Mining Biosynthetic Gene Clusters in <i>Carnobacterium maltaromaticum</i> by Interference Competition Network and Genome Analysis
2022
Marco Túlio Pardini Gontijo | Nancy E. Ramia | Alexis Dijamentiuk | Annelore Elfassy | Samir Taha | Cécile Mangavel | Anne-Marie Revol-Junelles | Frédéric Borges
<i>Carnobacterium maltaromaticum</i> is a non-starter lactic acid bacterium (LAB) of interest in the dairy industry for biopreservation. This study investigated the interference competition network and the specialized metabolites biosynthetic gene clusters (BGCs) content in this LAB in order to explore the relationship between the antimicrobial properties and the genome content. Network analysis revealed that the potency of inhibition tended to increase when the inhibition spectrum broadened, but also that several strains exhibited a high potency and narrow spectrum of inhibition. The <i>C. maltaromaticum</i> strains with potent anti-<i>L. monocytogenes</i> were characterized by high potency and a wide intraspecific spectrum. Genome mining of 29 strains revealed the presence of 12 bacteriocin BGCs: four of class I and eight of class II, among which seven belong to class IIa and one to class IIc. Overall, eight bacteriocins and one nonribosomal peptide synthetase and polyketide synthase (NRPS-PKS) BGCs were newly described. The comparison of the antimicrobial properties resulting from the analysis of the network and the BGC genome content allowed us to delineate candidate BGCs responsible for anti-<i>L. monocytogenes</i> and anti-<i>C. maltaromaticum</i> activity. However, it also highlighted that genome analysis is not suitable in the current state of the databases for the prediction of genes involved in the antimicrobial activity of strains with a narrow anti-<i>C. maltaromaticum</i> activity.
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