Faculty Profile

Curriculum Vitae

Kostas T. Konstantinidis

Carlton S. Wilder Junior Faculty Professorship & Associate Professor
Environmental Engineering
EST 3224


  • PhD, Crop and Soil Sciences, Michigan State University, USA, 2004.
  • BS, Agricultural Sciences, Aristotle University of Thessaloniki, Greece, 1999.

Dr. Kostas Konstantinidis joined the Georgia Institute of Technology as an Assistant Professor in November 2007. He received his BS in Agriculture Sciences from the Aristotle University of Thessaloniki (Greece) in 1999. He continued his studies at the Center for Microbial Ecology at Michigan State University (East Lansing, MI) under the supervision of Prof. James M. Tiedje, where he obtained a PhD in 2004. His PhD studies were fully supported by the Bouyoukos Fellowship program and were devoted in advancing our understanding of the ecology and physiology of soil bacteria through the comparative analysis of their whole-genome sequences. This research resulted in a NSF-funded project to advance the species definition for prokaryotes, which also fostered a short post-doc position at the Center for Microbial Ecology. He then moved to MIT and the laboratory of Prof. Edward DeLong to get trained on innovating metagenomic techniques. His work at MIT provided important new insights into the complexity and function of oceanic microbial communities as well as how life is adapting in the deep and cold Oceans. His research interests are at the interface of genomics and computational biology in the context of microbial ecology with the overarching goal to broaden understanding of the genetic and metabolic potential of the microbial world. Advancing our knowledge on these issues is essential for a better understanding of the microbes that power, by and large, the biogeochemical cycles that sustain life on Earth and cause or control important diseases in humans and animals. He is a member of the American Society for Microbiology (ASM), the International Society for Microbial Ecology (ISME) and the Association of Environmental Engineering and Science Professors (AEESP).


  • Environmental microbiology and genomics
  • Computational approaches for studying the ecology and evolution of microorganisms
  • Development of genomic and proteomic techniques to investigate and quantify in-situ important microbial-mediated processes
  • Population and single-cell genomics
  • Assessing the extent and value of biodiversity within natural assemblages of Bacteria and Archaea
  • Biotechnological applications of microbial functional diversity
  • Environmental relevance of microbial diseases


  • 2014: CEE Research Innovation Award.
  • 2014: Kavli Frontiers of Science Fellow.
  • 2013: CEE Excellence in Research Program Development Award.
  • 2012: Appointed to the Carlton S. Wilder Junior Chair in Environmental Engineering.
  • 2012: Recipient of the Sigma Xi Young Faculty Research Award (Sigma Xi’s Georgia Tech Branch).
  • 2011: Recipient of the CEE Faculty Research Excellence Award (Georgia Tech)
  • 2010: Recipient of the International Skerman Award for Microbial Taxonomy (www.wfcc.info).
  • 2010: Nominated for the Packard Fellowships for Science and Engineering by the Georgia Institute of Technology (www.packard.org).
  • 2007: Distinguished Scientist Abroad Award. Hellenic National Defense General Staff, Athens, Greece.
  • 2000-2003: Recipient of the Bouyoukos Fellowship.


