Publications

 

Read through a selection of Peer-reviewed Journal publications from the Bundy lab.  Articles date from 2008 to the present and include a Google Scholar profile as well as an index of student and faculty conference contributions ranging from papers submitted to presentations given.


Google Scholar Profile


Peer-reviewed Journal Articles

A selection of peer-reviewed journal articles.

Graduate Students –  Undergraduate Students – * Equal Contribution of Authors


2017

 

Salehi ASM, Shakali Tang MJ, Smith MT, Hunt JM, Law RA, Wood DW, Bundy BC. 2017.
A Cell-free Protein Synthesis Approach to Biosensign hTRBSpecific Endocrine Disruptors
Analytical Chemistry. 89(6):3395-3401.

 

 

Schinn SM, Bradley W, Groesbeck A, Wu J, Broadbent, A, Bundy BC. 2017.
Rapid In Vitro Screening for the Location-Dependent Effects of Unnatural Amino Acids on Protein Expression and Activity
Biotechnology and Bioengineering. DOI: 10.1002/bit.26305 Download Article.

 

 

Salehi ASM, Smith MT, Schinn SM, Hunt JM, Muhlestein C, Diray‐Arce J, Nielson BLBundy BC. 2017.
Efficient tRNA Degradation and Quantification in Escherichia Coli Cell Extract Using RNase‐Coated Magnetic Beads: A Key Step Towards Codon Emancipation
Biotechnology Progress. DOI: 10.1002/btpr.2511 Download Article.

 

Hunt JP, Yang SO, Wilding KMBundy BC. 2017.
The growing impact of lyophilized cell-free protein expression systems.
Bioengineered. 8(4):325-330. Download Article.

 

 

Earl CC, Smith MT, Lease RA, Bundy Polyvinylsulfonic Acid: A Low-Cost RNase Inhibitor For Enhanced RNA Preservation And Cell-Free Protein Translation
Bioengineered, 1-8. DOI: 10.1080/21655979.2017.1313648 Download Article.

 


2016

Salehi ASM*, Smith MT*, Bennett AM, Williams JB, Pitt WG, Bundy BC. 2016.
Cell-free protein synthesis of a cytotoxic cancer therapeutic: Onconase production and a just-add-water cell-free system.
Biotechnology Journal. 11(2): 274-281. Download Article

 

Schinn SM, Broadbent A, Bradley WTBundy BC. 2016.
Protein Synthesis Directly from PCR: Progress and Applications of Cell-free Protein Synthesis with Linear DNA.
New Biotechnology. 33(4):480-487.

 

 

Salehi ASM, Earl CC, Muhlestein C, Bundy BC. 2016.
Escherichia coli-based Cell-free Extract Development for Protein-based Cancer Therapeutic Production.
International Journal of Developmental Biology. 60:237-243.

 

 

Poornejad N, Momtahan N, Salehi ASM, Scott D, Fronk C, Roeder BL; Reynolds PR, Bundy BC, Cook AD. 2016.
Optimized decellularization of whole porcine kidneys improves reseeded cell behavior.
Biomedical Materials. 11(2): 025003.

 

 


2015

10.1002-btpr.v30.6Smith MT,  Bennett AM, Hunt JM, Bundy BC. 2015.
Creating a Completely “Cell-free” System for Protein Synthesis.
Biotechnology Progress. 31(6):1716-1719. Download Article

 

 

Wu JC1-s2.0-S0168165614X00234-cov150h, Hutchings CH, Lindsay MJ, Werner CJ, Bundy BC. 2015.
Enhanced Enzyme Stability Through Site-Directed Covalent Immobilization.
Journal of Biotechnology. 193(1):83-90. Download Article

 

 


2014

1-s2.0-S0014579314X00165-cov150h

Smith MT, Wilding KM, Hunt JM, Bennett AM, Bundy BC. 2014.
The Emerging Age of Cell-free Synthetic Biology.
FEBS Letters. 588(15):2755-2761. Download Article

 

 

