Graduate Student Publications and Awards

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Publications of Microbiology Graduate Students; in bold

2020:

Anderson, K., Ryan, N., Siddiqui, A., Pero, T., Volpedo, G., Cooperstone, J.L., et al. (2020). Black Raspberries and Protocatechuic Acid Mitigate DNFB-Induced Contact Hypersensitivity by Down-Regulating Dendritic Cell Activation and Inhibiting Mediators of Effector Responses. Nutrients 12(6). doi: 10.3390/nu12061701.

Bhagdikar, D., Grundy, F.J., and Henkin, T.M. (2020). Transcriptional and translational S-box riboswitches differ in ligand-binding properties. J Biol Chem 295(20), 6849-6860. doi: 10.1074/jbc.RA120.012853.

Dunn, M.J., Fillinger, R.J., Anderson, L.M., and Anderson, M.Z. (2020). Automated quantification of Candida albicans biofilm-related phenotypes reveals additive contributions to biofilm production. NPJ Biofilms Microbiomes 6(1), 36. doi: 10.1038/s41522-020-00149-5.

Gazitua, M.C., Vik, D., Roux, S., Gregory, A.C., Bolduc, B., Widner, B., Mulholland, M.R., Hallam, S.J., Ulloa, O., Sullivan, M.B. (2020). Potential virus-mediated nitrogen cycling in oxygen-depleted oceanic waters. ISME J. doi: 10.1038/s41396-020-00825-6.

Gibbs, M.R., Moon, K.M., Warner, B.R., Chen, M., Bundschuh, R., Foster, L.J., et al. (2020). Functional Analysis of BipA in E. coli Reveals the Natural Plasticity of 50S Subunit Assembly. J Mol Biol 432(19), 5259-5272. doi: 10.1016/j.jmb.2020.07.013.

Goughenour, K.D., Whalin, J., Slot, J.C., and Rappleye, C.A. (2020). Diversification of fungal chitinases and their functional differentiation in Histoplasma capsulatum. Mol Biol Evol. doi: 10.1093/molbev/msaa293.

Gregory, A.C., Zablocki, O., Zayed, A.A., Howell, A., Bolduc, B., and Sullivan, M.B. (2020). The gut virome database reveals age-dependent patterns of virome diversity in the human gut. Cell Host & Microbe. 28(5), 724-740. doi: 10.1016/j.chom.2020.08.003

Han, N.C., Bullwinkle, T.J., Loeb, K.F., Faull, K.F., Mohler, K., Rinehart, J., et al. (2020a). The mechanism of beta-N-methylamino-l-alanine inhibition of tRNA aminoacylation and its impact on misincorporation. J Biol Chem 295(5), 1402-1410. doi: 10.1074/jbc.RA119.011714.

Han, N.C., Kelly, P., and Ibba, M. (2020b). Translational quality control and reprogramming during stress adaptation. Exp Cell Res 394(2), 112161. doi: 10.1016/j.yexcr.2020.112161.

Howard-Varona, C., Lindback, M., Bastien, G., Solonenko, N., Zayed, A., Jang, H.B., Andreopoulos, B., Brewer, H., Glavina del Rio, T., Adkins, J., Paul, S., Sullivan, M.B., and Duhaime, M. (2020). Phage-specific metabolic reprogramming of virocells. ISME J. 14(4), 881-895. doi: 10.1038/s41396-019-0580-z

Huening, K.A., Jiang, R., and Krzycki, J.A. (2020). Kinetic and substrate complex characterization of RamA, a corrinoid protein reductive activase from Methanosarcina barkeri. FEMS Microbiol Lett 367(17). doi: 10.1093/femsle/fnaa128.

Jahnes, B.C., and Sabree, Z.L. (2020). Nutritional symbiosis and ecology of host-gut microbe systems in the Blattodea. Curr Opin Insect Sci 39, 35-41. doi: 10.1016/j.cois.2020.01.001.

Jha, B.K., Varikuti, S., Seidler, G.R., Volpedo, G., Satoskar, A.R., and McGwire, B.S. (2020). MicroRNA-155 Deficiency Exacerbates Trypanosoma cruzi Infection. Infect Immun 88(7). doi: 10.1128/IAI.00948-19.

Lundstedt, E.A., Kahne, D., and Ruiz, N. (2020a). Assembly and Maintenance of Lipids at the Bacterial Outer Membrane. Chem Rev. doi: 10.1021/acs.chemrev.0c00587.

Lundstedt, E.A., Simpson, B.W., and Ruiz, N. (2020b). LptB-LptF coupling mediates the closure of the substrate-binding cavity in the LptB2 FGC transporter through a rigid-body mechanism to extract LPS. Mol Microbiol 114(2), 200-213. doi: 10.1111/mmi.14506.

