Bodkhe , R and Shetty, S.A. and Dhotre, D.P. and Verma, A.K. and Bhatia, K. and Mishra, A. and Kaur, G. and Bangarusamy, D.K. and Santosh, B.P. and Perumal, R.C. and Ahuja, V. and Shouche, Y.S. and Makharia, G.K. (2019) .Comparison of Small Gut and Whole Gut Microbiota of First-Degree Relatives WithAdult Celiac Disease Patients and Controls. Frontiers in Microbiology, 10 (164).

Ghattargi, V.C. and Nimonkar, Y.S. and Burse, S.A. and Davray, D. and Kumbhare, S.V. and Shetty, S.A. and Gaikwad, M.A. and Suryavanshi, M.V. and Doijad, S.P. and Utage, B. and Sharma, O.P. and Shouche, Y.S. (2018) Genomic and physiological analyses of an indigenous strain, Enterococcus faecium 17OM39. Functional & Integrative Genomics, 18 (4). pp. 385-399.

Bhute , S and Pande, P. and Shetty , S.A. and Shelar , R. and Mane, S. and Kumbhare, S.V. and Gawali , A. and Makhani , H. and Navandar, M. and Dhotre , D. and Lubree, H. and Agarwal, D. and Patil, R. and Ozarkar , S. and Ghaskadbi, S. and Yajn , C. (2016) MolecularCharacterizationandMeta-AnalysisofGutMicrobialCommunitiesIllustrateEnrichmentofPrevotellaandMegasphaerainIndianSubjects. Frontiers in Microbiology : Microbial Symbioses (7). e660.

Marathe , N.P. and Shetty , S.A. and Shouche, Y.S. and Larsson, D.G. (2016) Limited Bacterial Diversity within a Treatment Plant Receiving Antibiotic-Containing Waste from Bulk Drug Production. PLoS One. , 11 (11). e0165914-e0165914.

Mahale , K.N. and Paranjape, P.S. and Marathe , N.P. and Dhotre, D.P. and Chowdhury, S. and Shetty, S.A. and Sharma, K. and Tuteja, U. and Sharma , A. and Batra , H.V. and Shouche , Y.S. (2014) Draft Genome Sequences of Yersiniapestis Strains from the 1994 Plague Epidemic of Surat and 2002 Shimla Outbreak in India. Indian Journal of Microbiology, 54 (4). pp. 480-482.

Marathe , N.P. and Shetty , S.A. and Lanjekar , V.B. and Rasane , M.H. and Ranade , D.R. and Shouche , Y.S. (2014) Genome sequencing of multidrug resistant novel Clostridium sp. BL8 reveals its potential for pathogenicity. Gut Pathogens , 6 (30). pp. 1-5.

Shetty , S.A. and Marathe, N.P. and Lanjekar , V. and Ranade , D. and Shouche , Y.S. (2013) Comparative Genome Analysis of Megasphaera sp. Reveals Niche Specialization and Its Potential Role in the Human Gut. PLoS One, 8 (11). e79353-e79353.

Shetty , S.A. and Marathe , N.P. and Munot , H. and Antony, C.P. and Dhotre, D.P. and Murrell , J.C. and Shouche, Y.S. (2013) Draft Genome Sequence of Methylophaga lonarensis MPLT, a Haloalkaliphilic (Non-Methane-Utilizing) Methylotroph. Genenome Annuance, 1 (3). e00202-e002013. ISSN May/June 2013 Volume 1 Issue 3 e00202-13

Shetty , S.A. and Marathe, N.P. and Shouche , Y.S. (2013) Opportunities and challenges for gut microbiome studies in the Indian population. Microbiome , 1 (24).