Physiology and Molecular Biology of Plants

, Volume 19, Issue 2, pp 245–250 | Cite as

RAPD, SCAR and conserved 18S rDNA markers for a red-listed and endemic medicinal plant species, Knema andamanica (Myristicaceae)

  • T. E. Sheeja
  • P. R. Anju
  • R. S. Shalini
  • S. Siju
  • K. Dhanya
  • B. Krishnamoorthy
Research Article

Abstract

Knema andamanica is a red-listed endemic medicinal species of Myristicaceae restricted to Andaman and Nicobar (A&N) Islands, India. This species is used in tribal medicines and has immense bioprospective potential. With a view to generate suitable genomic markers for classification and identification, we have generated RAPD, SCAR and conserved 18S rDNA markers from K. andamanica. A unique 585 bp fragment, that distinguished it from seven other related species of Myristicaceae was first amplified using the random primer OPE 06 and converted to SCAR marker (GenBank accession # JN228256). The conserved sequences of 18S rDNA loci from K. andamanica were also amplified and sequenced (GenBank accession #JN228265). The sequence revealed deviations including 18 variable regions and 15 indels that were unique to K. andamanica. These markers can help in definite identification of K. andamanica even at the juvenile stages.

Keywords

Knema andamanica RAPD SCAR 18S rDNA and germplasm characterization Genetic differentiation 

Abbreviations

SCAR

Sequence Characterised Amplified Region

ISSR

Inter Simple Sequence Repeats

AFLP

Amplified Fragment Length Polymorphism

SSR

Simple Sequence Repeats

rDNA

ribosomal DNA

NCBI

National Center for Biotechnology Information

RAPD

Random Amplification of Polymorphic DNA

SNP

Single Nucleotide Polymorphism

BLAST

Basic Local Alignment Search Tool

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Copyright information

© Prof. H.S. Srivastava Foundation for Science and Society 2013

Authors and Affiliations

  • T. E. Sheeja
    • 1
  • P. R. Anju
    • 1
  • R. S. Shalini
    • 1
  • S. Siju
    • 1
  • K. Dhanya
    • 1
    • 2
  • B. Krishnamoorthy
    • 1
  1. 1.Division of Crop Improvement and BiotechnologyIndian Institute of Spices ResearchCalicutIndia
  2. 2.Weill Cornell Medical College in Qatar, Qatar Foundation – Education CityDohaQatar

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