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Identification of novel microsatellite markers in okra (Abelmoschus esculentus (L.) Moench) through next-generation sequencing and their utilization in analysis of genetic relatedness studies and cross-species transferability

  • Kundapura V. Ravishankar
  • Gayathri Muthaiah
  • Pitchaimuthu Mottaiyan
  • Santhosh-kumar Gundale
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Introduction

Abelmoschus esculentusL. (Malvaceae), populary known as okra, is one of the important pod vegetable crops in tropics and subtropics. To develop the microsatellite markers, we have partially sequenced genomic DNA using Roche 454 Titanium pyrosequencing technology. A total of 979,806 bp data from 61,722 reads were obtained. These reads were assembled into 3735 contigs of which 2708 had microsatellites. Primers were designed for 402 microsatellites, from which 50 randomly selected SSR primers were standardized for amplification of okra DNA. Genetic analysis was done by employing 29 genotypes. Polymorphic information content (PIC) across all 50 loci ranged from 0.000 to 0.865 with a mean value of 0.519. The observed and expected heterozygosity ranged from 0.000 to 0.750 and 0.000 to 0.972, respectively. Alleles per locus ranged from 1 to 27. This is the first report on the development of genomic SSR markers in okra using next-generation sequencing technology. We have also...

Keywords

microsatellite markers transferability polymorphic information content Abelmaschus esculentus 

Notes

Acknowledgements

Authors acknowledge the financial support through institute project from ICAR-Indian Institute of Horticultural Research, Bengaluru.

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Copyright information

© Indian Academy of Sciences 2018

Authors and Affiliations

  • Kundapura V. Ravishankar
    • 1
  • Gayathri Muthaiah
    • 1
  • Pitchaimuthu Mottaiyan
    • 1
  • Santhosh-kumar Gundale
    • 1
  1. 1.Division of Biotechnology and Division of Vegetable CropsICAR-Indian Institute of Horticultural ResearchBengaluruIndia

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