Horizon / Plein textes La base de ressources documentaires de l'IRD



Publications des scientifiques de l'IRD

Zarzoso-Lacoste D., Corse E., Vidal Eric. (2013). Improving PCR detection of prey in molecular diet studies : importance of group-specific primer set selection and extraction protocol performances. Molecular Ecology Resources, 13 (1), 117-127. ISSN 1755-098X

Accès réservé (Intranet IRD) Demander le PDF

Lien direct chez l'éditeur doi:10.1111/1755-0998.12029

Improving PCR detection of prey in molecular diet studies : importance of group-specific primer set selection and extraction protocol performances
Année de publication2013
Type de documentArticle référencé dans le Web of Science WOS:000312309200013
AuteursZarzoso-Lacoste D., Corse E., Vidal Eric.
SourceMolecular Ecology Resources, 2013, 13 (1), p. 117-127. ISSN 1755-098X
RésuméWhile the morphological identification of prey remains in predators' faeces is the most commonly used method to study trophic interactions, many studies indicate that this method does not detect all consumed prey. Polymerase chain reactionbased methods are increasingly used to detect prey DNA in the predator food bolus and have proven efficient, delivering highly accurate results. When studying complex diet samples, the extraction of total DNA is a critical step, as polymerase chain reaction (PCR) inhibitors may be co-extracted. Another critical step involves a careful selection of suitable group-specific primer sets that should only amplify DNA from the targeted prey taxon. In this study, the food boluses of five Rattus rattus and seven Rattus exulans were analysed using both morphological and molecular methods. We tested a panel of 31 PCR primer pairs targeting bird, invertebrate and plant sequences; four of them were selected to be used as group-specific primer pairs in PCR protocols. The performances of four DNA extraction protocols (QIAamp (R) DNA stool mini kit, DNeasy (R) mericon food kit and two of cetyltrimethylammonium bromide-based methods) were compared using four variables: DNA concentration, A260/A280 absorbance ratio, food compartment analysed (stomach or faecal contents) and total number of prey-specific PCR amplification per sample. Our results clearly indicate that the A260/A280 absorbance ratio, which varies between extraction protocols, is positively correlated to the number of PCR amplifications of each prey taxon. We recommend using the DNeasy (R) mericon food kit (QIAGEN), which yielded results very similar to those achieved with the morphological approach.
Plan de classementSciences du monde animal [080] ; Sciences fondamentales / Techniques d'analyse et de recherche [020]
LocalisationFonds IRD [F B010058205]
Identifiant IRDfdi:010058205
Lien permanenthttp://www.documentation.ird.fr/hor/fdi:010058205

Export des données

Disponibilité des documents

Télechargment fichier PDF téléchargeable

Lien sur le Web lien chez l'éditeur

Accès réservé en accès réservé

HAL en libre accès sur HAL

Accès aux documents originaux :

Le FDI est labellisé CollEx

Accès direct

Bureau du chercheur

Site de la documentation

Espace intranet IST (accès réservé)

Suivi des publications IRD (accès réservé)

Mentions légales

Services Horizon

Poser une question

Consulter l'aide en ligne

Déposer une publication (accès réservé)

S'abonner au flux RSS

Voir les tableaux chronologiques et thématiques

Centres de documentation


Montpellier (centre IRD)

Montpellier (MSE)









La Paz