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A novel semi-multiplex PCR assay for identification of tropical eels of genus Anguilla in Indonesian waters

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Abstract

A one-step semi-multiplex polymerase chain reaction (PCR) is proposed to distinguish seven species and subspecies of tropical eels, i.e., Anguilla celebesensis, A. interioris, A. nebulosa nebulosa, A. marmorata, A. borneensis, A. bicolor bicolor, and A. bicolor pacifica, known in Indonesian waters. Seven pairs of species-specific primers, including two forward and seven reverse sequences, were designed after alignment of published and new complete mitochondrial cytochrome b (1,140 bp) and 16S ribosomal RNA (rRNA) (1,120 bp) sequences. All species-specific primer pairs are included in one PCR mix, but only one pair of them can amplify a specific fragment from the template DNA that is analyzed. The semi-multiplex PCR amplified a fragment of 230 bp for A. b. bicolor, 372 bp for A. n. nebulosa, 450 bp for A. borneensis, 620 bp for A. marmorata, 670 bp for A. b. pacifica, 720 bp for A. celebesensis, and 795 bp for A. interioris, which are then separated by DNA agarose gel electrophoresis.

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Acknowledgments

This study would not have been possible without the support of all the persons and institutions helping with the collection of specimens: Achmad SUDRAJAT, I. Nyoman Adiasamara GIRI, and RUSMAEDI from Central Researcher of Aquaculture (CRA), Jambi BBAT, Tatelu BBAT, Team “Rainbow Expedition” to get specimens from Papua, Ahmad MUSA, who collected specimens from Lasusua, and NENGAH, who collected samples from Bali. We also thank Jacques SLEMBROUCK (coordinator IRD-Depok, which provided financial support for field trips for this research), and Tony ROBINET for helping in taxonomy.

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Authors and Affiliations

  1. Animal Bioscience Study Program, Graduate School, Bogor Agricultural University, Bogor, Indonesia

    Melta Rini Fahmi

  2. Researcher at Research Station of Ornamental Fish Culture, Jl Perikanan No 13 Pancoran Mas, Depok, Indonesia

    Melta Rini Fahmi

  3. Department of Biology, Faculty of Mathematics and Natural Science, Bogor Agricultural University, Darmaga Campus, Bogor, 16680, Indonesia

    Dedy Duryadi Solihin

  4. Department of Fisheries Resources, Faculty Marine and Fisheries, Bogor Agricultural University, Darmaga Campus, Bogor, 16680, Indonesia

    Kadarwan Soewardi

  5. Institut de Recherche pour le Développement, UR 175, 361 rue J.F. Breton, 34196, Montpellier 5, France

    Laurent Pouyaud

  6. Institut des Sciences de l’Evolution (ISEM) UMR 5554 UMII-CNRS-IRD, Université Montpellier II, CC 065, Place E. Bataillon, 34095, Montpellier Cedex 5, France

    Zhaojun Shao & Patrick Berrebi

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  1. Melta Rini Fahmi
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  2. Dedy Duryadi Solihin
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Correspondence to Melta Rini Fahmi.

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Fahmi, M.R., Solihin, D.D., Soewardi, K. et al. A novel semi-multiplex PCR assay for identification of tropical eels of genus Anguilla in Indonesian waters. Fish Sci 79, 185–191 (2013). https://doi.org/10.1007/s12562-012-0587-0

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  • DOI: https://doi.org/10.1007/s12562-012-0587-0

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