Andrographolide, an Antioxidant, Counteracts Paraquat- Induced Mutagenesis in Mammalian Cells by Tajai, Preechaya, Suriyo, Tawit, Rangkadilok, Nuchanart, Fedeles, Bogdan I, Essigmann, John M., Satayavivad, Jutamaad

“…The present study employed the mammalian cell line AS52 to investigate the protective effect of AP1 against PQ-induced mutagenesis. AP1 induced cytotoxicity in AS52 cells in a dose-dependent manner (IC50 = 15.7 µM), which allowed the selection of a non-lethal dose for the mutagenesis studies. …”
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Chemical biology of mutagenesis and DNA repair: cellular responses to DNA alkylation by Shrivastav, Nidhi, Li, Deyu, Essigmann, John M.

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Site-Directed Mutagenesis to Improve Sensitivity of a Synthetic Two-Component Signaling System by Shehata, Laila, Kuldell, Natalie, Olshefsky, Audrey E.

“…We performed site-directed mutagenesis near the phosphotransfer site of Cph8 to isolate mutants with potentially improved image contrast. …”
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BCL11A enhancer dissection by Cas9-mediated in situ saturating mutagenesis by Canver, Matthew C., Smith, Elenoe C., Sher, Falak, Pinello, Luca, Shalem, Ophir, Chen, Diane D., Schupp, Patrick G., Vinjamur, Divya S., Garcia, Sara P., Luc, Sidinh, Kurita, Ryo, Nakamura, Yukio, Fujiwara, Yuko, Maeda, Takahiro, Yuan, Guo-Cheng, Zhang, Feng, Orkin, Stuart H., Bauer, Daniel E., Sanjana, Neville

“…Here we develop pooled clustered regularly interspaced palindromic repeat (CRISPR)-Cas9 guide RNA libraries to perform in situ saturating mutagenesis of the human and mouse enhancers. This approach reveals critical minimal features and discrete vulnerabilities of these enhancers. …”
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Modulation of N-Methyl-N-nitrosourea Mutagenesis in Mouse Embryo Fibroblasts Derived from the gpt Delta Mouse by an Inhibitor of the O6-Methylguanine Methyltransferase, MGMT by Thongararm, Pennapa, Fedeles, Bogdan I., Khumsubdee, Sakunchai, Armijo, Amanda L., Croy, Robert G., Essigmann, John M.

“…The DNA repair protein MGMT (O6-methylguanine DNA methyltransferase) protects against environmental mutagenesis by DNA methylating agents and, by removing m6G, limits the therapeutic potential of Temozolomide in cancer therapy. …”
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An engineered cell line lacking OGG1 and MUTYH glycosylases implicates the accumulation of genomic 8-oxoguanine as the basis for paraquat mutagenicity by Tajai, Preechaya, Fedeles, Bogdan I, Suriyo, Tawit, Navasumrit, Panida, Kanitwithayanun, Jantamas, Essigmann, John M, Satayavivad, Jutamaad

“…Consistent with this view, antioxidant co-treatment lowered induced cellular ROS and PQ-induced mutagenesis. Taken together, our data demonstrate the strong protective role of OGG1 and MUTYH against PQ-induced mutagenesis. …”
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The etiology of uracil residues in the Saccharomyces cerevisiae genomic DNA by Stokdyk, Kasey, Kim, Nayun, Owiti, Norah Auma

“…Keyword: DNA repair; Non-canonical nucleotides; Transcription-associated mutagenesis; Uracil dUTPase…”
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Towards precision prevention: Technologies for identifying healthy individuals with high risk of disease by Nagel, Zachary D., Brenner, David J., Begley, Thomas J., Sobol, Robert W., Bielas, Jason H., Stambrook, Peter J., Wei, Qingyi, Hu, Jennifer J., Terry, Mary Beth, Dilworth, Caroline, McAllister, Kimberly A., Reinlib, Les, Worth, Leroy, Shaughnessy, Daniel T., Engelward, Bevin P

“…In this commentary, we highlight recently developed enabling technologies in the field of DNA damage, DNA repair, and mutagenesis. We propose that omics approaches and functional assays can be integrated into population studies that fuse basic, translational and clinical research with commercial expertise in order to accelerate personalized prevention and treatment of cancer and other diseases linked to aberrant responses to DNA damage. …”
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Analysis of mutations in tumor and normal adjacent tissue via fluorescence detection by Kay, Jennifer E, Mirabal, Sheyla, Briley, William E, Kimoto, Takafumi, Poutahidis, Theofilos, Ragan, Timothy, So, Peter T, Wadduwage, Dushan N, Erdman, Susan E, Engelward, Bevin P

