Patterns of Population Diversity in Lemon balm (Melissa officinalis L.) as Revealed by IRAP Markers

Document Type : Research Paper

Authors

1 Department of Plant Breeding & Biotechnology, Faculty of Agriculture, University of Tabriz, Tabriz, Iran.

2 Department of Plant Breeding and Biotechnology, Faculty of Agriculture, University of Tabriz, Tabriz, Iran

Abstract

Analysis of genetic diversity and population structure in medicinal plants is essential step in their conservation, utilization and breeding. In the present study, seven primers designed based on long terminal repeats (LTRs) of barley retrotransposons and their combinations were used to amplify DNA fragments from 12 Iranian ecotypes as well as two populations from Germany and Japan based on inter-retrotransposon amplified polymorphism (IRAP) technique. A set of eight most polymorphic primers out of 28 possible single and primer combinations yielded 456 reproducible informative data points, with 95% polymorphism.The mean of Nei’s genetic diversity index and Shannon diversity index were 0.10 and 0.16, respectively. Polymorphism information content (PIC) ranged from 0.22 to 0.32 with an average of 0.27 and marker index (MI) varied in the range of 10.10-29.30 with an average of 14.39. Analysis of molecular variance revealed higher within population molecular variation (76.30%) compared with among populations variation (23.70%). The highest and lowest genetic heterogeneity were observed in Hamedan-2 and Qazvin-1 populations, respectively. The studied genotypes were assigned into five groups based on IRAP data using NeighborJoining algorithm and p-distance evolutionary distance coefficient. Populations relationships were resolved using Neighbor-Joining algorithm and Nei’s genetic distance and the populations were grouped into three clusters. Our results suggest that retrotransposon based markers such as IRAP are efficient and reliable markers in determining level of genetic diversity and population structure in lemon balm.

Keywords

Article Title [Persian]

بررسی الگوی تنوع جمعیت در بادرنجبویه (Melissa officinalis L.) به کمک نشانگرهای IRAP

Authors [Persian]

