Publications
2019 - Current
Atomwise AIMS Program. AI is a viable alternative to high throughput screening: a 318-target study. Sci Rep. 2024 Apr 2;14(1):7526. doi: 10.1038/s41598-024-54655-z. PMID: 38565852; PMCID: PMC10987645. Link.
Hu Z, Gu D, Skyrud W, Du Y, Zhai R, Wang J, Zhang W. Engineered Biosynthesis and Anticancer Studies of Ring-Expanded Antimycin-Type Depsipeptides. ACS Synth Biol. 2024 Apr 28. doi: 10.1021/acssynbio.4c00193. Epub ahead of print. PMID: 38679882. Link.
Good NM, Kang-Yun CS, Su MZ, Zytnick AM, Barber CC, Vu HN, Grace JM, Nguyen HH, Zhang W, Skovran E, Fan M, Park DM, Martinez-Gomez NC. Scalable and Consolidated Microbial Platform for Rare Earth Element Leaching and Recovery from Waste Sources. Environ Sci Technol. 2024 Jan 9;58(1):570-579. Link.
Do, H., Li, ZR., Tripathi, P.K. et al. Engineered probiotic overcomes pathogen defences using signal interference and antibiotic production to treat infection in mice. Nat Microbiol (2024). Link.
Jia K, Wang J, Zhai R, Du Y, Kira J, Wu C, Qian PY, Zhang W. Abi Family Protein, DidK, Is Involved in the Maturation of Anticancer Depsipeptide, Didemnin B. ACS Chem Biol. 2023 Sep 29. doi: 10.1021/acschembio.3c00393. Epub ahead of print. PMID: 37773034. Link.
Seidel J, Du Y, Devanathan R, Law R, Hu Z, Zill NA, Iavarone AT, Zhang W. Tag and Snag: A New Platform for Bioactive Natural Product Screening from Mixtures. Molecules. 2023 Jul 28;28(15):5726. doi: 10.3390/molecules28155726. PMID: 37570695; PMCID: PMC10421080. Link.
Jenner M, Hai Y, Nguyen HH, Passmore M, Skyrud W, Kim J, Garg NK, Zhang W, Ogorzalek Loo RR, Tang Y. Elucidating the molecular programming of a nonlinear non-ribosomal peptide synthetase responsible for fungal siderophore biosynthesis. Nat Commun. 2023 May 17;14(1):2832. doi: 10.1038/s41467-023-38484-8. PMID: 37198174; PMCID: PMC10192304.
Zill NA, Du Y, Marinkovich S, Gu D, Seidel J, Zhang W. Bioactive Natural Product Discovery via Deuterium Adduct Bioactivity Screening. ACS Chem Biol. 2023 May 1. doi: 10.1021/acschembio.3c00083. PMID: 37125845. Link
Del Rio Flores A, Narayanamoorthy M, Cai W, Zhai R, Yang S, Shen Y, Seshadri K, De Matias K, Xue Z, Zhang W. Biosynthesis of Isonitrile Lipopeptide Metallophores from Pathogenic Mycobacteria. Biochemistry. 2023 Jan 13. doi: 10.1021/acs.biochem.2c00611. Epub ahead of print. PMID: 36638317. Link
McClung, D. J., Du, Y., Antonich, D. J., Bonet, B., Zhang, W., Traxler, M. F. "Harnessing Rare Actinomycete Interactions and Intrinsic Antimicrobial Resistance Enables Discovery of an Unusual Metabolic Inhibitor." mBio. 2022. Link
Gu, D., Zhang, W. "Chapter Fifteen - Engineered biosynthesis of alkyne-tagged polyketides." Meth. Enzymol. 2022, Volume 665, 347-373. Link
Del Rio Flores, A., Kastner, D. W., Du, Y., Narayanamoorthy, M., Shen, S., Cai, W., Vennelakanti, V., Zill, N. A., Dell, L. B., Zhai, R., Kulik, H. J., Zhang, W. "Probing the Mechanism of Isonitrile Formation by a Non-Heme Iron(II)-Dependent Oxidase/Decarboxylase." J. Am. Chem. Soc. 2022, 144, 13, 5893-5901. Link Selected as JACS Cover
Del Rio Flores, A., Barber, C. C., Narayanamoorthy, M., Gu, D., Shen, Y., Zhang, W. "Biosynthesis of Isonitrile- and Alkyne-Containing Natural Products." Annu. Rev. Chem. Biomol. Eng. 2022, 13:1.1 1.24.Link
Del Rio Flores, A., Twigg, F. F., Du, Y., Cai, W., Aguirre, D. Q., Sato, M., Dror, M. J., Narayanamoorthy, M., Geng, J., Zill, N. A., Zhai, R., Zhang, W. "Biosynthesis of triacsin featuring an N-hydroxytriazene pharmacophore." Nat. Chem. Biol. 2021, 17, 1305-1313. Link Recommended on Faculty Opinions
Li, Z., Sun, J., Du, Y., Pan, A., Zeng, L., Maboudian, R., Burne, R., Qian, P., Zhang, W. "Mutanofactin promotes adhesion and biofilm formation of cariogenic Streptococcus mutans." Nat. Chem. Biol. 2021, https://doi.org/10.1038/s41589-021-00745-2. Link
Barber, C., Zhang, W. "Small molecule natural products in human nasal/oral microbiota." J. Ind. Microbiol. Biotechnol. 2021, kuab010, https://doi.org/10.1093/jimb/kuab010. Link
Jonnalagadda, R., Del Rio Flores, A., Cai, W., Mehmood, R., Narayanamoorthy, M., Ren, C., Zaragoza, J., Kulik, H., Zhang, W., Drennan, C. "Biochemical and crystallographic investigations into isonitrile formation by a non-heme iron-dependent oxidase/decarboxylase." J. Biol. Chem. 2021
Li, J., Du, Y., Gu, D., Cai, W., Green, A., Ng, S., Leung, A., Del Rio Flores, A., Zhang, W. "Discovery and biosynthesis of clostyrylpyrones from the obligate anaerobe Clostridium roseum." Org. Lett. 2020, 22, 21, 8204-8209.
