Genome Comparison of Actinomyces Naeslundii with known Probiotics

Abstract

Introduction: Actinomyces naeslundii  is an oral microbiome that has been suggested to involve in actinomycosis particularly in immunocompromised patients. However, studies have also shown that the bacterium can inhibit the colonisation of Candida albicans and cariogenic bacterium, Streptococcus mutans. Even though various studies have been conducted to characterise  A. naeslundii, however, the role of the bacterium in the oral cavity either to induce pathogenicity or to improve oral health remain unclear. The objective of this study is to determine the role of A. naeslundii  in the oral cavity using bioinformatic tools with the hypothesis that A. naeslundii  possesses genome similarity to oral probiotics. Materials and method: The study was conducted by data mining of the genomic sequences of A. naeslundii  NCTC10301 from GenBank. Following that, genomic comparison was performed with 25 species of well-known probiotics. MAUVE version 2.3.1 was used to find similarities between  A. naeslundii with the known probiotics through identification of potential relevance probiotic properties in A. naeslundii. Phylogenetic tree was constructed using PHYLIP package to identify evolutionary relationship of A. naeslundii with the known probiotics. The 16s rRNA sequences of A. naeslundii and known probiotics were harvested from GenBank using BLAST. Finally, the functions of all A. naeslundii  genes that shared similarity with known probiotics were identified using INTERPRO. Result: Genome comparison analysis of the present study showed that A. naeslundii  genome exhibited high similarity to Bifidobacterium species such as B. animalis subsp. lactis, B. bifidum, B. longum and B. breve. In addition, phylogenetic tree analysis showed that  Bacillus  species, B. subtilis  and  B. cereus , appeared to clade together with A. naeslundii, with bootstrap value of 98%. Conclusion: A. naeslundii had high similarity with probiotic Bifidobacterium species thus supported the hypothesis of the present study that A. naeslundii possesses genome similarity to oral probiotic.