Publications Citing NIH T32 Training Grant Support:

Medina-Cucurella, A., Zhu, Y., Bowen, S.J., Bergeron, L.M. and Whitehead, T.A. 2018. Pro region engineering of nerve growth factor by deep mutational scanning enables a yeast platform for conformational epitope mapping of anti-NGF monoclonal antibodies, Biotech and Bioeng. doi: 10.1002/bit.26606.

Poliner E., Takeuchi T., Du, Z.Y., Benning, C., Farré, E.M. “Nontransgenic Marker-Free Gene Disruption by an Episomal CRISPR System in the Oleaginous Microalga, Nannochloropsis oceanica CCMP1779.” ACS Synth. Biol. (2018) Mar 14. doi: 10.1021/acssynbio.7b00362

Xu, H., Lybrand, D., Bennewitz, S., Tissier, A., Last, R.L. and Pichersky, E. 2018. High-level production of trans-chrysanthemic acid, the monoterpene acid moiety of natural pyrethrin insecticides, in tomato fruit. Metab. Eng.

Medina-Cucurella A. and Whitehead, T.A. 2018. Characterizing Protein-Protein Interactions Using Deep Sequencing Coupled to Yeast Surface Display, Methods Mol. Biol.,1764:101-121, doi: 10.1007/978-1-4939-7759-8_7

Leong, B.J. and Last, R.L. Promiscuity, impersonation and accommodation: evolution of plant specialized metabolism. Curr. Opin. Struct. Biol., Volume 47, December 2017, Pages 105–112

Wrenbeck E.E., Azouz L.R., Whitehead T.A. (2017), Single-mutation fitness landscapes for an enzyme on multiple substrates reveal specificity is globally encoded, Nature Comm. 8, Article number: 15695. doi:10.1038/ncomms15695

Moghe, G.D., Leong, B.J., Hurney, S. Jones, A.D. and Last, R.L. 2017. Evolutionary routes to biochemical innovation revealed by integrative analysis of a plant defense related specialized metabolic pathway. eLife 2017;6:e28468 DOI: 10.7554/eLife.28468.

Clark, T.J., Friel, C.A., Grman, E., Shachar-Hill, Y. and Friesen, M.L. (2017) Modelling nutritional mutualisms: challenges and opportunities for data integration. Ecol. Letts. doi: 10.1111/ele.12810

Angelos, E., Ruberti, C., Kim, S.J., and Brandizzi, F. (2017). Maintaining the factory: the roles of the unfolded protein response in cellular homeostasis in plants. Plant J 90:671-682. doi:10.1111.tpj.13449

Wrenbeck E. E., Faber, M. S., Whitehead, T. A. (2017). Deep sequencing methods for protein engineering and design. Curr Opin Struct Biol, 45:36-44, doi: 10.1016/

Medina-Cucurella A and Whitehead, TA (2017) Characterizing Protein-Protein Interactions Using Deep Sequencing Coupled to Yeast Surface Display, Methods in Molecular Biology in press

Klesmith, J.R., Bacik, J.P., Wrenbeck, E.E., Michalczyk, R., Whitehead, T.A. (2017). Trade-offs between enzyme fitness and solubility illuminated by deep mutational scanning. Proc Natl Acad Sci U S A, 114:2265-2270, doi: 10.1073/pnas.1614437114

Panchy NL, Azodi C.B., Winship EF, O'Malley RC, Shiu SH. Asymmetric evolution of the transcription profiles and cis-regulatory sites contributes to the retention of transcription factor duplicates. bioRxiv DOI:10.1101/115857

Wrenbeck, E.E., Klesmith, J.R., Stapleton, J.A., Adeniran, A., Tyo, K.E.J. and Whitehead T.A. (2016). Plasmid-based one-pot saturation mutagenesis. Nature Methods, 13:928–930. doi:10.1038/nmeth.4029.

Yang, Y., Zienkiewicz, A., Lavell, A. and Benning, C. (2017). Coevolution of Domain Interactions in the Chloroplast TGD1, 2, 3 Lipid Transfer Complex Specific to Brassicaceae and Poaceae Plants. Plant Cell, 29:1500–1515. DOI:

Ning, J., Moghe, G., Leong, B.J., Kim, J., Ofner, I., Wang, Z., Adams, C., Jones, A., Zamir, D., Last, RL. (2015).  A feedback insensitive isopropylmalate synthase affects acylsugar composition in cultivated and wild tomato. 169:1821-1835. doi:10.1104/pp.15.00474

Tsai, C.H., Warakanont, J., Takeuchi, T., Sears, B.B., Moellering, E.R., Benning, C. (2014). The protein Compromised Hydrolysis of Triacylglycerols 7 (CHT7) acts as a repressor of cellular quiescence in Chlamydomonas. Proc. Natl. Acad. Sci. U.S.A. 111:15833–15838. doi:/10.1073/pnas.1414567111.


Other Publications from our Trainees:

Hoopes, G.M., Hamilton, J.P., Kim, J., Zhao, D., Wiegert-Rininger, K., Crisovan, E., and Buell, C.R. Genome Assembly and Annotation of the Medicinal Plant Calotropis gigantea, a Producer of Anti-Cancer and Anti-Malarial Cardenolides. G3.

Malmstrom, C.M., Bigelow, P., Trebicki, P., Busch, A.K., Friel, C., Cole, E., Abdel-Azim, H., Phillippo, C. and Alexander, H.M. 2017. Virus Res.

Banerjee A., Preiser A.L., Sharkey, T.D. Engineering of Recombinant Poplar Deoxy-D-xylulose-5-phosphate Synthase (PtDXS) by Site-directed Mutagenesis Improves Its Activity. PLoSOne. 2016 11(8).

Yang J., Preiser A.L., Li Z, Weise S.E., Sharkey T.D. Triose phosphate use limitation of photosynthesis short-term and long-term effects. Planta. 2016 243(3): 687-98.

Clark. T. J., & Lu. Y. (2015). Analysis of loss-of-function mutants in aspartate kinase and homoserine dehydrogenase genes points to complexity in the regulation of aspartate-derived amino acid contents. Plant Physiol. 168:15121526.

Lantz. A.T., Cardiello. J., Gee. T., Richards. M.,Rosenstiel. T., Fisher. A. (2015). Biochemical characterization of an isoprene synthase from Campylopus introflexus (heath star moss).  Plant Physiology and Biochemistry. 94:209-215. doi: 10.1016/j.plaphy.2015.06.008

Brasher, M., Surmacz, L., Leong, B., Pitcher, J., Swiezewska, E., Pichersky, E., Akhtar, T.A. (2015).  A two-component enzyme complex is required for doichol biosynthesis in tomato.  Plant J. 82:903-14. doi: 10.1111/tpj.12859

Thireault, C., Shyu, C., Yoshida, Y., St Aubin, B., Campos, M.L. and Howe, G.A. (2015). Repression of jasmonate signaling by a non-TIFY JAZ protein in Arabidopsis. Plant J, 82:669-79 doi: 10.1111/tpj.12841, 25846245

Takeuchi T, Newton L, Burkhardt A, Mason S, Farré, E (2014). Light and circadian clock mediate time-specific changes in sensitivity to UV-B stress under light/dark cycles. J Exp Bot. 65: 6003-6012.

Bienick, M., Young, K., Klesmith, J., Detwiler, E.E., Tomek K., Whitehead T. (2014). The Interrelationship between Promoter Strength, Gene Expression, and Growth Rate. PLOSOne 9(10): e109105. DOI: 10.1371/journal.pone.0109105.