  • سارا غفاریان 1
  • سید ابوالقاسم محمدی 2

References

Alavi-Kia SS, Mohammadi SA, Aharizad S and Moghaddam M, 2008. Analysis of genetic diversity and phylogenetic relationships in crocus genus of Iran using inter-retrotransposon amplified polymorphism. Biotechnolgy and Biotechnology Equipments 22: 795-800.
Albaladejo RG, Carrillo LF, Aparicio A, Fernández-Manjarrés JF and González-Varo JP, 2008. Population genetic structure in Myrtus communis L. in a chronically fragmented landscape in the Mediterranean: can gene flow counteract habitat perturbation? Plant Biology doi:10.1111/j.1438-8677.2008.00121.x.
Allahverdiyev A, Duran N, Ozguven M and Koltas S, 2004. Antiviral activity of the volatile oils of Melissa officinalisL. against Herpes simplex virus type-2. Phytomedicine 11: 657-661.
Allendorf FW and Luikart G, 2007. Conservation and the Genetics of Populations. Blackwell Publishing, Malden.
Antonius-Klemola K, Kalendar R and Schulman AH, 2006. TRIM retrotransposons occur in apple and are polymorphic between varieties but not sports. Theoretical and Applied Genetics 112: 999-1008.
Baumel A, Ainouche M, Kalendar R and Schulman AH, 2002. Retrotransposons and genomic stability in populations of the young allopolyploid species Spartina anglica C.E. Hubbard (Poaceae). Molecular Biology and Evolution 19: 1218-1227.
Boronnikova SV and Kalendar RN, 2010. Using IRAP markers for analysis of genetic variability in populations of resource and rare species of plants. Russian Journal of Genetics 46: 36-42.
Branco CJS, Vieira EA, Malone G, Kopp MM, Malone E, Bernardes A, Mistura CC, Carvalho FIF and Oliveira CA, 2007. IRAP and REMAP assessments of genetic similarity in rice. Journal of Applied Genetics 48: 107-113.
Canter PH, Thomas H and Ernst E, 2005. Bringing medicinal plant species into cultivation: opportunities and challenges for biotechnology. Trends in Biotechnology 23: 180-185.
Craker LE and Simon JE, 1992. Herbs, Spices, and Medicinal Plants: Recent Advances in Botany, Horticulture, and Pharmacology, Volume 2, Oryx Press, USA.
Dinesh R, Kiran AG and Thomas G, 2010. Population genetic structure and conservation priorities of Oryza rufipogonGriff. populations in Kerala, India. Current Science 98: 65-68.
Excoffier L, Smouse PE and Quattro JM, 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131: 479-491.
Farnsworth NR, 1990. The role of ethnopharmacology in drug development. Ciba Foundation Symposium 54: 2-11.
Guo D, Zhang H and Luo Z, 2006. Genetic relationships of Diospyros kaki Thunb. and related species revealed by IRAP and REMAP analysis. Plant Science 170: 528-533.
Habel JC, Rödder D, Schmitt T and Gabriel Néve G, 2011. Global warming will affect the genetic diversity and uniqueness of Lycaena helle populations. Global Change Biology 17: 194-205.
Iwamoto M, Nagashima H, Nagamine T, Higo T and Higo K, 1999. p-SINE-like intron of the CatA catalase homologs and phylogenetic relationships among AA-genome Oryza and related species. Theoretical and Applied Genetics 98: 853-861.
Joshi K, Chavan P, Warude D and Patwardhan B, 2004. Molecular markers in herbal drug technology. Current Science 87:159-165.
Kalendar R and Schulman AH, 2007. IRAP and REMAP for retrotransposon-based genotyping and fingerprinting. Nature Protocols 1: 2478-2484.
Kalendar R, Grob T, Regina M, Suoniemi A and Schulman A, 1999. IRAP and REMAP: two new retrotransposonbased DNA fingerprinting techniques. Theoretical and Applied Genetics 98: 704-711.
Kalendar R, Tanskanen J, Immonen S, Nevo E and Schulman AH, 2000. Genome evolution of wild barley (Hordeum spontaneum) by BARE-1 retrotransposon dynamic in response to sharp microclimatic divergence. Proceedings of the National Academy of Sciences Academic Science USA 97: 6603-6607.
Kennedy DO, Little W and Schley AB, 2004. Attenuation of laboratory-induced stress in humans after acute administration of Melissa officinalis (lemon balm). Journal of Pharmacology 56: 677-681.
Koocheki A, Nassiri Mahalati M, Nadjafi F and Ghorbani R, 2008. The status of medicinal and aromatic plant cultivation in Iran. Journal of Medicinal and Aromatic Plant Sciences 3: 105-110.
Kumar J and Gupta PK, 2008. Molecular approaches for improvement of medicinal and aromatic plants. Plant Biotechnology Report 2: 93-112.
Kumar S, Tamura K and Nei M, 2004. MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Briefings in Bioinformatics 5: 150-163.
Mariette S, Le Corre V, Austerlitz F and Kremer A, 2002. Sampling within the genome for measuring withinpopulation diversity: tradeoffs between markers. Molecular Ecology 11: 1145-1156.
Mondini L, Noorani A and Pagnotta MA, 2009. Assessing plant genetic diversity by molecular tools. Diversity 1: 19-35.
