Nick Wong

Nick Wong

I am a PhD Candidate at Johns Hopkins University and the Carnegie Institute in the Ludington Lab.

Publications

You can also find my articles on my Google Scholar profile.

Journal Articles

A systems approach discovers the role and characteristics of seven LysR type transcription factors in Escherichia coli

Published in Nature Scientific Reports, 2022

We show that: (1) YbdO (tentatively re-named CitR) regulation has an effect on bacterial growth at low pH with citrate supplementation. CitR is a repressor of the ybdNM operon and is implicated in the regulation of citrate lyase genes (citCDEFG); (2) YgfI (tentatively re-named DhfA) activates the dhaKLM operon that encodes the phosphotransferase system, DhfA is involved in formate, glycerol and dihydroxyacetone utilization; (3) YiaU (tentatively re-named LpsR) regulates the yiaT gene encoding an outer membrane protein, and waaPSBOJYZU operon is also important in determining cell density at the stationary phase and resistance to oxacillin microaerobically; (4) YneJ, re-named here as PtrR, directly regulates the expression of the succinate-semialdehyde dehydrogenase, Sad (also known as YneI), and is a predicted regulator of fnrS (a small RNA molecule). PtrR is important for bacterial growth in the presence of l-glutamate and putrescine as nitrogen/energy sources; and (5) YbhD and YcaN regulate adjacent y-genes on the genome.

Recommended citation: Rodionova, I. A., Gao, Y., Monk, J., Hefner, Y., Wong, N., Szubin, R., Lim, H. G., Rodionov, D. A., Zhang, Z., Saier, M. H., Jr, & Palsson, B. O. (2022). A systems approach discovers the role and characteristics of seven LysR type transcription factors in Escherichia coli. Scientific reports, 12(1), 7274.
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Shared and Unique Evolutionary Trajectories to Ciprofloxacin Resistance in Gram-Negative Bacterial Pathogens

Published in ASM Journals mBio, 2021

To investigate the dynamics of ciprofloxacin resistance development, we applied a comparative resistomics workflow for three clinically relevant species of Gram-negative bacteria: Escherichia coli, Acinetobacter baumannii, and Pseudomonas aeruginosa. We combined experimental evolution in a morbidostat with deep sequencing of evolving bacterial populations in time series to reveal both shared and unique aspects of evolutionary trajectories.

Recommended citation: Zlamal, J. E., Leyn, S. A., Iyer, M., Elane, M. L., Wong, N. A., Wamsley, J. W., Vercruysse, M., Garcia-Alcalde, F., & Osterman, A. L. (2021). Shared and Unique Evolutionary Trajectories to Ciprofloxacin Resistance in Gram-Negative Bacterial Pathogens. mBio, 12(3), e0098721.
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The SARS-Coronavirus Infection Cycle: A Survey of Viral Membrane Proteins, Their Functional Interactions and Pathogenesis

Published in IJMS Membrane Proteins: Structure, Function and Motion, 2021

In this extensive review, we document the most recent information on Coronavirus proteins, with emphasis on the membrane proteins in the Coronaviridae family. We include information on their structures, functions, and participation in pathogenesis.

Recommended citation: Wong, N. A., & Saier, M. H., Jr (2021). The SARS-Coronavirus Infection Cycle: A Survey of Viral Membrane Proteins, Their Functional Interactions and Pathogenesis. International journal of molecular sciences, 22(3), 1308.
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