Lynd Research Lab: People | Daniel Olson

Daniel Olson

Daniel Olson

Research Scientist
Thayer School of Engineering
Dartmouth College

Group Leader
Metabolic Engineering
Lynd Lab

daniel.g.olson@dartmouth.edu

Education

  • BA, Physics, Dartmouth 2004
  • BE, Thayer 2006
  • PhD, Engineering Sciences, Dartmouth, 2011

Research Interests

Metabolic engineering of thermophilic anaerobic bacteria for ethanol production

  • Characterization of ethanol production pathway in Thermoanaerobacterium saccharolyticum
  • Transfer of this pathway to Clostridium thermocellum

Systems biology

  • Next gen sequencing (Illumina)
  • Transcriptomics using RNAseq
  • Proteomic analysis (in collaboration with ORNL)
  • Metabolomics (LC-MS)
  • 13C flux analysis
  • Metabolic flux analysis (using stoichiometry and matrices)

Genetic tool development

  • Development of temperature-sensitive plasmids
  • Promoter characterization
  • CRISPR-related tools for genetic manipulation

Teaching

Selected Publications

2017

  1. Hon, Shuen, Daniel G. Olson, Evert K. Holwerda, Anthony A. Lanahan, Sean J.L. Murphy, Marybeth I. Maloney, Tianyong Zheng, Beth Papanek, Adam M. Guss, and Lee R. Lynd. “The Ethanol Pathway from Thermoanaerobacterium saccharolyticum Improves Ethanol Production in Clostridium thermocellum.” Metabolic Engineering 42, no. June (July 2017): 175–84.
  2. Zheng, Tianyong, Daniel G. Olson, Sean J. Murphy, Xiongjun Shao, Liang Tian, and Lee R. Lynd. “Both adhE and a Separate NADPH-Dependent Alcohol Dehydrogenase Gene, adhA , Are Necessary for High Ethanol Production in Thermoanaerobacterium Saccharolyticum.” Edited by William W. Metcalf. Journal of Bacteriology 199, no. 3 (February 1, 2017): e00542-16. doi:10.1128/JB.00542-16.

  3. Zhou, Jilai, Xiongjun Shao, Daniel G. Olson, Sean Jean-Loup Murphy, Liang Tian, and Lee R. Lynd. “Determining the Roles of the Three Alcohol Dehydrogenases (AdhA, AdhB and AdhE) in Thermoanaerobacter Ethanolicus during Ethanol Formation.” Journal of Industrial Microbiology & Biotechnology, 2017. doi:10.1007/s10295-016-1896-6.

2016

  1. Lo, Jonathan, Daniel G. Olson, Sean Jean-Loup Murphy, Liang Tian, Shuen Hon, Anthony Lanahan, Adam M. Guss, and Lee R. Lynd. 2016. “Engineering Electron Metabolism to Increase Ethanol Production in Clostridium Thermocellum.” Metabolic Engineering, no. October. Elsevier: 1–9. doi:10.1016/j.ymben.2016.10.018.

  2. Tian, Liang, Jonathan Lo, Xiongjun Shao, Tianyong Zheng, Daniel G. Olson, and Lee R. Lynd. 2016. “Ferredoxin:NAD+ Oxidoreductase of Thermoanaerobacterium Saccharolyticum and Its Role in Ethanol Formation.” Edited by H. Atomi. Applied and Environmental Microbiology 82 (24): 7134–41. doi:10.1128/AEM.02130-16.

  3. Olson, Daniel G., Manuel Hörl, Tobias Fuhrer, Jingxuan Cui, Jilai Zhou, Marybeth I. Maloney, Daniel Amador-Noguez, Liang Tian, Uwe Sauer, and Lee R. Lynd. 2016. “Glycolysis without Pyruvate Kinase in Clostridium Thermocellum.” Metabolic Engineering. doi:10.1016/j.ymben.2016.11.011.

  4. Lynd, Lee R, Adam M Guss, Michael E Himmel, Dhananjay Beri, Chris Herring, Evert K. Holwerda, Sean Jean-Loup Murphy, Daniel G. Olson, Julie Paye, Thomas Rydzak, Xiongjun Shao, Liang Tian, Robert Worthen 2016. “Advances in Consolidated Bioprocessing Using Clostridium Thermocellum and Thermoanaerobacter Saccharolyticum.” In Industrial Biotechnology, edited by Christoph Wittmann and James C Liao, 1sted., 365–94. Weinheim, Germany: Wiley-VCH Verlag GmbH & Co. KGaA. doi:10.1002/9783527807796.ch10.

