Publications for Core

Park J, et al. (2025) Molecular features of the serological IgG repertoire elicited by egg-based, cell-based, or recombinant haemagglutinin-based seasonal influenza vaccines: a comparative, prospective, observational cohort study. The Lancet. Microbe , 6 (2) , 100935. (PMID:39667375)

Parker JK, et al. (2025) Antibacterial microcins are ubiquitous and functionally diverse across bacterial communities. Nature communications , 16 (1) , 6048. (PMID:40595659)

Tripathy MK, et al. (2025) Modified pea apyrase has altered nuclear functions and enhances the growth of yeast and Arabidopsis. Frontiers in plant science , 16 , 1584871. (PMID:40491823)

Park J, et al. (2025) Broadly neutralizing antibodies targeting pandemic GII.4 variants or seven GII genotypes of human norovirus. Science translational medicine , 17 (788) , eads8214. (PMID:40043137)

Surya A, et al. (2025) Differential impacts of ribosomal protein haploinsufficiency on mitochondrial function. The Journal of cell biology , 224 (3) . (PMID:39786340)

Ishida S, et al. (2025) Directed Evolution of a SelB Variant that Does Not Require a Selenocysteine Insertion Sequence Element for Function. ACS synthetic biology , 14 (7) , 2681. (PMID:40536028)

Melkonian TR, et al. (2025) Beyond the β-α-β Fold: Characterization of a SnoaL Domain in the Tautomerase Superfamily. Biochemistry , 64 (9) , 1950. (PMID:40231412)

Acharya N, et al. (2025) Peritubular myoid cells of the testis produce monocyte chemotactic protein 1 upon direct exposure to Mono-(2-Ethylhexyl) phthalate through the IL-1 signaling pathway. Toxicology , 514 , 154118. (PMID:40089264)

Lee S, et al. (2025) Label-Free Quantification of DNA Loading on Centrifugation-Resistant Spherical Nucleic Acids. Analytical chemistry , 97 (23) , 12267. (PMID:40456731)

Smisek T, et al. (2025) Characterization of Lipidated New Delhi Metallo-β-lactamase Using Synthetic Nanodiscs. Biochemistry , 64 (12) , 2679. (PMID:40459910)

Lin M, et al. (2025) Mass spectrometry imaging reveals alterations in protein and N-glycan molecular signatures in endometriosis tissues. Analytical and bioanalytical chemistry , 417 (18) , 4133. (PMID:40533635)

Zhao X, et al. (2024) Cellular targets and lysine selectivity of the HERC5 ISG15 ligase. iScience , 27 (2) , 108820. (PMID:38303729)

Tarvin RD, et al. (2024) Passive accumulation of alkaloids in inconspicuously colored frogs refines the evolutionary paradigm of acquired chemical defenses. eLife , 13 (PMID:39728927)

Jermusek FA, et al. (2024) Determining the Electrostatic Contributions of GTPase-GEF Complexes on Interfacial Drug Binding Specificity: A Case Study of a Protein-Drug-Protein Complex. Biochemistry , 63 (24) , 3220. (PMID:39589755)

Yang, K.; Bryan, C. Human 8‐Oxoguanine Glycosylase OGG1 Cleaves Abasic Sites and Covalently Conjugates to 3′‐DNA Termini via Cysteine and Histidine Addition. ChemBioChem 2024, e202400705. https://doi.org/10.1002/cbic.202400705 .

Wang, Y.; Zhou, J.; He, W.; Fu, R.; Shi, L.; Dang, N. K.; Liu, B.; Xu, H.; Cheng, X.; Bedford, M. T. SART3 Reads Methylarginine-Marked Glycine- and Arginine-Rich Motifs. Cell Reports 2024, 43 (7), 114459. SART3 reads methylarginine-marked glycine- and arginine-rich motifs .

Peng, Y.; Bryan, C.; Yang, K. Mass Spectrometry Evidence for Forming Schiff Base 3′-DNA-Histone Cross-Links from Abasic Sites in Vitro and in Human Cells. Chem. Res. Toxicol. 2024, 37 (2), 216–219. Mass Spectrometry Evidence for Forming Schiff Base 3′-DNA-Histone Cross-Links from Abasic Sites in Vitro and in Human Cells .

