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Assessment of genetic variation and identification of species-specific ISSR markers in five species of Cymbidium (Orchidaceae)

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Abstract

Thirty-five inter-simple sequence repeat (ISSR) markers were used to analyze the genetic variation in Cymbidium spp. High number of polymorphic bands (217) with overall 90 % of polymorphism at inter-specific level was observed. Cumulative genetic similarity ranged from 0.40–0.93 with an average value of 66 % among the species. At intra-specific level, average polymorphism detected, ranged from 29.8 to 69.9 % within the five species of Cymbidium. All the species were apparently endowed with low genetic variation at intra-specific level compared to inter-specific level. UPGMA clustering evidently distinguished the representatives of C. aloifolium and C. tigrinum which may be linked to entirely different climatic conditions in which they grow, besides their discrete morphological characteristics. Nine ISSR primers revealed 11 unique species-specific banding patterns belonging to three Cymbidiums, which can further developed as SCAR markers. Thus, present investigation provides valuable baseline data of genetic variation in five species of Cymbidium and addresses the conservation concerns of this horticulturally important orchid.

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Fig. 1

Abbreviations

ISSR:

Inter Simple Sequence Repeat

PCR:

Polymerase Chain Reaction

Kb:

Kilobase(s) or 1000 bp

SPAR:

Single Primer Amplification Reaction

UPGMA:

Unweighted Pair-Group Method with Arithmetic Averages

SCAR:

Sequence Characterized Amplified Region

References

  • Archibald JK, Wolf PG, Tepedino BVJ (2001) Genetic relationships and population structure of the endangered steamboat buckwheat, Eriogonum ovalifolium var. williamsiae (Polygonaceae). Am J Bot 88:608–615

    Article  PubMed  CAS  Google Scholar 

  • Choi H, Kim MJ, Lee JS, Ryu KH (2006) Genetic diversity and phylogenetic relationships among and within species of oriental cymbidiums based on RAPD analysis. Sci Hort 108:79–85

    Article  CAS  Google Scholar 

  • Cuoco LB, Cronan JB (2009) Orchidaceae: Using a globalized commodity to promote conservation and sustainable economic development in Southern Ecuador. Sustainable Forestry 24:799–824

    Article  Google Scholar 

  • Dressler RL (1993) Phylogeny and classification of the orchid family. Cambridge University Press, Cambridge

    Google Scholar 

  • Frankham R (1995) Conservation genetics. Annu Rev Genet 29:305–327

    Article  PubMed  CAS  Google Scholar 

  • Gao L, Yang B (2006) Genetic diversity of wild Cymbidium goeringii (Orchidaceae) populations from Hubei based on ISSR analysis. Biodiversity Science 14:250–257

    Article  CAS  Google Scholar 

  • Handa T (1998) Utilization of molecular markers for ornamental plants. J Japan Soc Hort Sci 67:1197–1199

    Article  CAS  Google Scholar 

  • Huang Y, Li F, Chen K (2010) Analysis of diversity and relationships among Chinese orchid cultivars using EST-SSR markers. Biochem Syst Ecol 38:93–102

    Article  Google Scholar 

  • Jaccard P (1901) Etude comparative de la distribution orale dans une portion des Alpes et des Jura. Bull Soc Vaudoise Sci Nat 37:547–579

    Google Scholar 

  • Jarne P, Lagoda PJL (1996) Microsatellites from molecules to populations and back. Trends Ecol Evol 11:424–429

    Article  PubMed  CAS  Google Scholar 

  • Jian L, Zhang Y-Z, Yu D-F, Zhu L-Q (2010) Molecular characterization of Cymbidium kanran cultivars based on extended random amplified polymorphic DNA (ERAPD) markers. Af J Biotech 9:5084–5089

    CAS  Google Scholar 

  • Jin WT, Yao SP (2006) Cultivation and appreciation of noble spring orchid cultivars. Guangdong Science and Technology Press, Guangzhou

    Google Scholar 

  • Jin B, Jiang FS, Yu J, Ding ZS, Chen SH, Lv GY (2010) Study on sequence characterized amplified region (SCAR) markers in Dendrobium candidum. Zhong Yao Cai 33:343–346

    PubMed  CAS  Google Scholar 

  • Murray HG, Thompson WF (1980) Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res 8:4321–4325

    Article  PubMed  CAS  Google Scholar 

  • Obara-Okeyo P, Kako S (1998) Genetic diversity and identification of Cymbidium cultivars as measured by random amplified polymorphic DNA (RAPD) markers. Euphytica 99:95–101