  5. Beri, Dhananjay, Daniel G. Olson, Evert K. Holwerda, and Lee R. Lynd. 2016. “Nicotinamide Cofactor Ratios in Engineered Strains of Clostridium Thermocellum and Thermoanaerobacterium Saccharolyticum.” FEMS Microbiology Letters 363 (11): fnw091. doi:10.1093/femsle/fnw091.

  6. Herring, Christopher D., William R. Kenealy, A. Joe Shaw, Sean F. Covalla, Daniel G. Olson, Jiayi Zhang, W. Ryan Sillers, et al. “Strain and Bioprocess Improvement of a Thermophilic Anaerobe for the Production of Ethanol from Wood.” Biotechnology for Biofuels 9, no. 1 (2016): 125. doi:10.1186/s13068-016-0536-8.

  7. Hon, Shuen, Anthony A Lanahan, Liang Tian, Richard J Giannone, Robert L Hettich, Daniel G Olson, and Lee R Lynd. 2016. “Development of a Plasmid-Based Expression System in Clostridium Thermocellum and Its Use to Screen Heterologous Expression of Bifunctional Alcohol Dehydrogenases (adhEs).” Metabolic Engineering Communications (3): 120–129.

  8. Shao, Xiongjun, Jilai Zhou, Daniel G Olson, and Lee R Lynd. 2016. “A Markerless Gene Deletion and Integration System for Thermoanaerobacter Ethanolicus.” Biotechnology for Biofuels 9: 100. doi:10.1186/s13068-016-0514-1.

  9. Tian, Liang, Beth Papanek, Daniel G. Olson, Thomas Rydzak, Evert K Holwerda, Tianyong Zheng, Jilai Zhou, et al. 2016. “Simultaneous Achievement of High Ethanol Yield and Titer in Clostridium Thermocellum.” Biotechnology for Biofuels (in press).

2015

  1. Zheng, Tianyong, Daniel G. Olson, Liang Tian, Yannick J. Bomble, Michael E. Himmel, Jonathan Lo, Shuen Hon, A. Joe Shaw, Johannes P. van Dijken, and Lee R. Lynd. 2015. “Cofactor Specificity of the Bifunctional Alcohol and Aldehyde Dehydrogenase (AdhE) in Wild-Type and Mutants of Clostridium Thermocellum and Thermoanaerobacterium Saccharolyticum.” Journal of Bacteriology 197 (May): JB.00232-15. doi:10.1128/JB.00232-15.

  2. Lo, Jonathan, Tianyong Zheng, Daniel G. Olson, Natalie Ruppertsberger, Shital A. Tripathi, Liang Tian, Adam M. Guss, and Lee R. Lynd. 2015. “Deletion of nfnAB in Thermoanaerobacterium Saccharolyticum and Its Effect on Metabolism.” Journal of Bacteriology 197 (4000115284): JB.00347-15. doi:10.1128/JB.00347-15.

  3. Olson, Daniel G, Richard Sparling, and Lee R Lynd. 2015. “Ethanol Production by Engineered Thermophiles.” Current Opinion in Biotechnology 33. Elsevier Ltd: 130–41. doi:10.1016/j.copbio.2015.02.006.

  4. Olson, Daniel G., Marybeth Maloney, Anthony A. Lanahan, Shuen Hon, Loren J. Hauser, and Lee R. Lynd. 2015. “Identifying Promoters for Gene Expression in Clostridium Thermocellum.” Metabolic Engineering Communications 2. Elsevier: 23–29. doi:10.1016/j.meteno.2015.03.002.

  5. Zhou, Jilai, Daniel G Olson, Anthony A Lanahan, Liang Tian, Sean Jean-Loup Murphy, Jonathan Lo, and Lee R Lynd. 2015. “Physiological Roles of Pyruvate Ferredoxin Oxidoreductase and Pyruvate Formate-Lyase in Thermoanaerobacterium Saccharolyticum JW/SL-YS485.” Biotechnology for Biofuels 8 (1). BioMed Central: 138. doi:10.1186/s13068-015-0304-1.

  6. Lo, Jonathan, Tianyong Zheng, Shuen Hon, Daniel G. Olson, and Lee R. Lynd. 2015. “The Bifunctional Alcohol and Aldehyde Dehydrogenase Gene, adhE , Is Necessary for Ethanol Production in Clostridium Thermocellum and Thermoanaerobacterium Saccharolyticum.” Edited by W. W. Metcalf. Journal of Bacteriology 197 (8): 1386–93. doi:10.1128/JB.02450-14.