“…Using an engineered mouse model that is prone to cancer and within which mutant cells fluoresce, here we have explored the impact of inflammation on de novo mutagenesis and clonal expansion in normal and tumor tissue. …”
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Inflammation-induced DNA damage, mutations and cancer by Kay, Jennifer Elizabeth, Thadhani, Elina, Samson, Leona D, Engelward, Bevin P

“…Here, we discuss the DNA damage-mediated associations between inflammation, mutagenesis and cancer.…”
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Recombinant cells in the lung increase with age via de novo recombination events and clonal expansion by Li, Na, Kimoto, Takafumi, Kay, Jennifer Elizabeth, Engelward, Bevin P

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Engineering adenylate cyclases regulated by near-infrared window light by Ryu, Min-Hyung, Kang, In-Hye, Nelson, Mathew D., Jensen, Tricia M., Lyuksyutova, Anna I., Siltberg-Liberles, Jessica, Raizen, David M., Gomelsky, Mark

“…Additional mutagenesis produced an enzyme with a more stable photoactivated state. …”
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The development and validation of EpiComet-Chip, a modified high-throughput comet assay for the assessment of DNA methylation status by Townsend, Todd A., Manjanatha, Mugimane G., Parrish, Marcus Curtis, Engelward, Bevin P

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Micropatterned comet assay enables high throughput and sensitive DNA damage quantification by Engelward, B. P., Ge, Jing, Chow, Danielle N., Fessler, Jessica L., Weingeist, David M., Wood, David K., Engelward, Bevin P.

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Implications of an epidemiological study showing an association between in utero NDMA exposure and childhood cancer by Engelward, Bevin P

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Enriching Peptide Libraries for Binding Affinity and Specificity Through Computationally Directed Library Design by Chen, T. Scott, Richman, Daniel, Foight, Glenna W., Keating, Amy E.

“…Libraries designed to be enriched in peptide sequences that are predicted to have desired affinity or specificity characteristics are more likely to yield success than random mutagenesis. We present a library optimization method in which the choice of amino acids to encode at each peptide position can be guided by available experimental data or structure-based predictions. …”
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Crystal structure and functional analysis of mycobacterial erythromycin resistance methyltransferase Erm38 reveals its RNA-binding site by Goh, Boon Chong, Xiang, Xinyu, Lescar, Julien, Dedon, Peter C

“…Based on structural analysis and mutagenesis, we identified several catalytically critical, positively charged residues at a putative RNA-binding site. …”
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Molecular basis for dengue virus broad cross-neutralization by humanized monoclonal antibody 513 by Wong, Yee Hwa, Kumar, Akshita, Liew, Chong Wai, Tharakaraman, Kannan, Srinivasaraghavan, Kannan, Sasisekharan, Ram, Verma, Chandra, Lescar, Julien

“…Importantly, we also validate the importance of GluH55using site-directed mutagenesis followed by isothermal titration calorimetry measurements.…”
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EXP2 is a nutrient-permeable channel in the vacuolar membrane of Plasmodium and is essential for protein export via PTEX by Garten, Matthias, Nasamu, Armiyaw S., Zimmerberg, Joshua, Goldberg, Daniel E., Beck, Josh R., Niles, Jacquin

“…Here, using regulated gene expression, mutagenesis and cell-attached patch-clamp measurements, we show that EXP2, the putative membrane-spanning channel of PTEX, serves dual roles as a protein-conducting channel in the context of PTEX and as a channel able to facilitate nutrient passage across the PVM independent of HSP101. …”
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Rapid Conformational Epitope Mapping of Anti-gp120 Antibodies with a Designed Mutant Panel Displayed on Yeast by Mata-Fink, Jordi, Kriegsman, Barry, Yu, Hui Xin, Zhu, Hanna, Wittrup, Karl Dane, Hanson, Melissa Catherine, Irvine, Darrell J

“…We map the epitope of the broadly neutralizing anti-gp120 antibody VRC01 using both a random mutagenesis library and a defined mutant panel and find that the resultant epitope maps are consistent with one another and with the crystallographically identified contact residues. …”
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