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Research Article

Two Different High Throughput Sequencing Approaches Identify Thousands of De Novo Genomic Markers for the Genetically Depleted Bornean Elephant

  • Reeta Sharma mail,

    rsharma@igc.gulbenkian.pt

    Affiliation: Population and Conservation Genetics, Instituto Gulbenkian de Ciência, Oeiras, Portugal

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  • Benoit Goossens,

    Affiliations: Organisms and Environment Division, School of Biosciences, Cardiff University, Cardiff, United Kingdom, Danau Girang Field Centre, Sabah Wildlife Department, Kota Kinabalu, Sabah, Malaysia

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  • Célia Kun-Rodrigues,

    Affiliation: Population and Conservation Genetics, Instituto Gulbenkian de Ciência, Oeiras, Portugal

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  • Tatiana Teixeira,

    Affiliation: Population and Conservation Genetics, Instituto Gulbenkian de Ciência, Oeiras, Portugal

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  • Nurzhafarina Othman,

    Affiliations: Organisms and Environment Division, School of Biosciences, Cardiff University, Cardiff, United Kingdom, Danau Girang Field Centre, Sabah Wildlife Department, Kota Kinabalu, Sabah, Malaysia

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  • Jason Q. Boone,

    Affiliation: Floragenex, Inc., Eugene, Oregon, United States of America

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  • Nathaniel K. Jue,

    Affiliation: Center for Applied Genetics and Technology, Department of Molecular and Cell Biology, University of Connecticut, Storrs, Connecticut, United States of America

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  • Craig Obergfell,

    Affiliation: Center for Applied Genetics and Technology, Department of Molecular and Cell Biology, University of Connecticut, Storrs, Connecticut, United States of America

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  • Rachel J. O'Neill,

    Affiliation: Center for Applied Genetics and Technology, Department of Molecular and Cell Biology, University of Connecticut, Storrs, Connecticut, United States of America

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  • Lounès Chikhi

    Affiliations: Population and Conservation Genetics, Instituto Gulbenkian de Ciência, Oeiras, Portugal, CNRS, Laboratoire Evolution and Diversité Biologique, Université Paul Sabatier, Toulouse, France, Université de Toulouse, Toulouse, France

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  • Published: November 21, 2012
  • DOI: 10.1371/journal.pone.0049533

About the Authors

Reeta Sharma, Célia Kun-Rodrigues, Tatiana Teixeira, Lounès Chikhi
Population and Conservation Genetics, Instituto Gulbenkian de Ciência, Oeiras, Portugal
Benoit Goossens, Nurzhafarina Othman
Organisms and Environment Division, School of Biosciences, Cardiff University, Cardiff, United Kingdom
Benoit Goossens, Nurzhafarina Othman
Danau Girang Field Centre, Sabah Wildlife Department, Kota Kinabalu, Sabah, Malaysia
Jason Q. Boone
Floragenex, Inc., Eugene, Oregon, United States of America
Nathaniel K. Jue, Craig Obergfell, Rachel J. O'Neill
Center for Applied Genetics and Technology, Department of Molecular and Cell Biology, University of Connecticut, Storrs, Connecticut, United States of America
Lounès Chikhi
CNRS, Laboratoire Evolution and Diversité Biologique, Université Paul Sabatier, Toulouse, France
Lounès Chikhi
Université de Toulouse, Toulouse, France

Corresponding Author

Email: rsharma@igc.gulbenkian.pt

Competing Interests

The services of 'Floragenex,Inc.' company were used for Illumina RAD-sequencing to develop the SNPs and SSRs in this study. This does not alter the authors' adherence to all the PLOS ONE policies on sharing data and materials.

Author Contributions

Conceived and designed the experiments: RS BG LC. Performed the experiments: RS CKR TT. Analyzed the data: RS CKR JQB RJO NKJ CO. Contributed reagents/materials/analysis tools: NO. Wrote the paper: RS BG LC.