1-s2.0-S0264410X14X00290-cov150hSmith MT, Bennett AM, Grubman MJ, Bundy BC. 2014.
Foot and Mouth Disease: Technical and Political Challenges to Eradication.
Vaccine. 32(31):3902-3908. Download Article

 

 

BioTechniques October 2009Smith MT, Berkheimer SD, Werner CJ, Bundy BC. 2014.
Lyophilized Escherichia coli-based Cell-free Systems for Robust, High-density, Long-term Storage.
Biotechniques. 56(4):186-193. Download Article

 

 

1-s2.0-S1871678413X00068-cov150hShrestha P*, Smith MT*, Bundy BC. 2014.
Cell-free Unnatural Amino Acid Incorporation with Alternative Energy Systems and Linear Expression Templates.
New Biotechnology. 31(1):28-34. Download Article

 

 

1-s2.0-S1359511314X00024-cov150hSmith MT, Hawes AK, Shrestha P, Rainsdon JM, Wu JC, Bundy BC. 2014.
Alternative Fermentation Conditions for Improved Escherichia coli-based Cell-free Protein Synthesis Requiring Supplemental Components for Proper Synthesis.
Process Biochemistry. 49(2):217-222. Download Article

 


2013

1-s2.0-S0958166913X00047-cov150hSmith MT, Hawes AK, Bundy BC. 2013.
Reengineering Viruses and Virus-like Particles through Chemical Functionalization Strategies.
Current Opinion in Biotechnology. 24(4):620-626.

 

 

download (1)Arnaz KR, Wu JC, Bundy BC, Jewett MC. 2013.
Transforming Synthetic Biology with Cell-free Systems. In Synthetic Biology: Tools and Applications.
Zhao H, Ed. Elsevier Inc. Publication Date: June 15, 2013.

 

 

10.1002-btpr.v30.6Wu JC*, Smith MT*, Varner CT, Bundy BC. 2013.
Enhanced protein stability through minimally-invasive, direct, covalent and site-specific immobilization.
Biotechnology Progress. 29(1):247-254.

 


2012

imagesShrestha P, Holland T, Bundy BC. 2012.
Streamlined extract preparation for Escherichia coli-based cell-free protein synthesis by sonication or bead vortex mixing.
BioTechniques. 53(3):163-174. Download Article

 

 

10.1002-btpr.v30.6Varner CT*, Smith MT*, Bush DB, Bundy BC. 2012.
The incorporation of A2 protein to produce novel Qbeta virus-like particles using cell-free protein synthesis.
Biotechnology Progress. 28(2):549-555.

 


2011

1-s2.0-S0168165614X00234-cov150hBundy BC, Swartz JR. 2011.
Efficient disulfide bond formation in virus-like particles.
Journal of Biotechnology. 154(4):230-239.

 

 


2010

bcches_v022i010-225x300Bundy BC, Swartz JR. 2010.
Site-specific incorporation of p-propargyloxyphenylalanine in a cell-free environment for direct protein-protein click conjugation.
Bioconjugate Chemistry. 21(2):255-263.

 

 


2008

coverBundy BC, Swartz JR. 2008.
Escherichia coli-based cell-free protein synthesis of virus-like particles.
Biotechnology and Bioengineering. 100(1):28-37.

 

 

Bundy BC, Hales HB. 2008.
A streamline reservoir simulator with dynamic gridding.
Journal of Canadian Petroleum Technology. 47(3):32-38.

 


 Issued Patent

Bundy BC, Swartz JR, Wei C. 2012.
Encapsidation of Heterologous Agents into Virus-like Particles.
U.S. Patent No.: 8,324,149.

 


Google Scholar Profile

 

NCBI Bibliography



 

Conference Papers and Presentations

Salehi SM, Smith MT, Bennett AM, Bundy BC.
Cell-Free Protein Synthesis: A Dynamic Platform for Rapid Screening and Production of Cytotoxic Cancer Biotherapeutics.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2015.

Yang SO, Bundy BC.
Enzyme Encapsulation Using Cell Free Protein Synthesis.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2015.

