Features of DNA fragments obtained by random amplified polymorphic DNA (RAPD) assays |
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Authors: | Rabouam Comes Bretagnolle Humbert Periquet Bigot |
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Affiliation: | Centre d'Etudes Biologiques de Chizé, UPR CNRS 4701, Villiers-en-Bois, BP 14, 79360 Beauvoir-sur-Niort, France,,;Laboratoire d'Ecologie Parasitaire, INRA Station de Pathologie Aviaire et de Parasitologie, 37380 Nouzilly, France,,;Institut de Recherche sur la Biologie de l'Insecte, UPRESA CNRS 6035, Facultédes Sciences, Parc Grandmont, 37200 Tours, France |
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Abstract: | Random amplified polymorphic DNA (RAPD) fragments were prepared from samples of Calonectris diomedea (Cory's shearwater, Aves) and Haemonchus contortus (Nematoda) DNA by polymerase chain reaction (PCR) using decamers containing two restriction enzyme sites as primers. Six of 19 studied RAPD fragments probably originated from traces of commensal microorganisms. Many rearranged fragments, absent in the original genomic DNA, were synthesized and amplified during the processing of all the DNA samples, indicating that interactions occur within and between strands during the annealing step of PCR. The model of interactions between molecular species during DNA amplification with a single arbitrary oligonucleotide primer was modified to include nested primer annealing and interactions within and between strands. The presence of these artefacts in the final RAPD have a major effect on the interpretation of polymorphism studies. |
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Keywords: | commensal organism contamination Cory's shearwater nematode PCR artefacts population biology RAPD |
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