Faculty Accomplishments

Katie Berry received a National Science Foundation (NSF) subaward from Oregon State University for the project “Discovery of novel functional RNA classes by computational integration of massively-parallel RBP binding and structure data.” The project is for five years.

Katie Berry received a collaborative Ideas Lab grant from The National Science Foundation (NSF) for the project: “RNA-encoded Molecular Memory (REMM).” The project is for three years.

Katie Berry received the Henry Dreyfus Teacher Scholar Award from The Camille and Henry Dreyfus Foundation for her project: Molecular Mechanisms of Bacterial RNA-Binding Proteins. The project is for five years.

Stein EM, Wang S [MHC '23], Dailey K [MHC '22], Gravel CM [MHC '20], Wang S [MHC '22], Olejniczak M & Berry KE. (2023) Biochemical and genetic dissection of the RNA-binding surface of the FinO domain of Escherichia coli ProQ. RNA 29, 1772–1791. doi: 10.1261/rna.079697.123

Stockert OM [MHC '20], Gravel CM [MHC '20] & Berry KE. 2022. A bacterial three-hybrid assay for forward and reverse genetic analysis of RNA–protein interactions. Nature Protocols. https://doi.org/10.1038/s41596-021-00657-4. Free access at: https://rdcu.be/cHCl7

Wang CD [MHC '19], Mansky R [MHC '20], LeBlanc H [MHC '20], Gravel CM [MHC '20], Berry KE. 2021. Optimization of a bacterial three-hybrid assay through in vivo titration of an RNA-DNA adapter-protein. RNA, 27, 513-526.

Stein, EM, Kwiatkowska, J, Basczok, MM, Gravel, CM [MHC '20], Berry, KE, & Olejniczak, M. 2020. Determinants of RNA recognition by the FinO domain of the Escherichia coli ProQ protein. Nucleic Acids Research, 48(13): 7502-19. https://doi.org/10.1093/nar/gkaa497

Pandey, S. [MHC '19], Gravel, C.M. [MHC '20], Stockert, O.M. [MHC '21], Wang, C.D. [MHC '19], Hegner, C.L. [MHC '19], LeBlanc, H. [MHC '20] & Berry, K.E., Genetic identification of the functional surface for RNA binding by Escherichia coli ProQ. Nucleic Acids Research, gkaa144, DOI: 10.1093/nar/gkaa144. (March 14, 2020)

Berry K.E., Waghray S.*, Mortimer S.A., Bai Y., Doudna J.A. (2011) Crystal structure of the HCV IRES central domain reveals strategy for start-codon positioning. Structure, 19, 1456-66. (* indicates undergraduate mentee)

Berry K.E., Peng B., Koditek D., Beeman D., Pagratis N., Perry J.K., Parrish J., Zhong W., Doudna J.A., Shih I-h. (2011) Optimized high-throughput screen for Hepatitis C virus translation inhibitors. J Biomol Screen, 16, 211-20.