    Article  CAS  Google Scholar 

  • Obara-Okeyo P, Fujii K, Kako S (1998) Isozyme variation in Cymbidium species (Orchidaceae). HortSci 33:133–135

    CAS  Google Scholar 

  • Sharma SK, Rajkumari K, Kumaria S, Tandon P, Rao SR (2010a) Karyo-morphological characterization of natural genetic variation in some threatened Cymbidium species of Northeast India. Caryologia 63:99–105

    Google Scholar 

  • Sharma SK, Rawat D, Kumar S, Kumar A, Kumaria S, Rao SR (2010b) Single primer amplification reaction (SPAR) reveals intra-specific natural variation in Prosopis cineraria (L.) Druce. Trees-Struct Funct 24:855–864

    Article  Google Scholar 

  • Sharma SK, Kumaria S, Tandon P, Rao SR (2011) Single primer amplification reaction (SPAR) methods reveal the intra-specific natural genetic variation in five species of Cymbidium (Orchidaceae). Gene 483:54–62

    Article  PubMed  CAS  Google Scholar 

  • Sharma SK, Dkhar J, Kumaria S, Tandon P, Rao SR (2012) Assessment of phylogenetic inter-relationships in the genus Cymbidium (Orchidaceae) based on internal transcribed spacer region of rDNA. Gene 495:10–15

    Article  PubMed  CAS  Google Scholar 

  • Van den Berg C, Ryan A, Cribb PJ, Chase MW (2002) Molecular phylogenetics of Cymbidium (Orcidaceae:Maxillariae): sequence data from Internal Transcribed Spacer (ITS) of nuclear ribosomal DNA Plastid matK. Lindleyana 17:102–111

    Google Scholar 

  • Wang HZ, Wang YD, Zhou XY, Ying QC, Zheng KL (2004) Analysis of genetic diversity of 14 species of Cymbidium based on RAPDs and AFLPs. Acta Biol Exp Sin 37:482–486

    CAS  Google Scholar 

  • Wang HZ, Wu Z-X, Lu J-J, Shi N-N, Zhao Y, Zhang Z-T, Liu J-J (2009) Molecular diversity and relationships among Cymbidium goeringii cultivars based on inter-simple sequence repeat (ISSR) markers. Genetica 136:391–399

    Article  PubMed  CAS  Google Scholar 

  • Xiaohong Y, Li G, Bo Y (2007) Genetic diversity of wild Cymbidium goeringii (Orchidaceae) populations from Hubei based on Inter-simple sequence repeats analysis. Front Biol 2:419–424

    Article  Google Scholar 

  • Xue DW, Ge XJ, Hao G, Zhang CQ (2004) High genetic diversity in a rare, narrowly endemic primrose species: Primula interjacens by ISSR Analysis. Acta Botanica Sinica 46:1163–1169

    CAS  Google Scholar 

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Acknowledgements

The present work is supported by a grant from University Grants Commission, Government of India, New Delhi, through University with Potential for Excellence (UPE)—Bioscience program. Authors are thankful to Mr. Nemichand Solanki for his technical help during experiments. Sincere thanks are due to all members of Plant Biotechnology Laboratories, Department of Botany as well as Department of Biotechnology and Bioinformatics, NEHU, Shillong, for their constant encouragement and help.

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Authors and Affiliations

  1. Department of Biotechnology and Bioinformatics, North Eastern Hill University, Shillong, Meghalaya, India

    Santosh Kumar Sharma & Satyawada Rama Rao

  2. Centre for Advanced Studies in Botany, North Eastern Hill University, Shillong, Meghalaya, India

    Suman Kumaria & Pramod Tandon

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  1. Santosh Kumar Sharma
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  2. Suman Kumaria
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  3. Pramod Tandon
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  4. Satyawada Rama Rao
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Corresponding author

Correspondence to Satyawada Rama Rao.

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Esm 1

UPGMA dendrogram after a 1000 replicate bootstrap test of robustness. (JPEG 36 kb)

High resolution image (TIFF 60 KB)

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Sharma, S.K., Kumaria, S., Tandon, P. et al. Assessment of genetic variation and identification of species-specific ISSR markers in five species of Cymbidium (Orchidaceae). J. Plant Biochem. Biotechnol. 22, 250–255 (2013). https://doi.org/10.1007/s13562-012-0127-0

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