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Updated: Jun 2, 2026
DNA-based Fish Species Identification Protocol
Published on: April 28, 2010
Multiplex 16S rRNA haplotype-specific PCR, a rapid and convenient method for fish species identification: an
J D Durand1, M A Diatta, K Diop
1Institut de Recherche pour le Développement (IRD), UMR 5119 ECOLAG, Campus IRD/ISRA de Bel Air, BP 1386 CP1854, Dakar, Senegal Institut de Recherche pour le Développement (IRD), UMR 5119 ECOLAG, Université Montpellier 2, cc 093, Place Eugène Bataillon, 34095 Montpellier Cedex 5, France.
Abstract:
A multiplex haplotype-specific polymerase chain reaction (MHS-PCR) method was developed, which identified seven Clupeiform species living in the tropical Eastern Atlantic region: Sardinella aurita, Sardinella maderensis, Ethmalosa fimbriata, Sardina pilchardus, Engraulis encrasicholus, Pellonula leonensis and Ilisha africana. 16S rRNA fragments were amplified using a species-specific set of primers, yielding species-specific size fragments, and then separated using agarose gel electrophoresis, enabling direct visual identification of targeted species. This method provides an accurate, easy and rapid tool for identifying species within large Clupeiform samples. It is suitable for investigations on early Clupeiform stages, species and identification in fishery management in the tropical Eastern Atlantic area.