  • S. Oh*, Z. Kurt, D. Tsementzi*, M. R. Weigand*, M. Kim*, J. K. Hatt, M. Tandukar, S. G. Pavlostathis, J. C. Spain, and K. T. Konstantinidis. Microbial community degradation of widely used quaternary ammonium disinfectants. Applied and Environmental Microbiology (2014). 80(19):5892-900.
  • H. L. Orellana*, L. M. Rodriguez-R.*, S. Higgins, J. C. Chee-Sanford, R. A. Sanford, K. M. Ritalahti, F. E. Löffler, and K. T. Konstantinidis. Detecting nitrous oxide reductase (NosZ) genes in soil metagenomes: method development and implications for the nitrogen cycle. MBio (2014). Jun 3;5(3):e01193-14.
  • R. Poretsky*, L. M. Rodriguez-R*, C. Luo*, D. Tsementzi*, and K. T. Konstantinidis. Strengths and limitations of 16S rRNA gene amplicon sequencing in revealing temporal microbial community dynamics. PLoS One (2014). Apr 8;9(4):e93827.
  • L. M. Rodriguez-R*, and K. T. Konstantinidis. Bypassing cultivation to identify bacterial species. ASM Microbe Magazine (2014). March issue.
  • C. Luo*, L. M. Rodriguez-R*, and K. T. Konstantinidis. MyTaxa: an advanced taxonomic classifier for genomic and metagenomic sequences. Nucleic Acids Research (2014). Apr;42(8):e73.
  • K. Konstantinidis and E. Stackebrandt. Defining taxonomic ranks. In The Prokaryotes. M.Dworkin et al (Eds.). New York: Springer-Verlag. To appear in 2013.
  • K. T. Konstantinidis. Metagenomic insights into bacterial species. In Handbook of Molecular Microbial Ecology II: Metagenomics in Different Habitats. Frans J. de Bruijn editor. John Wiley & Sons, Inc. Hoboken, New Jersey, USA. 2011.
  • J. Cole, K. T. Konstantinidis, R. J. Farris, and J. M. Tiedje. Microbial diversity and phylogeny: extending from rRNAs to genomes. In Environmental Molecular Biology. WT. Liu and J. Jansson (eds). Horizon Scientific Press. Norwich, UK. 2009.
  • K. T. Konstantinidis, and J. M. Tiedje. Microbial diversity and genomics. In Microbial Functional Genomics. J. Zhou, D. K. Thompson, Y. Xu, and J. M. Tiedje (eds.) John Wiley & Sons. Hoboken, New Jersey, 2004, pg. 21-46.
  • K. Konstantinidis. Pesticide residues in cucumber crops in Northern Greece (in Greek). In Integrated management of disease and pest of plants. Aristotle University of Thessaloniki, 2000. (Book series on sustainable agriculture sponsored by the European Union).
  • Konstantinidis K. T., and J. M. Tiedje. 2004. Modeling DNA microarray performance for genetic studies. 104th American Society for Microbiology, General Meeting, May 23-27, 2004, New Orleans, LA, USA.
  • Konstantinidis K. T., and J. M. Tiedje. 2004. Genomic insights to advance the bacterial species concept. Genomes 2004, April 14-17, Hinxton Cambridgeshire, UK.
  • Konstantinidis K. T., and J. M. Tiedje. 2004. Trends between gene content and genome size in prokaryotic species. 102nd American Society for Microbiology, General Meeting, May 18-22, 2003, Washington, DC, USA.
  • Konstantinidis K. T., N. Isaacs, S. Simpson, D. Long, and T. L. Marsh. 2001. Characterization of copper-resistant bacteria from a contaminated superfund site. 101st American Society for Microbiology, General Meeting, May 20-24, 2001, Orlando, Fl, USA.
  • M.J. Soto-Giron*, J. Santo Domingo, and K. T. Konstantinidis. Metagenomic analysis of shower biofilms from hospitals. Poster Presentation in the 9th International Conference "Genome Biology and Bioinformatics”. Georgia Institute of Technology. November 7-9, 2013. Atlanta, GA, USA.
  • K. T. Konstantinidis, E. R. Johnston*, C. Luo*, L. M. Rodriguez-R*, L. Wu, S. Zhou, K. Xue, Z. He, M. Yuan, Y. Luo, E. A. G. Schuur, J. R. Cole, J. M. Tiedje, and J. Zhou. Expanding the toolkit for comparative metagenomics, implementing it in K-Base, and applying it to the study of the effects of experimental warming in Midwestern and Alaskan soils. 12th Annual Genomic Science Contractor-Grantee Meeting. February 10-12, 2014. Washington D.C., USA.
  • M. J. Soto-Giron*, J. Santo Domingo, and K. T. Konstantinidis. Metagenomic analysis of shower biofilms from hospital in Ohio. Poster Presentation in the 114th General meeting of the American Society for Microbiology. May 17-20, 2014. Boston, MA, USA.
  • M. R. Weigand*, K. T. Konstantinidis, N. J. Ashbolt, and J. W. Santo Domingo. Genome sequencing of environmental Enterococcus faecalis reveals the signature of gut colonization and biomarkers for improved water quality monitoring. In the 114th American Society for Microbiology, General Meeting. May 17-21. Boston, MA, USA.
  • G. M. Maresca*, M. R. Weigand*, R. Krishnan*, J. C. Spain, and K. T. Konstantinidis. Assessing the role of the rare biosphere in microbial community response to perturbation. In the 114th American Society for Microbiology, General Meeting. May 17-21. Boston, MA, USA.