Publications

Structure and function of bacteriophage CBA120 ORF211 (TSP2), the determinant of phage specificity towards E. coli O157:H7.
Greenfield J, Shang X, Luo H, Zhou Y, Linden SB, Heselpoth RD, Leiman PG, Nelson DC, Herzberg O, Greenfield J, Shang X, Luo H, Zhou Y, Linden SB, Heselpoth RD, Leiman PG, Nelson DC, Herzberg O. 2020. Structure and function of bacteriophage CBA120 ORF211 (TSP2), the determinant of phage specificity towards E. coli O157:H7. Scientific reports 10(1): 15402. DOI: 10.1038/s41598-020-72373-0
A Non-genetic Mechanism Involving the Integrin β4/Paxillin Axis Contributes to Chemoresistance in Lung Cancer.
Mohanty A, Nam A, Pozhitkov A, Yang L, Srivastava S, Nathan A, Wu X, Mambetsariev I, Nelson M, Subbalakshmi AR, et al. 2020. A Non-genetic Mechanism Involving the Integrin β4/Paxillin Axis Contributes to Chemoresistance in Lung Cancer. iScience 23(9): 101496. DOI: 10.1016/j.isci.2020.101496
Chemical shifts-based similarity restraints improve accuracy of RNA structures determined via NMR.
Lawrence C, Grishaev A, Lawrence C, Grishaev A. 2020. Chemical shifts-based similarity restraints improve accuracy of RNA structures determined via NMR. RNA (New York, N.Y.) 26(12): 2051-2061. DOI: 10.1261/rna.074617.119
General and robust covalently linked graphene oxide affinity grids for high-resolution cryo-EM.
Wang F, Liu Y, Yu Z, Li S, Feng S, Cheng Y, Agard DA, Wang F, Liu Y, Yu Z, Li S, Feng S, Cheng Y, Agard DA. 2020. General and robust covalently linked graphene oxide affinity grids for high-resolution cryo-EM. Proceedings of the National Academy of Sciences of the United States of America 117(39): 24269-24273. DOI: 10.1073/pnas.2009707117
CoV3D: a database of high resolution coronavirus protein structures.
Gowthaman R, Guest JD, Yin R, Adolf-Bryfogle J, Schief WR, Pierce BG, Gowthaman R, Guest JD, Yin R, Adolf-Bryfogle J, Schief WR, Pierce BG. 2021. CoV3D: a database of high resolution coronavirus protein structures. Nucleic acids research 49(D1): D282-D287. DOI: 10.1093/nar/gkaa731
Monitoring of the sedimentation kinetics of vaccine adjuvants using water proton NMR relaxation.
Taraban MB, Yu YB, Taraban MB, Yu YB. 2021. Monitoring of the sedimentation kinetics of vaccine adjuvants using water proton NMR relaxation. Magnetic resonance in chemistry : MRC 59(2): 147-161. DOI: 10.1002/mrc.5096
Structure-Based Design of Hepatitis C Virus E2 Glycoprotein Improves Serum Binding and Cross-Neutralization.
Pierce BG, Keck ZY, Wang R, Lau P, Garagusi K, Elkholy K, Toth EA, Urbanowicz RA, Guest JD, Agnihotri P, et al. 2020. Structure-Based Design of Hepatitis C Virus E2 Glycoprotein Improves Serum Binding and Cross-Neutralization. Journal of virology 94(22): . DOI: 10.1128/JVI.00704-20
Reducing the measurement time of exact NOEs by non-uniform sampling.
Nichols PJ, Born A, Henen MA, Strotz D, Jones DN, Delaglio F, Vögeli B, Nichols PJ, Born A, Henen MA, Strotz D, Jones DN, Delaglio F, Vögeli B. 2020. Reducing the measurement time of exact NOEs by non-uniform sampling. Journal of biomolecular NMR 74(12): 717-739. DOI: 10.1007/s10858-020-00344-8
Using All-Atom Potentials to Refine RNA Structure Predictions of SARS-CoV-2 Stem Loops.
Bergonzo C, Szakal AL, Bergonzo C, Szakal AL. 2020. Using All-Atom Potentials to Refine RNA Structure Predictions of SARS-CoV-2 Stem Loops. International journal of molecular sciences 21(17): . DOI: 10.3390/ijms21176188
Homologous Quorum Sensing Regulatory Circuit: A Dual-Input Genetic Controller for Modulating Quorum Sensing-Mediated Protein Expression in E. coli.
Hauk P, Stephens K, Virgile C, VanArsdale E, Pottash AE, Schardt JS, Jay SM, Sintim HO, Bentley WE, Hauk P, Stephens K, Virgile C, VanArsdale E, Pottash AE, Schardt JS, Jay SM, Sintim HO, Bentley WE. 2020. Homologous Quorum Sensing Regulatory Circuit: A Dual-Input Genetic Controller for Modulating Quorum Sensing-Mediated Protein Expression in <i>E. coli</i>. ACS synthetic biology 9(10): 2692-2702. DOI: 10.1021/acssynbio.0c00179
CRISPR/Cas9-mediated mutagenesis of VvMLO3 results in enhanced resistance to powdery mildew in grapevine (Vitis vinifera).