Nei M, 1978. Estimation of average heterozygosiy and genetic distance from a small number of individuals. Genetics 89: 583-590.
Peakall R and Smouse PE, 2006. GENALEX 6: genetic analysis in Excel: population genetic software for teaching and research. Molecular Ecology Notes 6: 288-295.
Peakall R. and Smouse PE, 2010. GENALEX 6.4: genetic analysis in Excel: population genetic software for teaching and research. Molecular Ecology Notes 6: 288-295.
Pearce SR, Knox M, Ellis THN, Flavell AJ and Kumar A, 2000. Pea Ty1-copia group retrotransposons: transpositional activity and use as markers to study genetic diversity in Pisum. Molecular and General Genetics 263: 898-907.
Principe PP, 1991. Valuing the biodiversity of medicinal plants. In Akerele O, Heywood V and Synge H (Eds). Conservation of Medicinal Plants. Pp 79-124. Cambridge University Press, Cambridge, UK.
Rahimmalek M, Sayed Tabatabaei BE, Arzani A and Etemadi N, 2009. Assessment of genetic diversity among and within Achillea species using amplified fragment length polymorphism (AFLP). Biochemical Systematics and Ecology 37: 354-361.
Roldán-Ruiz I, Calsyn E, Gilliland TJ, Coll R, van Eijk MJT and De Loose M, 2000. Estimating genetic conformity between related ryegrass (Lolium) varieties. 2. AFLP characterization. Molecular Breeding 6: 593-602.
Sari AO, 2002. Yield characteristics and essential oil composition of lemon balm (Melissa officinalis L.) grown in the Aegean region of Turkey. Turkish Journal of Agriculture and Forestry 26: 217-224.
Schulman AH, Flavell AJ and Ellis TH, 2004. The application of LTR retrotransposons as molecular markers in plants. Methods in Molecular Biology 260: 145-173.
Shasany AK, Darohar MP, Dhawan S, Gupta AK, Gupta S, Shukla AK, Patra NK and Khanuja SPS, 2005. Use of RAPD and AFLP markers to identify inter-and intraspecific hybrids of Mentha. Journal of Heredity 96: 542-549.
Simon JE, Chadwick AF and Craker LE, 1984. Herbs: An Indexed Bibliography, 1971-1980. The Scientific Literature on Selected Herbs, and Aromatic and Medicinal Plants of the Temperate Zone. Archon Books. Hamden, CT, USA, 770 pp.
Smýkal P, Bačová-Kerteszová N, Kalendar R, Corander J, Schulman AH and Pavelek M, 2011. Genetic diversity of cultivated flax (Linum usitatissimum L.) germplasm assessed by retrotransposon-based markers. Theoretical Applied Genetics DOI 10.1007/s00122-011-1539-2.
Smýkal P, Hýbl M, Corander J, Jarkovský J, Flavell AJ and Griga M, 2008. Genetic diversity and population structure of pea (Pisum sativum L.) varieties derived from combined retrotransposon, microsatellite and morphological marker analysis. Theoretical Applied Genetics 117: 413-424.
Tang SQ, Bin XY, Peng YT, Zhou JY, Wang L and Zhong Y, 2007. Assessment of genetic diversity in cultivars and wild accessions of luohanguo (Siraitia grosvenorii [swingle] A. M. Lu et Z. Y. Zhang), a species with edible and medicinal sweet fruits endemic to southern China, using RAPD and AFLP markers. Genetic Resources and Crop Evolution 54: 1053-1061.
Tatikonda L, Wani SP, Kannan S, Beerelli N, Sreedevi TK, Hoisington DA, Devi P and Varshney RK, 2009. AFLPbased molecular characterization of an elite germplasm collection of Jatropha curcas L., a biofuel plant. Plant Science 176: 505-513.
Teo CH, Tan SH, Othman YR and Schwarzacher T, 2002. The cloning of Ty1-copia-like retrotransposons from 10 varieties of banana (Musa sp.). Journal of Biochemistry, Molecular Biology and Biophysics 6: 193-201.
Vicient CM, Suoniemi A, Anamthawat-JÓ Nsson K, Tanskanen J, Beharav A, Nevo E and Schulman AH, 1999. Retrotransposon BARE-1 and its role in genome evolution in the genus Hordeum. Plant Cell 11: 1769-1784.
Patterns of Population Diversity in Lemon balm ……… 51
Vukich M, Schulman AH, Giordani T, Natali L, Kalendar R and Cavallini A, 2009. Genetic variability in sunflower (Helianthus annuus L.) and in the Helianthus genus as assessed by retrotransposon-based molecular markers. Theoretical and Applied Genetics 119: 1027-1038.
Xia T, Chen S, Chen S, Zhang D, Zhang D, Gao Q and Ge X, 2007. ISSR analysis of genetic diversity of the QinghaiTibet plateau endemic Rhodiola chrysanthemifolia (Crassulaceae). Biochemical Systematics and Ecology 35: 209-214.
Yamasaki K, Nakano M, Kawahata T, Mori H, Otake T, Ueba N, Oishi I, Inami R, Yamane M, Nakamura M, Murata H and Nakanishi T, 1998. Anti-HIV-1 activity of herbs in Labiatae. Biological and Pharmaceutical Bulletin 21: 829-833.
Zargari A, 1991. Medicinal Plants. Tehran University Publications, Tehran, Iran.
Journal of Plant Physiology and Breeding
Volume 1, Issue 2 - Serial Number 2
December 2011
Pages 39-51

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