title: Microbial diversity in smoked salmon examined by a culture-independent molecular approach--a preliminary study.
abstract: Microbial biodiversity in sliced vacuum-packed cold smoked salmon was investigated using culture-independent molecular biology techniques. Sliced smoked salmon was stored for 25 days after being packed at 4 degrees C. DNA was extracted from sliced vacuum-packed cold smoked salmon. PCR DNA amplification were carried out using universal eubacterial primers corresponding to Escherichia coli 16S rRNA gene. 16S rRNA genes were amplified, cloned in E. coli and compared using Amplification Ribosomal DNA Restriction Analysis (ARDRA). 106 clones were studied and classified into 13 Operational Taxonomic Units (OTUs). Sequences obtained to describe those 13 OTUs were compared to GenBank data. They indicated the presence of Vibrio species. Enterobacteraceae and also marine psychrophilic clones related to Alteromonas macleodii, which were not encountered within cultures, but no Gram-positive species have been obtained. Those results indicate that bias in description of microbial diversity may be encountred in both molecular and cultural techniques.
authors.affiliation: Laboratoire de Caracterisation des Microorganismes Marins, DRV-VP-CMM, IFREMER centre de Brest, Plouzané, France. macambon@ifremer.fr
authors.forename: M A
authors.initials: MA
authors.lastname: Cambon-Bonavita
authors.forename: F
authors.initials: F
authors.lastname: Lesongeur
authors.forename: S
authors.initials: S
authors.lastname: Menoux
authors.forename: A
authors.initials: A
authors.lastname: Lebourg
authors.forename: G
authors.initials: G
authors.lastname: Barbier
mesh_terms: D001419:Bacteria / Q000145:classification / Q000235:genetics / Q000302:isolation & purification*; D003080:Cold Temperature; D017931:DNA Primers; D005511:Food Handling; D018857:Food Packaging; D021141:Nucleic Acid Amplification Techniques; D010802:Phylogeny; D016133:Polymerase Chain Reaction; D012336:RNA, Ribosomal, 16S; D015183:Restriction Mapping; D012474:Salmon / Q000382:microbiology*; D013997:Time Factors; D014618:Vacuum; D014733:Vibrio / Q000235:genetics / Q000302:isolation & purification
chemical_list: D017931:DNA Primers; D012336:RNA, Ribosomal, 16S