2007•Applied and Environmental MicrobiologyOpen access

Comparison of Different Denaturing Gradient Gel Electrophoresis Primer Sets for the Study of Marine Bacterioplankton Communities

Olga Sánchez, Josep M. Gasol, Ramón Massana, Jordi Mas, Carlos Pedrós‐Alió

Abstract

An annual seasonal cycle of composition of a bacterioplankton community in an oligotrophic coastal system was studied by denaturing gradient gel electrophoresis (DGGE) using five different primer sets. Analysis of DGGE fingerprints showed that primer set 357fGC-907rM grouped samples according to seasons. Additionally, we used the set of 16S rRNA genes archived in the RDPII database to check the percentage of perfect matches of each primer for the most abundant bacterial groups inhabiting coastal plankton communities. Overall, primer set 357fGC-907rM was the most suitable for the routine use of PCR-DGGE analyses in this environment.

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Key concepts: Bacterioplankton, Temperature gradient gel electrophoresis, Primer (cosmetics), Biology, 16S ribosomal RNA, Gel electrophoresis, Bacteria, Ecology