Computational protocol: Isolation and Molecular Identification of Bacteriocin-producing Enterococci with Broad Antibacterial Activity from Traditional Dairy Products in Kerman Province of Iran

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Protocol publication

[…] Phylogenetic analysis was carried out as follows: the sequences were edited using Bioedit V.5.0.9 (Hall, 1999). For identification of the nearest neighbors, a BLAST search at the NCBI genome database server (http://blast.ncbi.nlm.nih.gov/Blast.cgi) was carried (). Alignment, phylogenetic and molecular evolutionary analysis were conducted using MEGA version 5 (). To confirm the reliability of the phylogenetic tree, bootstrap test and reconstruction was performed 1,000 times (). The nucleotide sequences of 16S rRNA gene of studied bacterial strains (E. faecium C-2 and E. faecium Y-1) have been deposited in GenBank under Accession No: KU200452 and KU200451, respectively. […]

Pipeline specifications

Software tools BioEdit, MEGA
Application Phylogenetics
Organisms Escherichia coli, Enterococcus faecium, Listeria monocytogenes, Pseudomonas aeruginosa
Chemicals Ammonium Sulfate, Lactic Acid