Molecular Biology Reports

, Volume 41, Issue 2, pp 823–831 | Cite as

Identification and characterization of RAPD–SCAR markers linked to glyphosate-susceptible and -resistant biotypes of Eleusine indica (L.) Gaertn

  • Thye San ChaEmail author
  • Kaben Anne-Marie
  • Tse Seng Chuah


Eleusine indica is one of the most common weed species found in agricultural land worldwide. Although herbicide-glyphosate provides good control of the weed, its frequent uses has led to abundant reported cases of resistance. Hence, the development of genetic markers for quick detection of glyphosate-resistance in E. indica population is imperative for the control and management of the weed. In this study, a total of 14 specific random amplified polymorphic DNA (RAPD) markers were identified and two of the markers, namely S4R727 and S26R6976 were further sequence characterized. Sequence alignment revealed that marker S4R727 showing a 12-bp nucleotides deletion in resistant biotypes, while marker S26R6976 contained a 167-bp nucleotides insertion in the resistant biotypes. Based on these sequence differences, three pairs of new sequence characterized amplified region (SCAR) primers were developed. The specificity of these primer pairs were further validated with genomic DNA extracted from ten individual plants of one glyphosate-susceptible and five glyphosate-resistant (R2, R4, R6, R8 and R11) populations. The resulting RAPD–SCAR markers provided the basis for assessing genetic diversity between glyphosate-susceptible and -resistant E. indica biotypes, as well for the identification of genetic locus link to glyphosate-resistance event in the species.


Goosegrass Molecular marker Insertion–deletion Random amplified polymorphic DNA Sequence characterized amplified region 



This project was funded under Fundamental Research Grant Scheme (VOT: 59046) from the Ministry of Higher Education (MOHE) and ScienceFund (Project No: 05-01-12-SF0006) from the Ministry of Agriculture (MOA), Malaysia.

Supplementary material

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Supplementary material 1 (DOCX 1055 kb)


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Copyright information

© Springer Science+Business Media Dordrecht 2013

Authors and Affiliations

  • Thye San Cha
    • 1
    • 2
    Email author
  • Kaben Anne-Marie
    • 1
  • Tse Seng Chuah
    • 3
  1. 1.School of Fundamental ScienceUniversiti Malaysia TerengganuKuala TerengganuMalaysia
  2. 2.Institute of Marine BiotechnologyUniversiti Malaysia TerengganuKuala TerengganuMalaysia
  3. 3.School of Food Science and TechnologyUniversiti Malaysia TerengganuKuala TerengganuMalaysia

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