Schinn SM, Stanley SK, Groesbeck A, Wilding KM, Wu JC, Bundy BC.
Rewriting the Language of Biology: Unnatural Amino Acids Incorporation at Sense Codons Using Cell-Free System.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2015.

Wilding KM, Bundy BC.
Rationally Engineering Post-Translational Protein Pegylation for Improved Stability and Function.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2015.

Salehi SM, Smith MT, Hunt JM, Bundy BC.
Rapid, High-Throughput Screening of Proteins with Non-Canonical Residues Using Cell-Free Protein Synthesis.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2015.

Muhlestein C, Smith MT, Bundy BC.
Streamlined Production of Cell-free Protein Synthesis Reactions Using Auto-induction Media.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2015. (1st Place Student Poster Award)

Earl CC, Smith MT, Bundy BC.
RNase Inhibitors for In Vitro Biology.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2015. (poster)

Christian ML, Smith MT, Berkheimer SD, Werner CJ, Bundy BC.
Lyophilized Escherichia Coli-Based Cell-Free Systems For Robust, High-Density, Long-Term Storage.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2015. (poster)

Broadbent A, Bundy BC.
Using Sacrificial DNA to Improve LET-Based CFPS Protein Yields.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2015.

Bundy BC.
Enhanced Protein Stability Through Site-Directed Covalent Immobilization.
Biostability Seminar. US Army Natick Soldier Research, Development and Engineering Center. Natick, MA. Sep 2015. (Invited)

Bundy BC.
Biochemical Engineering: Engineering is What Can Be. Pre-freshman Engineering Program.
Utah Valley University. Orem, UT. Jul 2015. (Invited)

Bundy BC.
Cell-free Synthetic Biology Meets Terraforming.
DARPA Biocomplexity Seminar. Arlington, VA. June 2015. (Invited)

Wilding KM, Bundy BC.
Rational Engineering of Protein Stability for Potential Applications as Detectors in NASA Space Missions.
21st Annual Utah Space Grant Consortium Fellowship Symposium. Salt Lake City, UT. May 2015.

Earl C, Bundy BC.
In vitro Cell-free Synthetic Biology Techniques for Optimizing Protein Yields.
Utah Conference on Undergraduate Education. Dixie State University, St. George, UT. Feb 2015.

Ford H, Bundy BC.
Economical Rapid Production of Therapeutic Proteins using Cell-free Protein Synthesis.
Utah Conference on Undergraduate Education. Dixie State University, St. George, UT. Feb 2015.

Stanley S, Bundy BC.
Expanding the Genetic Code through Simultaneous Insertion of Unnatural Amino Acids.
Utah Conference on Undergraduate Education. Dixie State University, St. George, UT. Feb 2015.

Linney B, Bundy BC.
Optimization of the pET9a Vector.
Utah Conference on Undergraduate Education. Dixie State University, St. George, UT. Feb 2015.

Bundy BC.
The Emerging Impact of Cell-free Synthetic Biology.
Chemistry and Biochemistry Seminar at Georgia Tech. Atlanta, GA. Feb 2015. (Invited)

Bundy BC, Smith MT, Hunt JM, Schinn SM, Salehi SM, Broadbent A.
Reengineering the genetic code to Expand the Language of Biology using a Cell-free Synthetic Biology Approach.
5th International Conference on Biomolecular Engineering. Austin, TX. Jan 2015. (poster)

Bundy BC.
Going Beyond Demonstratiosn to “Chose Your Own Advernture” Engineering Experiences.
American Institute of Chemical Engineers Annual Meeting. Atlanta, GA. Nov 2014.

Smith MT, Berkheimer SD, Werner CJ, Bundy BC.
Lyophilized Cell-free Systems for Robust, Modular Protein Expression.
American Institute of Chemical Engineers Annual Meeting. Atlanta, GA. Nov 2014. (poster)

Wu JC, Hutchings CH, Lindsay MJ, Werner CJ, Bundy BC.
The Impact of Protein Residue-explicit Covalent Immobilization for Stability Enhancement (PRECISE) on Enzyme Biocatalysis.
American Institute of Chemical Engineers Annual Meeting. Atlanta, GA. Nov 2014.