Zou, L., Spanogiannopoulos, P., Pieper, L.M., Chien, H-C., Cai, W., Khuri, N., Pottel, J., Vora, B., Ni, Z., Tsakalozou, E., Zhang, W., Shoichet, B.K., Giacomini, K.M., Turnbaugh, P.J. "Bacterial metabolism rescues the inhibition of intestinal drug absorption by food and drug additives." PNAS. 2020, 117, 27, 16009-16018. Link
Xu, P., Modavi, C., Demaree, B., Twigg, F., Liang, B., Sun, C., Zhang, W., Abate, A. "Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery." Nucleic Acids Res. 2020, 48, 8, e48. Link
Li, J., Barber, C., Herman, N., Cai, W., Zafrir, E., Du, Y., Zhu, X., Skyrud, W., Zhang, W. "Investigation of secondary metabolism in the industrial butanol hyper-producer Clostridium saccharoperbutylacetonicum N1-4." J. Ind. Microbiol. & Biot. 2020, 47, 319-328. Link
Porterfield, W., Poenateetai, N., Zhang, W. "Engineered Biosynthesis of Alkyne-tagged Polyketides by Type I PKSs." iScience. 2020, 23, 100938. Link Highlight in Trends in Biotechnology
Skyrud, W., Del Rio Flores, A., Zhang, W. "Biosynthesis of Cyclohexanecarboxyl-CoA Highlights a Promiscuous Shikimoyl-CoA Synthetase and a FAD-Dependent Dehydratase." ACS Catal. 2020, 10, 5, 3360-3364. Link
Huang, Y., Cai, W., Del Rio Flores, A., Twigg, F. F., Zhang, W. "Facile Discovery and Quantification of Isonitrile Natural Products via Tetrazine-Based Click Reactions." Anal. Chem. 2020, 92, 1, 599-602. Link
Hu, Z., Zhang, W. "Signaling Natural Products from Human Pathogenic Bacteria." ACS Infect. Dis. 2020, 6, 1, 25-33. Link
Zhang, B., Rajakovich, L., Cura, D., Blaesi, E., Mitchell, A., Tysoe, C., Zhu, X., Streit, B., Rui, Z., Zhang, W., Boal, A., Krebs, C., Bollinger, J. M. "Substrate-triggered Formation of a Peroxo-Fe2(III/III) Intermediate during Fatty Acid Decarboxylation by UndA." J. Am. Chem. Soc. 2019, 141, 37, 14510-14514. Link
Richards, J., Cai, W., Zill, N., Zhang, W., Ojha, A. "Adaption of Mycobacterium tuberculosis to biofilm growth is genetically linked to drug tolerance." Antimicrob. Agents Chemother. 2019, 63, 11, e01213-19. Link
Li, Z., Li, J., Cai, W., Lai, J. Y. H., McKinnie, S. M. K., Zhang, W., Moore, B. S., Zhang, W., Qian, P. "Macrocyclic colibactin induces DNA double-strand breaks via copper-mediated oxidative cleavage." Nat. Chem. 2019, 11, 880-889. Link
Seidel, J., Miao, Y., Porterfield, W., Cai, W., Zhu, X., Kim, S., Hu, F., Bhattarai-Kline, S., Min, W., Zhang, W. "Structure-activity-distribution relationship study of anti-cancer antimycin-type depsipetides." Chem. Commun. 2019, 55, 9379-9382. Link
Twigg, F. F., W. Cai, W. Huang, J. Liu, M. Sato, T. J. Perez, J. Geng, M. J. Dror, I. Montanez, T. L. Tong, H. Lee, and W. Zhang. "Identifying the Biosynthetic Gene Cluster for Triacsins with an N-hydroxytriazene Moiety." ChemBioChem. 2019, 20, 1145-1149. (VIP, ChemBioTalents) Link
Li, J. S., C. C. Barber, and W. Zhang. "Natural products from anaerobes." J. Ind. Microbiol. Biotechnol. 2019, 46, 375-383. Link
Harris, N., D. Born, W. Cai, Y. Huang, J. Martin, R. Khalaf, C. Drennan, and W. Zhang. "Isonitrile Formation by a Non-heme Iron(II)-Dependent Oxidase/Decarboxylase." Angew. Chem. 2018, 57, 9707-9710. (VIP) Link