Motta, E. V. S.; De Jong, T. K.; Gage, A.; Edwards, J. A.; Moran, N. A. Glyphosate Effects on Growth and Biofilm Formation in Bee Gut Symbionts and Diverse Associated Bacteria. Appl Environ Microbiol 2024, 90 (8), e00515-24. Glyphosate effects on growth and biofilm formation in bee gut symbionts and diverse associated bacteria | Applied and Environmental Microbiology .

Morrison, C. R.; Hart, L.; Wolf, A. A.; Sedio, B. E.; Armstrong, W.; Gilbert, L. E. Growth‐chemical Defence‐metabolomic Expression Trade‐off Is Relaxed as Soil Nutrient Availability Increases for a Tropical Passion Vine. Functional Ecology 2024, 38 (5), 1320–1337. Growth‐chemical defence‐metabolomic expression trade‐off is relaxed as soil nutrient availability increases for a tropical passion vine .

Moreno, R. Y.; Panina, S. B.; Irani, S.; Hardtke, H. A.; Stephenson, R.; Floyd, B. M.; Marcotte, E. M.; Zhang, Q.; Zhang, Y. J. Thr⁴ Phosphorylation on RNA Pol II Occurs at Early Transcription Regulating 3′-End Processing. Sci. Adv. 2024, 10 (36), eadq0350. Thr4 phosphorylation on RNA Pol II occurs at early transcription regulating 3′-end processing .

Hardtke, H. A.; Moreno, R. Y.; Zhang, Y. J. Protocol for the in Vitro Reconstruction of Site-Specifically Phosphorylated RNA Pol II to Identify the Recruitment of Novel Transcription Regulators. STAR Protocols 2024, 5 (3), 103277. https://doi.org/10.1016/j.xpro.2024.103277.

Black, J. J.; Johnson, A. W. Release of the Ribosome Biogenesis Factor Bud23 from Small Subunit Precursors in Yeast. 2024.

Zhao, Q.; Rangan, R.; Weng, S.; Özdemir, C.; Sarinay Cenik, E. Inhibition of Ribosome Biogenesis in the Epidermis Is Sufficient to Trigger Organism-Wide Growth Quiescence Independently of Nutritional Status in C. Elegans. PLoS Biol 2023, 21 (8), e3002276. Inhibition of ribosome biogenesis in the epidermis is sufficient to trigger organism-wide growth quiescence independently of nutritional status in C. elegans .

Yelland, J. N.; Bravo, J. P. K.; Black, J. J.; Taylor, D. W.; Johnson, A. W. A Single 2′-O-Methylation of Ribosomal RNA Gates Assembly of a Functional Ribosome. Nat Struct Mol Biol 2023, 30 (1), 91–98. https://doi.org/10.1038/s41594-022-00891-8.

Wei, X.; Yang, K. PARP1 Incises Abasic Sites and Covalently Cross-Links to 3′-DNA Termini via Cysteine Addition Not Reductive Amination. Biochemistry 2023, 62 (10), 1527–1530. https://doi.org/10.1021/acs.biochem.3c00138 .

Smith, K. R.; Paul, S.; Dong, Q.; Anannya, O.; Oldenburg, D. G.; Forrest, J. C.; McBride, K. M.; Krug, L. T. Uracil-DNA Glycosylase of Murine Gammaherpesvirus 68 Binds Cognate Viral Replication Factors Independently of Its Catalytic Residues. mSphere 2023, 8 (5), e00278-23. Uracil-DNA glycosylase of murine gammaherpesvirus 68 binds cognate viral replication factors independently of its catalytic residues | mSphere .

Randall, J. R.; Groover, K. E.; O’Donnell, A. C.; Garza, J. M.; Cole, T. J.; Davies, B. W. Adapting Antibacterial Display to Identify Serum Active Macrocyclic Peptide Antibiotics. Microbiology July 28, 2023. Adapting antibacterial display to identify serum active macrocyclic peptide antibiotics .

Peng, Y.; Wei, X.; Yang, K. Synthesis and Excision Repair of Site-Specific 3′-End DNA-Histone Cross-Links Derived from Abasic Sites. Bioconjugate Chem. 2023, 34 (6), 983–987. Synthesis and Excision Repair of Site-Specific 3′-End DNA-Histone Cross-Links Derived from Abasic Sites .

Ma, C.-H.; Kumar, D.; Jayaram, M.; Ghosh, S. K.; Iyer, V. R. The Selfish Yeast Plasmid Exploits a SWI/SNF-Type Chromatin Remodeling Complex for Hitchhiking on Chromosomes and Ensuring High-Fidelity Propagation. PLoS Genet 2023, 19 (10), e1010986. The selfish yeast plasmid exploits a SWI/SNF-type chromatin remodeling complex for hitchhiking on chromosomes and ensuring high-fidelity propagation .

