Assistant Professor

Dr Shoji D Thottathil 

Department of Environmental Science


  1. Carbon biogeochemistry of aquatic systems
  2. Carbonic greenhouse gas (CH4 and CO2) emissions from freshwater environment
  3. Dissolved organic matter and microbial dynamics in aquatic networks



Kannur University


Annamalai University


Kyoto University


University of Quebec at Montreal


  • 2012-2013, Researcher | Kyoto University, Kyoto, Japan
  • 2008-2009, Junior Research Fellow | Goa University, Goa, India
  • 2005-2008, Project Assistant | National Institute of Oceanography, Kochi, Kerala, India

Research Interest

  • Methane (CH4) and carbon dioxide (CO2) emissions from inland water networks – streams, rivers, reservoirs, lakes, and estuaries
  • Regulation of CH4 production and oxidation in aquatic systems
  • Dissolved organic matter dynamics and bacterial metabolism along the streams – rivers - estuarine continuum
  • Fate of terrestrial carbon in aquatic systems

Awards & Fellowships

  • 2014, Merit Scholarship for Foreign Students, Fonds de Research du Quebec – Nature and Technologies, Quebec, Canada Government
  • 2013, Scholarship of Excellence in Faculty of Science, University of Quebec at Montreal, Canada
  • 2010, Japanese Government (Monbukagakusho Mext) Scholarship, Japanese Government


  • Association for the Science of Limnology and Oceanography
  • International Society of Limnology


  • Reis, P.C.J., Shoji D Thottathil, & Prairie, Y.T. (2022). The role of methanotrophy in the microbial carbon metabolism of temperate lakes. Nature Communications 13, 43.
  • Thottathil, S. D., & Prairie, Y. T. (2021). Coupling of stable carbon isotopic signature of methane and ebullitive fluxes in northern temperate lakes. Science of The Total Environment, 777, 146117.
  • Reis, P. C., Thottathil, S. D., Ruiz‐González, C., & Prairie, Y. T. (2020). Niche separation within aerobic methanotrophic bacteria across lakes and its link to methane oxidation rates. Environmental Microbiology. 22(2), 738–751
  • Kinetics of methane oxidation in northern freshwater lakes. S.D. Thottathil, P.C.J. Reis, Y.T. Prairie (2019). Biogeochemistry (
  • Extent and regulation of summer methane oxidation in northern lakes. S.D.Thottathil, P.C.J. Reis, P.A. del Giorgio, Y.T. Prairie (2018). Journal of Geophysical Research-Biogeosciences 123: 3216-3230
  • Biogeochemical control on fluorescent dissolved organic matter dynamics in a large freshwater lake (Lake Biwa, Japan). S.D. Thottathil, K. Hayakawa, Y. Hodoki, C. Yoshimizu, Y. Kobayashi, S. Nakano (2015). Limnology and Oceanography 58: 2262-2278
  • Identification of species and genotypic composition of Cryptomonas (Cryptohyceae) populations in the eutrophic lake Hira, Japan using single-cell PCR. H. Nishino, Y. Hodoki, S.D. Thottathil, K. Obayashi, Y. Takao, S. Nakano (2005). Aquatic Ecology 49: 263-272.
  • Influence of allochthonous input on autotrophic-heterotrophic switch-over in shallow waters of a tropical ecosystem (Cochin Estuary), India. S.D. Thottathil, K.K. Balachandaran, N.V. Madhu, G.V.M. Gupta, S. Nair (2008). Estuarine Coastal and Shelf Science 78: 551-562.
  • Tidal switch on metabolic activity: Salinity induced responses on bacterioplankton metabolic capabilities in a tropical estuary. S.D. Thottathil, K.K. Balachandran, K.V. Jayalakshmi, G.V.M. Gupta, S. Nair (2008). Estuarine Coastal and Shelf Sciences 78: 665-673.
  • CO2 supersaturation and net heterotrophy in a tropical estuary (Cochin, India): Influence of anthropogenic effect. V.M. Gupta, S.D. Thottathil, K.K. Balachandran, N.V. Madhu, P. Madeswaran, S. Nair (2009). Ecosystems 12: 1145-1157.
  • Short-term variability of water quality and its implications on phytoplankton production in a tropical estuary (Cochin Backwaters –India). N.V. Madhu, K.K. Balachandran, G.D. Martin, R. Jyothibabu, S.D. Thottathil, M. Nair, T. Joseph, K.K. Kusum, (2010). Environmental Monitoring and Assessment 170: 287-300.
  • The September 2004 stench off the southern Malabar Coast – A consequence of holococcolithophore bloom. N. Ramaiah, J. T. Paul, V. Fernandes, T. Raveendran, O. Raveendran, D. Sundar, C. Ravichandran, D. M. Shenoy, G.Mangesh, S.  Kurian, V.J. Jerson, S.D. Thottathil, N. V. Madhu, S. Sreekumar, P. A. Lokabharathi, S. R. Shetye.  2005. Current Science, 88 (4): 551-554.

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