Wan DY, Guo Y, Cheng Y, Hu Y, Xiao S, Wang Y, Wen YQ, Wan DY, Guo Y, Cheng Y, Hu Y, Xiao S, Wang Y, Wen YQ. 2020. CRISPR/Cas9-mediated mutagenesis of <i>VvMLO3</i> results in enhanced resistance to powdery mildew in grapevine (<i>Vitis vinifera</i>). Horticulture research 7: 116. DOI: 10.1038/s41438-020-0339-8
Construction of a Dual Protease Column, Subzero (-30 °C) Chromatography System and Multi-channel Precision Temperature Controller for Hydrogen-Deuterium Exchange Mass Spectrometry.
Hudgens JW, Hudgens JW. 2020. Construction of a Dual Protease Column, Subzero (-30 °C) Chromatography System and Multi-channel Precision Temperature Controller for Hydrogen-Deuterium Exchange Mass Spectrometry. Journal of research of the National Institute of Standards and Technology vol: . DOI: 10.6028/jres.125.025
Discovery and Preclinical Development of Antigiardiasis Fumagillol Derivatives.
Padia J, Kulakova L, Galkin A, Herzberg O, Padia J, Kulakova L, Galkin A, Herzberg O. 2020. Discovery and Preclinical Development of Antigiardiasis Fumagillol Derivatives. Antimicrobial agents and chemotherapy 64(10): . DOI: 10.1128/AAC.00582-20
RPW8.1 enhances the ethylene-signaling pathway to feedback-attenuate its mediated cell death and disease resistance in Arabidopsis.
Zhao ZX, Feng Q, Liu PQ, He XR, Zhao JH, Xu YJ, Zhang LL, Huang YY, Zhao JQ, Fan J, et al. 2021. RPW8.1 enhances the ethylene-signaling pathway to feedback-attenuate its mediated cell death and disease resistance in Arabidopsis. The New phytologist 229(1): 516-531. DOI: 10.1111/nph.16857
Dynamic changes impact the plum pox virus population structure during leaf and bud development.
Tamukong YB, Collum TD, Stone AL, Kappagantu M, Sherman DJ, Rogers EE, Dardick C, Culver JN, Tamukong YB, Collum TD, Stone AL, Kappagantu M, Sherman DJ, Rogers EE, Dardick C, Culver JN. 2020. Dynamic changes impact the plum pox virus population structure during leaf and bud development. Virology 548: 192-199. DOI: 10.1016/j.virol.2020.06.014
In Silico Identification of the Full Complement of Subtilase-Encoding Genes and Characterization of the Role of TaSBT1.7 in Resistance Against Stripe Rust in Wheat.
Yang Y, Zhang F, Zhou T, Fang A, Yu Y, Bi C, Xiao S, Yang Y, Zhang F, Zhou T, Fang A, Yu Y, Bi C, Xiao S. 2021. In Silico Identification of the Full Complement of Subtilase-Encoding Genes and Characterization of the Role of <i>TaSBT1.7</i> in Resistance Against Stripe Rust in Wheat. Phytopathology 111(2): 398-407. DOI: 10.1094/PHYTO-05-20-0176-R
Principal component analysis for automated classification of 2D spectra and interferograms of protein therapeutics: influence of noise, reconstruction details, and data preparation.
Brinson RG, Elliott KW, Arbogast LW, Sheen DA, Giddens JP, Marino JP, Delaglio F, Brinson RG, Elliott KW, Arbogast LW, Sheen DA, Giddens JP, Marino JP, Delaglio F. 2020. Principal component analysis for automated classification of 2D spectra and interferograms of protein therapeutics: influence of noise, reconstruction details, and data preparation. Journal of biomolecular NMR 74(10-11): 643-656. DOI: 10.1007/s10858-020-00332-y
A High-Quality Genome Resource of Botrytis fragariae, a New and Rapidly Spreading Fungal Pathogen Causing Strawberry Gray Mold in the United States.
Wu Y, Saski C, Schnabel G, Xiao S, Hu M, Wu Y, Saski C, Schnabel G, Xiao S, Hu M. 2021. A High-Quality Genome Resource of <i>Botrytis fragariae</i>, a New and Rapidly Spreading Fungal Pathogen Causing Strawberry Gray Mold in the United States. Phytopathology 111(3): 496-499. DOI: 10.1094/PHYTO-05-20-0204-IA
Leveraging nature's biomolecular designs in next-generation protein sequencing reagent development.
Tullman J, Marino JP, Kelman Z, Tullman J, Marino JP, Kelman Z. 2020. Leveraging nature's biomolecular designs in next-generation protein sequencing reagent development. Applied microbiology and biotechnology 104(17): 7261-7271. DOI: 10.1007/s00253-020-10745-2
CoV3D: A database and resource for high resolution coronavirus protein structures.
Gowthaman R, Guest JD, Yin R, Adolf-Bryfogle J, Schief WR, Pierce BG, Gowthaman R, Guest JD, Yin R, Adolf-Bryfogle J, Schief WR, Pierce BG. 2020. CoV3D: A database and resource for high resolution coronavirus protein structures. bioRxiv : the preprint server for biology : . DOI: 10.1101/2020.05.12.091983