Smith MT, Hunt JM, Bundy BC.
Rewriting the Proteomic Alphabet in Cell-free Systems.
American Institute of Chemical Engineers Annual Meeting. Atlanta, GA. Nov 2014.

Bundy BC.
Development of Technology for an Expanded Genetic code.
BioUtah: Utah Life Science Summit. Salt lake City, UT. Nov 2014 (poster)

Bennet AM, Smith MT, Bundy BC.
Engineering Novel Vaccines for Foot-and-Mouth Disease.
Emerging Ideas in Biomedical Research. Provo, UT. Oct 2014. (poster)

Lindsay MJ, Wu JC, Bundy BC.
Analyzing Protein Activity and Stability Using a High-Throughput Linear Expression Template System.
Emerging Ideas in Biomedical Research. Provo, UT. Oct 2014. (poster)

Bundy BC.
Advances in Cell-free Synthetic Biology based Expansion of the Genetic code.
DARPA YFA Review. Arlington, VA. Oct 2014 (poster) (Invited)

Bundy BC.
Biochemical Engineering: Engineering is What Can Be.
Pre-freshman Engineering Program. Utah Valley University. Orem, UT. Jul 2014.

Bundy BC.
Advances in Expanding the Language of Biology with Cell-free Synthetic Biology.
DARPA Living Foundries Program Review. Denver, CO. Jun 2014.

Hunt JM, Shrestha P, Smith MT, Bundy BC.
Cell-free Unnatural Amino Acid-Incorporation using Linear Expression Templates.
Utah Conference on Undergraduate Education. Brigham Young University. Provo, UT. Feb 2014.

Bennett AM, Smith MT, Bundy BC.
Foot-and-Mouth Disease Vaccine: Technical and Political Challenges to Vaccine-based Eradication.
Utah Conference on Undergraduate Education. Brigham Young University. Provo, UT. Feb 2014.

Lindsay MJ, Wu JC, Bundy BC.
A High-throughput Linear Expression Template System for Analyzing Protein Activity and Stability.
Utah Conference on Undergraduate Education. Brigham Young University. Provo, UT. Feb 2014.

Hutchings CH, Wu JC, Bundy BC.
Immobilizing Biocatalysts onto Surfaces.
Utah Conference on Undergraduate Education. Brigham Young University. Provo, UT. Feb 2014.

Smith MT (Smith MT advised by Bundy BC).
Cell-free Technologies: Protein Expression, Synthetic Biology, and Nanotechnology.
Roche Diagnostics, Protein Engineering Division, Penzberg, Germany. Feb 2014.

Bundy BC.
A Golden Age for Cell-free Synthetic Biology.
Cell-free Protein Synthesis 4th Annual International Status Seminar. Fraunhofer Institute for Biomedical Engineering. Postdam, Germany. Jan 2014

Smith MT, Bundy BC.
Freeze-dried Escherichia coli-based Cell-free Systems – Just Add Water.
Cell-free Protein Synthesis 4th Annual International Status Seminar. Fraunhofer Institute for Biomedical Engineering. Postdam, Germany. Jan 2014

Bundy BC.
Expanding the Language of Biology with Cell-free Synthetic Biology.
DARPA Living Foundries Meeting. La Jolla, CA. Jan 2014.

Bundy BC.
Cell-free Living Foundry.
DARPA Living Foundries Meeting. La Jolla, CA. Jan 2014.

Bundy BC.
Building the Community Through Service Learning: Assessing the Effect of Service-Learning Group Projects On Intrinsic Motivation, Depth of Understanding, and Leadership Development During a Junior-Level Core Chemical Engineering Class.
American Institute of Chemical Engineers Annual Meeting. San Francisco, CA. Nov 2013.

Smith MT, Bundy BC.
Engineering Virus-Based Nanoparticles As Adjustable Platforms for High-Density Site-Directed Decoration.
American Institute of Chemical Engineers Annual Meeting. San Francisco, CA. Nov 2013.

