Advertisement

Brazilian Journal of Botany

, Volume 42, Issue 1, pp 83–96 | Cite as

Genetic characterization of Allium stipitatum accessions: an economically wild edible Allium species with unique flavor

  • R. EbrahimiEmail author
  • M. R. Hassandokht
  • Z. Zamani
  • I. Roldan-Ruiz
  • H. Muylle
  • S. Van Glabeke
  • E. Van Bockstaele
  • A. Kashi
Original Article
  • 77 Downloads

Abstract

We evaluated the genetic diversity of Iranian Mooseer (Allium stipitatum Regel. syn. A. hirtifolium Boiss.) using morphological traits and AFLP markers and determined the phylogenetic relationships and the position of Iranian Mooseer among domesticated and wild edible alliums using internal transcribed spacer (ITS) sequence data. Four EcoRI and MseI AFLP primer combinations rendered produced 376 markers, 204 being polymorphic (53.28% polymorphism). AFLP data separated clearly the Kazeroun accession, originating from the warmer Southern region of Iran, from the other 20 accessions. According to the morphological evaluation data, Khansar, Kouhrang and Daran accessions showed the highest means for bulb weight. Cluster analysis based on morphological traits divided the Mooseer germplasms into three main groups. The ITS results indicated that Iranian Mooseer clustered with other A. stipitatum accessions, but with small differences. They were phylogenetically close to Iranian wild edible alliums and clearly differentiated from other domesticated alliums. Separation of three Iranian Mooseers from A. stipitatum samples originated from other countries in two distinct groups according to their ITS sequence shows that probably these two groups have divergent evolutionary paths.

Keywords

Mooseer Morphology AFLP ITS Phylogeny Germplasm 

Notes

Acknowledgements

Authors would like to thank University of Tehran and the Flanders Research Institute for Agriculture, Fisheries and Food (ILVO, Merelbeke, Belgium) for supporting this research.

Author contributions

R. Ebrahimi collected the samples. She also designed and performed the experiments and wrote the manuscript. M.R. Hassandokht and Z. Zamani supervised the project and verified the findings of this work. They also helped in interpretation of results. I. Roldan-Ruiz supervised the molecular analysis and helped in structuring the manuscript. H. Muylle contributed to molecular analysis, data analysis and interpretation of the results. S. Van Glabeke helped in technical work and data analysis. E. Van Bockstaele provided critical feedback and helped shape research, analysis and manuscript. A. Kashi helped in morphological analysis.

