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Genomic subpopulations within the species Pediococcus acidilactici detected by multilocus typing analysis: relationships between pediocin AcH/PA-1 producing and non-producing strains

Dipartimento di Scienze e Tecnologie Alimentari e Microbiologiche, sezione Microbiologia Industriale¹ and sezione Microbiologia Agraria, Alimentare e Ecologica², Università di Milano, via Celoria 2, 20133 Milano, Italy

Author for correspondence: Diego Mora. Tel: +39 2 23955849. Fax: +39 2 70630829. e-mail: diego.mora{at}unimi.it

A high degree of genetic polymorphism among P. acidilactici strains was highlighted by a multilocus typing approach analysing several housekeeping genes and by sampling the whole genome using random amplified polymorphic DNA (RAPD) fingerprint analysis performed by using a single primer pedA gene targeted in low-stringency amplification conditions. Restriction fragment length polymorphism of the rpoC, ldhD/L and mle genes, and a modified RAPD analysis, permitted the grouping of Pediococcus acidilactici strains in seven genotypes (I–VII). Genotypic results obtained by analysing housekeeping genes involved in the transcription/translation machinery and in primary metabolism were supported by phylogenetic analysis based on the partial 16S rDNA sequencing of a reference strain of each of the seven clusters obtained. Three of the seven genotypes detected showed relationships with pediocin AcH/PA-1 production and carbohydrate fermentation patterns: all pediocin-producing and sucrose-positive strains were grouped in genotype VII, melibiose-, sucrose- and raffinose-positive strains in genotype VI, and arabinose-positive strains in genotype V.

Abbreviations: LAB, lactic acid bacteria; RAPD, random amplified polymorphic DNA

The GenBank accession numbers for the sequences determined in this work are given in Table 4.

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