Wu JC, Smith MT, Werner C, Bundy BC.
Evaluating the Effect of Attachment Orientation On the Activity and Stability of Immobilized Enzymes.
American Institute of Chemical Engineers Annual Meeting. San Francisco, CA. Nov 2013.

Smith MT, Hawes AK, Rainsdon JM, Shrestha P, Bundy BC.
High-Yielding Escherichia Coli-Based Cell-Free Protein Synthesis of Commercially Relevant Proteins.
American Institute of Chemical Engineers Annual Meeting. San Francisco, CA. Nov 2013.

Bundy BC.
Cell-free Synthetic Biology.
United States Air Force Academy. Colorado Springs, CO. Oct 2013.

Smith MT, Bundy BC.
Developing Virus-based Nanoparticles as Potent Diagnostic Tools.
19th Annual Utah Space Grant Consortium Fellowship Symposium. Salt Lake City, UT. May 2013.

Rainsdon JM, Smith MT, Hawes AK, Shrestha P, Bundy BC.
A Cell-free Engineered Approach to Economical Synthetic Biology.
Pacific Northwest AIChE Regional Conference. Montana State University, MT. Apr 2013.

Bundy BC, Wu JC, Smith MT, Varner CT.
Enzyme Biocatalysis Orientation Control During Immobilization by Unnatural Amino Acid Incorporation.
American Institute of Chemical Engineers Annual Meeting. Pittsburgh, PA. Oct 2012.

Smith MT, Varner CT, Burnham MA, Rainsdon JM, Bundy BC.
Developing Novel Virus-Like Particles As Tunable, Targetable Reporter Platforms.
American Institute of Chemical Engineers Annual Meeting. Pittsburgh, PA. Oct 2012.

Shrestha P, Holland T, Bundy BC.
Economical Cell Lysis Technique Optimized for Cell-free Protein Synthesis.
Emerging Ideas in Biomedical Research. Provo, UT. Oct 2012.

Wu JC, Smith MT, Werner CJ, Fredline G, Mayberry T, Winegar J, Bundy BC.
Optimized Biocatalysts through Enzyme Immobilization.
Emerging Ideas in Biomedical Research. Provo, UT. Oct 2012.

Winegar J, Smith MT, Varner CT, Bundy BC.
Developing Engineered Virus Nanoparticles for Tunable, Targetable Platforms.
Emerging Ideas in Biomedical Research. Provo, UT. Oct 2012.

Bundy BC.
Widening Student Education Beyond the Text: Where did the equations come from and how will you find them if you sell back your book.
American Society for Engineering Education 2012 Chemical Engineering Summer School. Orono, ME. Jul 2012.

Shrestha P, Holland T, Bundy BC.
Economical Cell Lysis Techniques Optimized for Cell-free Protein Synthesis.
National Conference of Undergraduate Research. Ogden, UT. Mar 2012.

Bush DB, Herdegen SS, Nickolaisen J, Varner CT, Werner CJ, Wu JC, Bundy BC.
Enhancing in vitro Production of Proteins Utilizing Linear DNA Templates.
National Conference of Undergraduate Research. Ogden, UT. Mar 2012.

Chidsey P, Smith MT, Wu JC, Bundy BC.
Enzyme Immobilization for Enzyme Catalyzed Reaction Engineering.
National Conference of Undergraduate Research. Ogden, UT. Mar 2012.

Bundy BC, Smith MT, Varner CT.
A Cell-Free Approach to Optimized Production and Self-Assembly of Novel Monodisperse Virus-Based Nanoparticles.
American Institute of Chemical Engineers Annual Meeting. Minneapolis, MN. Oct 2011.

Bundy BC.
Encouraging Students to Critically Think About the Origins and Assumptions Behind Heat and Mass Transfer Convection Coefficient Correlations Through a Simple Demonstration.
American Institute of Chemical Engineers Annual Meeting. Minneapolis, MN. Oct 2011.