Mara, P., Vik, D., Pachiadaki, M.G., Suter, E.A., Poulos,, B., Taylor, G.T., Sullivan, M.B., and Edgcomb, V.P. (2020). Viral elements and their potential influence on microbial processes along the permanently stratified Cariaco basin redoxcline. ISME J. 14(12):3079-3092. doi: 10.1038/s41396-020-00739-3

Phelps, C.C., Vadia, S., Boyaka, P.N., Varikuti, S., Attia, Z., Dubey, P., et al. (2020). A listeriolysin O subunit vaccine is protective against Listeria monocytogenes. Vaccine 38(36), 5803-5813. doi: 10.1016/j.vaccine.2020.06.049.

Ryan, N., Anderson, K., Volpedo, G., Hamza, O., Varikuti, S., Satoskar, A.R., et al. (2020). STAT1 inhibits T-cell exhaustion and myeloid derived suppressor cell accumulation to promote antitumor immune responses in head and neck squamous cell carcinoma. Int J Cancer 146(6), 1717-1729. doi: 10.1002/ijc.32781.

Ryan, N., Anderson, K., Volpedo, G., Varikuti, S., Satoskar, M., Satoskar, S., et al. (2020). The IL-33/ST2 Axis in Immune Responses Against Parasitic Disease: Potential Therapeutic Applications. Front Cell Infect Microbiol 10, 153. doi: 10.3389/fcimb.2020.00153.

Said, N., Hilal, T., Sunday, N.D., Khatri, A., Burger, J., Mielke, T., et al. (2020). Steps toward translocation-independent RNA polymerase inactivation by terminator ATPase Rho. Science. doi: 10.1126/science.abd1673.

Shaffer M., Borton, M.A., McGivern, B.B., Zayed, A.A., La Rosa, S.L., Solden, L.M., et al. (2020). DRAM for distilling microbial metabolism to automate the curation of microbiome function. Nucleic Acids Research. 48(16):8883-8900. doi: 10.1093/nar/gkaa621

Shen, Q., and Rappleye, C.A. (2020). Living Within the Macrophage: Dimorphic Fungal Pathogen Intracellular Metabolism. Front Cell Infect Microbiol 10, 592259. doi: 10.3389/fcimb.2020.592259.

Shen, Q., Ray, S.C., Evans, H.M., Deepe, G.S., Jr., and Rappleye, C.A. (2020). Metabolism of Gluconeogenic Substrates by an Intracellular Fungal Pathogen Circumvents Nutritional Limitations within Macrophages. mBio 11(2). doi: 10.1128/mBio.02712-19.

Tollerson, R., 2nd, and Ibba, M. (2020). Translational regulation of environmental adaptation in bacteria. J Biol Chem 295(30), 10434-10445. doi: 10.1074/jbc.REV120.012742.

Varikuti, S., Singh, B., Volpedo, G., Ahirwar, D.K., Jha, B.K., Saljoughian, N., et al. (2020). Ibrutinib treatment inhibits breast cancer progression and metastasis by inducing conversion of myeloid-derived suppressor cells to dendritic cells. Br J Cancer 122(7), 1005-1013. doi: 10.1038/s41416-020-0743-8.

Vera-Ponce de Leon, A., Jahnes, B.C., Duan, J., Camuy-Velez, L.A., and Sabree, Z.L. (2020). Cultivable, Host-Specific Bacteroidetes Symbionts Exhibit Diverse Polysaccharolytic Strategies. Appl Environ Microbiol 86(8). doi: 10.1128/AEM.00091-20.

Vik, D., Gazitua, M.C., Sun, C.L., Zayed, A.A., Aldunate, M., Mulholland, M.R., Ulloa, O., and Sullivan, M.B. (2020). Genome-resolved viral ecology in a marine oxygen minimum zone. Environ Microbiol. doi: 10.1111/1462-2920.15313

Zhang, W.W., Karmakar, S., Gannavaram, S., Dey, R., Lypaczewski, P., Ismail, N., Siddiqui, A., Simonyan, V., Oliveira, F., Coutinho-Abreu, I.V., DeSouza-Vieira, T., Meneses, C., Oristian J., Tiago D Serafim T.D., Musa, A., Risa Nakamura, R., Saljoughian, N., Volpedo, G., et al. (2020). A second generation leishmanization vaccine with a markerless attenuated Leishmania major strain using CRISPR gene editing. Nat Commun 11(1), 3461. doi: 10.1038/s41467-020-17154-z