Lancaster, E. B.; Johnson, W. H.; LeVieux, J. A.; Hardtke, H. A.; Zhang, Y. J.; Whitman, C. P. A Mutagenic Analysis of NahE, a Hydratase-Aldolase in the Naphthalene Degradative Pathway. Archives of Biochemistry and Biophysics 2023, 733, 109471. https://doi.org/10.1016/j.abb.2022.109471.

Gómez-Garzón, C.; Payne, S. M. Divide and Conquer: Genetics, Mechanism, and Evolution of the Ferrous Iron Transporter Feo in Helicobacter Pylori. Front. Microbiol. 2023, 14, 1219359. Frontiers | Divide and conquer: genetics, mechanism, and evolution of the ferrous iron transporter Feo in Helicobacter pylori .

Ellis, J. R.; Bull, J. J.; Rowley, P. A. Fungal Glycoside Hydrolases Display Unique Specificities for Polysaccharides and Staphylococcus Aureus Biofilms. Microorganisms 2023, 11 (2), 293. Fungal Glycoside Hydrolases Display Unique Specificities for Polysaccharides and Staphylococcus aureus Biofilms | MDPI .

DePaolis, M.; De Respino, S.; Samineni, L.; Brighton, S.; Kumar, M. Cottonseed Extract as a Coagulant for Water Treatment. Environ. Sci.: Adv. 2023, 2 (2), 227–234. Cottonseed extract as a coagulant for water treatment .

Zhao, Q.; Rangan, R.; Weng, S.; Özdemir, C.; Cenik, E. S. Hypodermal Ribosome Synthesis Inhibition Induces a Nutrition-Uncoupled Organism-Wide Growth Quiescence in C. Elegans. Developmental Biology September 30, 2022. Hypodermal ribosome synthesis inhibition induces a nutrition-uncoupled organism-wide growth quiescence in C. elegans .

Wei, X.; Person, M. D.; Yang, K. Tyrosyl-DNA Phosphodiesterase 1 Excises the 3′-DNA-ALKBH1 Cross-Link and Its Application for 3′-DNA-ALKBH1 Cross-Link Characterization by LC-MS/MS. DNA Repair 2022, 119, 103391. https://doi.org/10.1016/j.dnarep.2022.103391.

Motta, E. V.; Gage, A.; Smith, T. E.; Blake, K. J.; Kwong, W. K.; Riddington, I. M.; Moran, N. Host-Microbiome Metabolism of a Plant Toxin in Bees. eLife 2022, 11, e82595. Host-microbiome metabolism of a plant toxin in bees .

Motta, E. V. S.; Gage, A.; Smith, T. E.; Blake, K. J.; Kwong, W. K.; Riddington, I. M.; Moran, N. A. Cooperative Host-Microbe Metabolism of a Plant Toxin in Bees. Ecology August 27, 2022. Cooperative host-microbe metabolism of a plant toxin in bees .

Li, Z. The Genomic Basis of Evolutionary Novelties in a Leafhopper. 2022.

Joaquín-Ovalle, F.; Guihurt, G.; Barcelo-Bovea, V.; Hani-Saba, A.; Fontanet-Gómez, N.; Ramirez-Paz, J.; Kashino, Y.; Torres-Martinez, Z.; Doble-Cacho, K.; Delinois, L.; Delgado, Y.; Griebenow, K. Oxidative Stress- and Autophagy-Inducing Effects of PSI-LHCI from Botryococcus Braunii in Breast Cancer Cells. BioTech 2022, 11 (2), 9. Oxidative Stress- and Autophagy-Inducing Effects of PSI-LHCI from Botryococcus braunii in Breast Cancer Cells .

Gadush, M. V.; Sautto, G. A.; Chandrasekaran, H.; Bensussan, A.; Ross, T. M.; Ippolito, G. C.; Person, M. D. Template-Assisted De Novo Sequencing of SARS-CoV-2 and Influenza Monoclonal Antibodies by Mass Spectrometry. J. Proteome Res. 2022, 21 (7), 1616–1627. Template-Assisted De Novo Sequencing of SARS-CoV-2 and Influenza Monoclonal Antibodies by Mass Spectrometry .