): their molecular diversity and possible origin. Genet Resour Crop Evol 54:1023–1031CrossRefGoogle Scholar
  42. Tewari K, Dikshit HK, Jain N, Kumari J, Singh D (2012) Genetic differentiation of wild and cultivated Lens based on molecular markers. J Plant Biochem Biotechnol 21:198–204CrossRefGoogle Scholar
  43. Toklu F, Karaköy T, Haklı E, Bicer T, Brandolini A, Kilian B, ÖZkan H (2009) Genetic variation among lentil (Lens culinaris Medik) landraces from Southeast Turkey. Plant Breed 128:178–186CrossRefGoogle Scholar
  44. Torricelli R, Silveri DD, Ferradini N, Venora G, Veronesi F, Russi L (2012) Characterization of the lentil landrace Santo Stefano di Sessanio from Abruzzo, Italy. Genet Resour Crop Evol 59:261–276CrossRefGoogle Scholar
  45. Williams JG, Kubelik AR, Livak KJ, Rafalski JA, Tingey SV (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res 18:6531–6535CrossRefPubMedPubMedCentralGoogle Scholar
  46. XLSTAT (2017) Data analysis and statistical solution for microsoft excel. Addinsoft, ParisGoogle Scholar
  47. Yin Y, Liu Y, Li H, Zhao S, Wang S, Liu Y, Wu D, Xu F (2014) Genetic diversity of Pleurotus pulmonarius revealed by RAPD, ISSR, and SRAP fingerprinting. Curr Microbiol 68:397–403CrossRefPubMedGoogle Scholar
  48. Yüzbaşıoğlu E, Özcan S, Açık L (2006) Analysis of genetic relationships among Turkish cultivars and breeding lines of Lens culinatis Medik. using RAPD markers. Genet Resour Crop Evol 53:507–514CrossRefGoogle Scholar
  49. Zaccardelli M, Lupo F, Piergiovanni AR, Laghetti G, Sonnante G, Daminati MG, Sparvoli F, Lioi L (2012) Characterization of Italian lentil (Lens culinaris Medik.) germplasm by agronomic traits, biochemical and molecular markers. Genet Resour Crop Ev 59:727–738CrossRefGoogle Scholar

Copyright information

© Prof. H.S. Srivastava Foundation for Science and Society 2019

Authors and Affiliations

  1. 1.Biotechnology Research UnitNational Institute of Agricultural ResearchRabatMorocco
  2. 2.Plant Breeding, Conservation and Valorization of Phyto-Genetic Resources Research UnitNational Institute of Agricultural ResearchRabatMorocco
  3. 3.Department of Biology, Faculty of Sciences, Plant and Microbial Biotechnology, Biodiversity and Environment Research CenterMohammed V UniversityRabatMorocco

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