References

  1. Baldwin BG, Sanderson MJ, Wojciechowski JM, Campbell CS, Donoghue MJ (1995) The ITS region of nuclear ribosomal DNA: a valuable source of evidence on angiosperm phylogeny. Ann Missouri Bot Gard 82:247–277CrossRefGoogle Scholar
  2. Blattner FR (1999) Direct amplification of the entire ITS region from poorly preserved plant material using recombinant PCR. Bio Techniques 27:1180–1186Google Scholar
  3. Blattner FR (2004) Phylogenetic analysis of Hordeum (Poaceae) as inferred by nuclear rDNA ITS sequences. Mol Phylogenet Evol 33:289–299CrossRefGoogle Scholar
  4. Bryant D, Moulton V (2004) Neighbor-net: an agglomerative method for the construction of phylogenetic networks. Mol Biol Evol 21:255–265CrossRefGoogle Scholar
  5. Doyle JJ, Doyle GL (1990) Isolation of DNA from fresh plant tissue. Focus 12:13–15Google Scholar
  6. Dubouzet JG, Shinoda K (1998) Phylogeny of Allium L. subg. Melanocrommyum (Webb et Berth.) Rouy based on DNA sequence analysis of the internal transcribed spacer region of nrDNA. Theor Appl Genet 97:541–549CrossRefGoogle Scholar
  7. Dubouzet JG, Shinoda K (1999) A relationship among old and new world Alliums according to ITS DNA sequence analysis. Theor Appl Genet 98:422–433CrossRefGoogle Scholar
  8. Dubouzet JG, Shinoda K, Murata N (1997) Phylogeny of Allium L. subgenus Rhizirideum (G. Don ex Koch) Wendelbo according to dot blot hybridization with randomly amplified DNA probes. Theor Appl Genet 95:1223–1228CrossRefGoogle Scholar
  9. Ebrahimi R, Zamani Z, Kashi A, Jabbari A (2008) Comparison of fatty acids, mineral elements of 17 Iranian shallot landraces (Allium hirtifolium Boiss.). J Food Technol 5:61–68Google Scholar
  10. Ebrahimi R, Zamani Z, Kashi A (2009) Genetic diversity evaluation of wild Persian shallot (Allium hirtifolium Boiss.) using morphological and RAPD markers. Sci Hort 119:345–351CrossRefGoogle Scholar
  11. Ebrahimi R, Zamani Z, Hassandokht MR, Kashi A (2011) Persian shallot (Allium hirtifolium Boiss.): an endangered wild plant. In: Davis RE (ed) Wild plants: identification, uses and conservation. NOVA Press, New York, pp 289–304Google Scholar
  12. Friesen N, Fritsch RM, Blattner FR (2006) Phylogeny and new intrageneric classification of Allium (Alliaceae) based on nuclear ribosomal DNA ITS sequences. Aliso 22:372–395CrossRefGoogle Scholar
  13. Fritsch RM, Friesen N (2002) Evolution, domestication and taxonomy. In: Rabinowitch HD, Currah L (eds) Allium crop science: recent advances. CABI Publishing, Wallingford, pp 5–30CrossRefGoogle Scholar
  14. Fritsch RM, Abbasi M, Keusgen M (2006) Useful wild Allium species in Northern Iran. Rostaniha 7:189–206Google Scholar
  15. García-Lampasona S, Martinez L, Burba JL (2003) Genetic diversity among selected Argentinean garlic clones (Allium sativum L.) using AFLP (amplified fragment length polymorphisms). Euphytica 132:115–119CrossRefGoogle Scholar
  16. Gurushidze M, Mashayekhi S, Blattner FR, Friesen N, Fritsch RM (2007) Phylogenetic relationships of wild and cultivated species of Allium section Cepa inferred by nuclear rDNA ITS sequence analysis. Plant Syst Evol 269:259–269CrossRefGoogle Scholar
  17. Gurushidze M, Fritsch RM, Blattner FR (2008) Phylogenetic analysis of Allium subgen. Melanocrommyum infers cryptic species and demands a new sectional classification. Mol Phylogenet Evol 49:997–1007CrossRefGoogle Scholar
  18. Hanelt P (2001) Alliaceae. In: Hanelt P (ed) Mansfeld’s encyclopedia of agricultural and horticultural crops, vol 4, 3rd edn. Springer, Vienna, pp 2250–2269CrossRefGoogle Scholar
  19. Hanelt P, Schultze-Motel J, Fritsch R, Kruse J, Maab HI, Ohle H, Pistrick K (1992) Infrageneric grouping of Allium, the Gatersleben approach. In: Hanelt P, Hammer K, Knüpffer H (eds) The genus Allium taxonomic problems and genetic resources. Proceedings of an international symposium, Gatersleben, 11–13 June IPK, Gatersleben, Germany, pp 107–123Google Scholar
  20. Huson DH, Bryant D (2006) Application of phylogenetic networks in evolutionary studies. Mol Biol Evol 23:254–267CrossRefGoogle Scholar
  21. IBM Corp. Released 2010. IBM SPSS Statistics for Windows, Version 19.0. IBM Corp, ArmonkGoogle Scholar
  22. Ipek M, Ipek A, Simon PW (2008a) Genetic characterization of Allium tuncelianum: an endemic edible Allium species with garlic odor. Sci Hort. 115:409–415CrossRefGoogle Scholar
  23. Ipek M, Ipek A, Simon PW (2008b) Molecular characterization of Kastamonu garlic: an economically important garlic clone in Turkey. Sci Hort 115:203–208CrossRefGoogle Scholar
  24. Khezri S (2003) Encyclopedia of medicinal plants. Rostamkhani Publication, Tehran, p 568Google Scholar
  25. Li QQ, Zhou S, He XJ, Yu Y, Zhang YC, Wei XQ (2010) Phylogeny and biogeography of Allium (Amaryllidaceae: Allieae) based on nuclear ribosomal internal transcribed spacer and chloroplast rps16 sequences, focusing on the inclusion of species endemic to China. Ann Bot 106:709–733CrossRefGoogle Scholar
  26. Mantel NA (1967) The detection of disease clustering and a generalized approach. Cancer Res 27:209–227Google Scholar
  27. Mes THM, Friesen N, Fritsch RM, Klaas M, Bachmann K (1997) Criteria for sampling in Allium based on chloroplast DNA PCR-RFLPs. Syst Bot 22:701–712CrossRefGoogle Scholar
  28. Nguyen NH, Driscoll HE, Specht CD (2008) A molecular phylogeny of the wild onions (Allium; Alliaceae) with a focus on the western North American center of diversity. Mol Phylogenet Evol 47:1157–1172CrossRefGoogle Scholar
  29. Peakall R, Smouse PE (2006) GenAlEx v. 6.1: genetic analysis in Excel. Population genetic software for teaching and research. Mol Ecol Notes 6:288–295CrossRefGoogle Scholar
  30. StatSoft, Inc (2012) STATISTICA (data analysis software system), version 11. www.statsoft.com
  31. Van der Meer QP (1997) Old and new crops within edible Allium. Acta Hort 433:17–31CrossRefGoogle Scholar
  32. Volk GM, Henk AD, Richards ChM (2004) Genetic diversity among U.S. garlic clones as detected using AFLP methods. J Am Soc Hort Sci 129:559–569CrossRefGoogle Scholar
  33. Vos P, Hogers R, Bleeker M, Reijans M, Van de Lee T, Hornes M, Frijters A, Pot J, Peleman J, Kuiper M, Zabeau M (1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res 23:4407–4414CrossRefGoogle Scholar

Copyright information

© Botanical Society of Sao Paulo 2018

Authors and Affiliations

  1. 1.Department of Horticultural Science and Agronomy, Faculty of Agricultural and Food Sciences, Science and Research BranchIslamic Azad UniversityTehranIran
  2. 2.Department of Horticultural Sciences, Faculty of Agriculture and Natural ResourcesUniversity of TehranKarajIran
  3. 3.Plant Sciences UnitFlanders Research Institute for Agriculture, Fisheries and Food (ILVO)MelleBelgium
  4. 4.Department of Plant Production, Faculty of Bioscience EngineeringGhent UniversityGhentBelgium

Personalised recommendations