Smith MT, Varner CT, Bundy BC.
Cell-free Synthesis of a Novel Virus-like Particle for Future Bioimaging Applications.
Annual Utah Biomedical Engineering Conference. Univ. of Utah, UT. Sept 2011.

Wu JC, Bundy BC.
Reaction Condition Optimization of the “Click Reaction” in a Crude Cell Lysate.
Annual Utah Biomedical Engineering Conference. Univ. of Utah, UT. Sept 2011.

Shrestha P, Bundy BC.
Cost Effective Incorporation of Unnatural Amino acid in a Cell-Free Protein Synthesis System.
Annual Utah Biomedical Engineering Conference. Univ. of Utah, UT. Sept 2011.

Varner CT, Smith MT, Bundy BC.
Cell-free Protein Synthesis Based Production of the Qbeta Virus-like Particle Incorporating the A2 Protein.
Annual Utah Biomedical Engineering Conference. Univ. of Utah, UT. Sept 2011.

Hawes AK, Varner CT, Swenson JM, Bundy BC.
Eukaryotic Post-translational Modification in Prokaryotic-based Cell-free Protein Synthesis.
Utah Conference on Undergraduate Research. Weber State Univ., UT. Feb 2011.

Varner CT, Bush DB, Smith MT, Bundy BC.
Evaluation of Inserting a Single A2 protein into Virus-Like Particles of the Q-beta Bacteriophage.
Utah Conference on Undergraduate Research. Weber State Univ., UT. Feb 2011.

Bundy BC, and Swartz JR.
Production of Robust Virus-Like Particles via Disulfide-Bond Cross-Linking.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2010.

Bundy BC, Swartz JR.
Stability and Functionality of Site-Specific Protein-Protein Conjugation Products formed with “Click” Chemistry.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2010.

Bush DB, Varner CT, Barfuss DC, Swenson JM, Bundy BC.
Advances Toward the Incorporation of a Single Unique Protein Into Virus-Like Particles.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2010.

Katz A, Swenson JM, Bush DB, Bundy BC.
Evaluation of Myristoylation for Post-Translational Modification in a Coupled Transcription/Translation Protein Synthesis Environment.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2010.

Wu JC, Varner CT, Bundy BC.
Optimization of the Fluorogenic Copper(I)-Catalyzed 1,3-Dipolar Cycloaddition (“Click”) Reaction in a Crude Cell Lysate.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2010.

Bundy BC, Swartz JR.
A Cell-Free Approach to Engineering the Site-Specific Incorporation of Unnatural Amino Acids for Direct Protein-Protein Conjugation.
American Institute of Chemical Engineers Annual Meeting. Nashville, TN. Nov 2009

Bundy BC, Swartz JR.
Cell-Free Protein Synthesis and Self-Assembly Of Complex Virus-Like Particles.
American Institute of Chemical Engineers Annual Meeting. Salt Lake City, UT. Nov 2007.

Bundy BC, Swartz JR.
High Yielding Cell-free Synthesis of Virus-like Particles.
Stanford Engineering Fair. Stanford, CA. Jan 2007.

Bundy BC, Goerke AR, Swartz JR.
E. Coli-Based Cell-Free Protein Synthesis of Virus-like Particles.
American Institute of Chemical Engineers Annual Meeting. San Francisco, CA. Nov 2006.

Bundy BC, Swartz JR.
Virus-like Particle Production Utilizing Prokaryotic Cell-free Protein Synthesis.
American Chemical Society 232nd National Meeting. San Francisco, CA. Sep 2006.

Bundy BC, Hales HB.
A Streamline Reservoir Simulator with Dynamic Gridding.
Canadian International Petroleum Conference. Calgary, Canada. June 2004.

Bundy BC, Hales HB.
Streamline Reservoir Simulation.
Rocky Mountain AIChE Regional Conference. Provo, UT. Mar 2004.

Bundy BC, Harb JN.
High Aspect Ratio Nanostructures.
Micron Technology Student Symposium. Boise, ID. June 2003.