Genomic and physiological analyses of an indigenous strain, Enterococcus faecium 17OM39
Ghattargi, Vikas C. ; Nimonkar, Yogesh S. ; Burse, Shaunak A. ; Davray, Dimple ; Kumbhare, Shreyas V. ; Shetty, Sudarshan A. ; Gaikwad, Meghana A. ; Suryavanshi, Mangesh V. ; Doijad, Swapnil P. ; Utage, Bhimashankar ; Sharma, Om Prakash ; Shouche, Yogesh S. ; Meti, Bharati S. ; Pawar, Shrikant P. - \ 2018
Functional and Integrative Genomics 18 (2018)4. - ISSN 1438-793X - p. 385 - 399.
Bile salt hydrolysis - Genome analysis - Indigenous probiotic - Probiotic genes - Serum resistance
The human gut microbiome plays a crucial role in human health and efforts need to be done for cultivation and characterisation of bacteria with potential health benefits. Here, we isolated a bacterium from a healthy Indian adult faeces and investigated its potential as probiotic. The cultured bacterial strain 17OM39 was identified as Enterococcus faecium by 16S rRNA gene sequencing. The strain 17OM39 exhibited tolerance to acidic pH, showed antimicrobial activity and displayed strong cell surface traits such as hydrophobicity and autoaggregation capacity. The strain was able to tolerate bile salts and showed bile salt hydrolytic (BSH) activity, exopolysaccharide production and adherence to human HT-29 cell line. Importantly, partial haemolytic activity was detected and the strain was susceptible to the human serum. Genomics investigation of strain 17OM39 revealed the presence of diverse genes encoding for proteolytic enzymes, stress response systems and the ability to produce essential amino acids, vitamins and antimicrobial compound Bacteriocin-A. No virulence factors and plasmids were found in this genome of the strain 17OM39. Collectively, these physiological and genomic features of 17OM39 confirm the potential of this strain as a candidate probiotic.
Molecular characterization and meta-analysis of gut microbial communities illustrate enrichment of prevotella and megasphaera in Indian subjects
Bhute, Shrikant ; Pande, Pranav ; Shetty, Sudarshan A. ; Shelar, Rahul ; Mane, Sachin ; Kumbhare, Shreyas V. ; Gawali, Ashwini ; Makhani, Hemal ; Navandar, Mohit ; Dhotre, Dhiraj ; Lubree, Himangi ; Agarwal, Dhiraj ; Patil, Rutuja ; Ozarkar, Shantanu ; Ghaskadbi, Saroj ; Yajnik, Chittaranjan ; Juvekar, Sanjay ; Makharia, Govind K. ; Shouche, Yogesh S. - \ 2016
Frontiers in Microbiology 7 (2016)MAY. - ISSN 1664-302X
16S rRNA amplicon - Indian subjects - Prevotella and Megasphaera - QPCR
The gut microbiome has varied impact on the wellbeing of humans. It is influenced by different factors such as age, dietary habits, socio-economic status, geographic location, and genetic makeup of individuals. For devising microbiome-based therapies, it is crucial to identify population specific features of the gut microbiome. Indian population is one of the most ethnically, culturally, and geographically diverse, but the gut microbiome features remain largely unknown. The present study describes gut microbial communities of healthy Indian subjects and compares it with the microbiota from other populations. Based on large differences in alpha diversity indices, abundance of 11 bacterial phyla and individual specific OTUs, we report inter-individual variations in gut microbial communities of these subjects. While the gut microbiome of Indians is different from that of Americans, it shared high similarity to individuals from the Indian subcontinent i.e., Bangladeshi. Distinctive feature of Indian gut microbiota is the predominance of genus Prevotella and Megasphaera. Further, when compared with other non-human primates, it appears that Indians share more OTUs with omnivorous mammals. Our metagenomic imputation indicates higher potential for glycan biosynthesis and xenobiotic metabolism in these subjects. Our study indicates urgent need of identification of population specific microbiome biomarkers of Indian subpopulations to have more holistic view of the Indian gut microbiome and its health implications.