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R-ISSR marker as a useful tool for detection of new genomic loci in Arthrocnemum macrostachyum

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  • Published:
Biologia Plantarum

Abstract

Arthrocnemum macrostachyum, is a perennial halophytic shrub typical of Mediterranean salt marshes. The present study aims to investigate some combinations of inter simple sequence repeat (ISSR) and random amplified polymorphic DNA (RAPD) primers applied in real PCR. Thereby, the potential of R-ISSR markers to detect new genomic loci in 3 genotypes of A. macrostachyum grown in the Western coast of Syria was examined. Different combinations of RAPD and ISSR primers produced bands that were absent when single ISSR or RAPD primers were used. The results have demonstrated that ISSR primer (AG)8TC gave more informative pattern when combined with different RAPD primers comparing to other tested primers. In contrast, the tested ISSR primer (GACA)4 gave less informative pattern when used alone. These combinations were successfully applied in real PCR to detect new genomic variability in A. macrostachyum genotypes.

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Abbreviations

CTAB:

cetyltrimethylammonium bromide

PCR:

polymerase chain reaction

RAPD:

random amplified polymorphic DNA

ISSR:

inter simple sequence repeat

References

  • Behera, T.K., Singh, A.K., Staub, J.E.: Comparative analysis of genetic diversity in Indian bitter gourd (Momordica charantia L.) using RAPD and ISSR markers for developing crop improvement strategies. — Scientia Hort. 115: 209–217, 2008.

    Article  CAS  Google Scholar 

  • Bornet, B., Goraguer, F., Joly, G., Branchard, M.: Genetic diversity in European and Argentinian cultivated potatoes (Solanum tuberosum subsp. tuberosum) detected by intersimple sequence repeats (ISSRs). — Genome 45: 481–484, 2002.

    Article  PubMed  CAS  Google Scholar 

  • Chadha, S., Gopalakrishna, T.: Comparative assessment of REMAP and ISSR marker assays for genetic polymorphism studies in Magnaporthe grisea. — Curr. Sci. 93: 688–692, 2007.

    CAS  Google Scholar 

  • Caetano-Anollés, G.: DNA fingerprinting: MAAP a versatile and universal tool for genome analysis. — Plant. mol. Biol. 25: 1011–1026, 1994.

    Google Scholar 

  • Joshi, S.P., Gupta, V.S., Aggarwal, R.K., Ranjekar, P.K., Brar, D.S.: Genetic diversity and phylogenetic relationship as revealed by inter-simple sequence repeat (ISSR) polymorphism in the genus Oryza. — Theor. appl. Genet. 100: 1311–1320, 2000.

    Google Scholar 

  • Kadereit, G., Mucina, L., Freitag, H.: Phylogeny of Salicornioideae (Chenopodiaceae): diversification, biogeography, and evolutionary trends in leaf and flower morphology. — Taxon 55: 617–642, 2006.

    Article  Google Scholar 

  • Liu, B., Wendel, J.F.: Inter simple sequence repeat (ISSR) polymorphisms as a genetic marker system in cotton. — Mol. Ecol. Notes 1: 205–208, 2001.

    Article  CAS  Google Scholar 

  • Muthusamy, S., Kanagarajan, S., Ponnusamy, S.: Efficiency of RAPD and ISSR markers system in accessing genetic variation of rice bean (Vigna umbellata) landraces. — Electron. J. Biotechnol. 11: 1–10, 2008.

    Article  Google Scholar 

  • Okun, D.O., Kenya, E.U., Oballa, P.O., Odee, D.W., Muluvi, G. M.: Analysis of genetic diversity in Eucalyptus grandis (Hill ex Maiden) seed sources using inter simple sequence repeats (ISSR) molecular markers. — Afr. J. Biotechnol. 7: 2119–2123, 2008.

    CAS  Google Scholar 

  • Parsons, B.J., Newbury, H.J., Jackson, M.T., Ford-Lloyd, B.V.: Contrasting genetic diversity relationships are revealed in rice (Oryza sativa L.) using different marker types. — Mol. Breed. 3: 115–125, 1997.

    Article  CAS  Google Scholar 

  • Pharmawati, M., Yan, G., Finnegan, P.M.: Molecular variation and fingerprinting of Leucadendron cultivars (Proteaceae) by ISSR markers. — Ann. Bot. 95: 1163–1170, 2005.

    Article  PubMed  CAS  Google Scholar 

  • Raina, S.N., Rani, V., Kojima, T., Ogihara, Y., Singh, K.P., Devarumath, R.M.: RAPD and ISSR fingerprints as useful genetic markers for analysis of genetic diversity, varietals identification, and phylogenetic relationships in peanut (Arachis hypogaea) cultivars and wild species. — Genome 44: 763–772, 2001.

    Google Scholar 

  • Sikdar, B., Bhattacharya, M., Mukherjee, A., Banerjee, A., Ghosh, E., Ghosh, B., Roy, S.C.: Genetic diversity in important members of Cucurbitaceae using isozyme, RAPD and ISSR markers. — Biol. Plant. 54: 135–140, 2010.

    Article  CAS  Google Scholar 

  • Singh, A.K., Singh, M., Singh, A.K., Singh, R., Kumar, S., Kalloom, G.: Genetic diversity within the genus Solanum (Solanaceae) as revealed by RAPD markers. — Curr. Sci. 90: 711–716, 2006.

    CAS  Google Scholar 

  • Vicente, M.J., Conesa, E., Varez-Rogel, J. Á., Franco, J.A, Martínez-Sánchez, J.J.: Effects of various salts on the germination of three perennial salt marsh species. — Aquat. Bot. 87: 167–170, 2007.

    Article  CAS  Google Scholar 

  • Williams, J.G.K., Kubelik, A.R., Livak, K.J., Rafalski, J.A., Tingey, S.V.: DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. — Nucl. Acids Res. 18: 653l–6535, 1990.

    Google Scholar 

  • Wilson, P.G.: A revision of the australian species of Salicornieae (Chenopodiaceae). — Nuytsia 3: 1–154, 1980.

    Google Scholar 

  • Ye, C., Yu, Z., Kong, F., Wu, S.: R-ISSR as a new tool for genomic fingerprinting, mapping, and gene tagging. — Plant. mol. Biol. Rep. 23: 167–177, 2005.

    Article  CAS  Google Scholar 

  • Zietkiewicz, E., Rafalski, A., Labuda, D.: Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain reaction amplification. — Genomics 20: 176–183, 1994.

    Article  PubMed  CAS  Google Scholar 

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Acknowledgments

We thank Dr. I. Othman (Director General of AECS) and Dr. N. Mirali (Head of Molecular Biology and Biotechnology Department in AECS) for their support, and also the Plant Biotechnology group for technical assistance.

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Correspondence to B. Saleh.

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Saleh, B. R-ISSR marker as a useful tool for detection of new genomic loci in Arthrocnemum macrostachyum . Biol Plant 55, 327–330 (2011). https://doi.org/10.1007/s10535-011-0047-1

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  • DOI: https://doi.org/10.1007/s10535-011-0047-1

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