Postdoctoral Appointee

Portrait of Peter Otoupal

 

Peter Otoupal's research is in the development of next-generation genome engineering technologies that expand our ability to alter non-model organisms. He works with promising but poorly characterized fungi with the ability to produce large quantities of biofuels and bioproducts, but which require engineering to achieve their potential. He utilizes Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) based technologies and explores novel ways they can be applied and further developed to engineer organisms as desired.

   

 

Education

Bachelor's Degree: Chemical Engineering with Honors, University of Texas at Austin Cockrell School of Engineering (2009-2013)

Master's Degree: Chemical and Biological Engineering, University of Colorado at Boulder College of Engineering & Applied Science (2013-2015)

Doctoral Degree: Chemical and Biological Engineering, University of Colorado at Boulder College of Engineering & Applied Science (2013-2018)

Postdoctoral Fellowship: Postdoctoral Appointee, Sandia National Laboratories (2018-Present)

Selected Publications

GR Abel, LE Korshoj, PB Otoupal, S Khan, A Chatterjee, P Nagpal. (2019) Nucleotide and structural label identification in single RNA molecules with quantum tunneling spectroscopy

LT Collins, PB Otoupal, JK Campos, CM Courtney, A Chatterjee. (2018) Design of a De Novo Aggregating Antimicrobial Peptide and a Bacterial Conjugation-Based Delivery System. Chemical Science

PB Otoupal, A Chatterjee. (2018) CRISPR gene perturbations provide insights for improving bacterial biofuel tolerance. Frontiers in bioengineering and biotechnology 6, 122

PB Otoupal, WT Cordell, V Bachu, MJ Sitton, A Chatterjee. (2018) Multiplexed deactivated CRISPR-Cas9 gene expression perturbations deter bacterial adaptation by inducing negative epistasis. Communications biology 1 (1), 129

DM Sagar, LE Korshoj, KB Hanson, PP Chowdhury, PB Otoupal, A Chatterjee, P Nagpal. (2018) High‐Throughput Block Optical DNA Sequence Identification. Small 14 (4), 1703165

KE Erickson, PB Otoupal, A Chatterjee. (2017) Transcriptome-level signatures in gene expression and gene expression variability during bacterial adaptive evolution. mSphere 2 (1), e00009-17

PB Otoupal, KE Erickson, A Escalas-Bordoy, A Chatterjee. (2016) CRISPR perturbation of gene expression alters bacterial fitness under stress and reveals underlying epistatic constraints. ACS synthetic biology 6 (1), 94-107

L Liu, K Markham, J Blazeck, N Zhou, D Leon, P Otoupal, HS Alper. (2015) Gene expression variability underlies adaptive resistance in phenotypically heterogeneous bacterial populations. Metabolic engineering 31, 102-111

KE Erickson, PB Otoupal, A Chatterjee. (2015) Gene expression variability underlies adaptive resistance in phenotypically heterogeneous bacterial populations. ACS infectious diseases 1 (11), 555-567

L Liu, K Markham, J Blazeck, N Zhou, D Leon, P Otoupal, HS Alper. (2015) Surveying the lipogenesis landscape in Yarrowia lipolytica through understanding the function of a Mga2p regulatory protein mutant. Metabolic engineering 31, 102-111

J Blazeck, A Hill, L Liu, R Knight, J Miller, A Pan, P Otoupal, HS Alper. (2014) Harnessing Yarrowia lipolytica lipogenesis to create a platform for lipid and biofuel production. Nature communications 5, 3131

J Blazeck, A Hill, L Liu, R Knight, J Miller, A Pan, P Otoupal, HS Alper. (2014) Increasing expression level and copy number of a Yarrowia lipolytica plasmid through regulated centromere function. Nature communications 5, 3131

L Liu, P Otoupal, A Pan, HS Alper. (2014) Increasing expression level and copy number of a Yarrowia lipolytica plasmid through regulated centromere function. FEMS yeast research 14 (7), 1124-1127

EM Quandt, MJ Hammerling, RM Summers, PB Otoupal, B Slater, RN Alnahhas, A Dasgupta, JL Bachman, MV Subramanian, JE Barrick. (2013) Decaffeination and measurement of caffeine content by addicted Escherichia coli with a refactored N-demethylation operon from Pseudomonas putida CBB5. ACS synthetic biology 2 (6), 301-307

Awards, Honors, and Memberships

STARS Symposium Best Presenter 3rd Place, University of Colorado Boulder (2017)

Graduate Research Fellowship, National Science Foundation (2015-2018)

iGEM Best Experimental Method, University of Texas at Austin (2012)

Undergraduate Poster Session Top Presenter Finalist, University of Texas at Austin (2012)

UROP Awardee, University of Texas at Austin (2012)

Robert and Ann Timmins Endowed Scholarship in Chemical Engineering Recipient, University of Texas at Austin (2012)

Cockrell School of Engineering College Scholar, University of Texas at Austin (2011)

Leaton Thomas Oliver Scholarship in Chemical Engineering Recipient, University of Texas at Austin, (2011)

Alternative Energy Challenge 1st Place, University of Texas at Austin (2009)

Selected Patent

US Patent Application No. 62/334,967. Chatterjee A, Otoupal PB. “Compositions and Methods for Altering Bacterial Fitness” (2016)