2013

  1. Zhou, Jilai, Daniel G Olson, D Aaron Argyros, Yu Deng, Walter M van Gulik, Johannes P van Dijken, and Lee R Lynd. 2013. “Atypical Glycolysis in Clostridium Thermocellum.” Applied and Environmental Microbiology 79 (9): 3000–3008. doi:10.1128/AEM.04037-12.

  2. Waller, Benjamin H, Daniel G Olson, Devin H Currie, Adam M Guss, and Lee R Lynd. 2013. “Exchange of Type II Dockerin-Containing Subunits of the Clostridium Thermocellum Cellulosome as Revealed by SNAP-Tags.” Journal Article. FEMS Microbiology Letters 338 (1): 46–53. doi:10.1111/1574-6968.12029.

  3. Deng, Yu, Daniel G Olson, Jilai Zhou, Christopher D Herring, A Joe Shaw, and Lee R Lynd. 2013. “Redirecting Carbon Flux through Exogenous Pyruvate Kinase to Achieve High Ethanol Yields in Clostridium Thermocellum.” Metabolic Engineering 15 (January). Elsevier: 151–58. doi:10.1016/j.ymben.2012.11.006.

  4. Olson, Daniel G, Richard J Giannone, Robert L Hettich, and Lee R Lynd. 2013. “Role of the CipA Scaffoldin Protein in Cellulose Solubilization, as Determined by Targeted Gene Deletion and Complementation in Clostridium Thermocellum.” Journal Article. Journal of Bacteriology 195 (4): 733–39. doi:10.1128/jb.02014-12.

2012

  1. Olson, Daniel G, and Lee R Lynd. 2012. “Chapter Seventeen - Transformation of Clostridium Thermocellum by Electroporation.” Book Section. In Methods in Enzymology, edited by Harry J Gilbert, Volume 510:317–30. Academic Press. doi:10.1016/b978-0-12-415931-0.00017-3.

  2. Olson, Daniel G, and Lee R Lynd. 2012. “Computational Design and Characterization of a Temperature Sensitive Plasmid Replicon for Gram Positive Thermophiles.” Journal Article. Journal of Biological Engineering 6 (1): 5. doi:10.1186/1754-1611-6-5.

  3. Guss, Adam M, Daniel G Olson, Nicky C Caiazza, and Lee R Lynd. 2012. “Dcm Methylation Is Detrimental to Plasmid Transformation in Clostridium Thermocellum.” Journal Article. Biotechnology for Biofuels 5 (1): 30. doi:10.1186/1754-6834-5-30.

  4. Olson, Daniel G, John E McBride, A Joe Shaw, and Lee R Lynd. 2012. “Recent Progress in Consolidated Bioprocessing.” Journal Article. Current Opinion in Biotechnology 23 (3). Elsevier Ltd: 396–405. doi:10.1016/j.copbio.2011.11.026.

2011

  1. Argyros, D Aaron, Shital A Tripathi, Trisha F Barrett, Stephen R Rogers, Lawrence F Feinberg, Daniel G Olson, Justine M Foden, et al. 2011. “High Ethanol Titers from Cellulose by Using Metabolically Engineered Thermophilic, Anaerobic Microbes.” Journal Article. Applied and Environmental Microbiology 77 (23): 8288–94. doi:10.1128/AEM.00646-11.

2010

  1. Olson, Daniel G, Shital A Tripathi, Richard J Giannone, Jonathan Lo, Nicky C Caiazza, David A Hogsett, Robert L Hettich, Adam M Guss, Genia Dubrovsky, and Lee R Lynd. 2010. “Deletion of the Cel48S Cellulase from Clostridium Thermocellum.” Journal Article. Proceedings of the National Academy of Sciences of the United States of America 107 (41): 17727–32. doi:10.1073/pnas.1003584107.

  2. Tripathi, Shital A, Daniel G Olson, D Aaron Argyros, Bethany B Miller, Trisha F Barrett, Daniel M Murphy, Jesse D McCool, et al. 2010. “Development of pyrF-Based Genetic System for Targeted Gene Deletion in Clostridium Thermocellum and Creation of a Pta Mutant.” Journal Article. Applied and Environmental Microbiology 76 (19): 6591–99. doi:10.1128/AEM.01484-10.

Professional Activities

  • Activity lead in the BioEnergy Science Center
  • Member of the International Metabolic Engineering Society (IMES)