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Background   Lactobacillus rhamnosus  Pen is a human endogenous strain with well-documented health promoting properties that is used for production of probiotics. It has a long safety history of application, and its effectiveness in the prevention of antibiotic-associated diarrhoea has also been confirmed in clinical trials.    Results  Here we present the complete genome sequence of  L. rhamnosus  Pen, which consists of a circular 2,884,4966-bp chromosome with a GC content of 46.8%. Within 2907 open reading frames (ORFs), genes involved with probiotic properties were identified. A CRISPR locus, consisting of a 1092-nt region with 16 spacers, was also detected. Finally, an intact prophage of ~ 40.7 kb, 57 ORFs, GC content 44.8% was identified.    Conclusions  Genomic analysis confirmed the probiotic properties of  L. rhamnosus  Pen and may indicate new biotechnological applications of this industrially important strain.    Electronic supplementary material  The online version of this article (10.1186/s13099-018-0235-z) contains supplementary material, which is available to authorized users.

gut pathogens

Complete genome sequence of Lactobacillus rhamnosus Pen, a probiotic component of a medicine used in prevention of antibiotic-associated diarrhoea in children