Search Results - "Shiver, Anthony L."

Rapid SNP discovery and genetic mapping using sequenced RAD markers by Baird, Nathan A, Etter, Paul D, Atwood, Tressa S, Currey, Mark C, Shiver, Anthony L, Lewis, Zachary A, Selker, Eric U, Cresko, William A, Johnson, Eric A

“…Single nucleotide polymorphism (SNP) discovery and genotyping are essential to genetic mapping. There remains a need for a simple, inexpensive platform that…”
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Role for dithiolopyrrolones in disrupting bacterial metal homeostasis by Chan, Andrew N., Shiver, Anthony L., Wever, Walter J., Razvi, Sayyeda Zeenat A., Traxler, Matthew F., Li, Bo

“…Natural products harbor unique and complex structures that provide valuable antibiotic scaffolds. With an increase in antibiotic resistance, natural products…”
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Mechanically resolved imaging of bacteria using expansion microscopy by Lim, Youngbin, Shiver, Anthony L, Khariton, Margarita, Lane, Keara M, Ng, Katharine M, Bray, Samuel R, Qin, Jian, Huang, Kerwyn Casey, Wang, Bo

“…Imaging dense and diverse microbial communities has broad applications in basic microbiology and medicine, but remains a grand challenge due to the fact that…”
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M-TUBE enables large-volume bacterial gene delivery using a high-throughput microfluidic electroporation platform by Huang, Po-Hsun, Chen, Sijie, Shiver, Anthony L, Culver, Rebecca Neal, Huang, Kerwyn Casey, Buie, Cullen R

“…Conventional cuvette-based and microfluidics-based electroporation approaches for bacterial gene delivery have distinct advantages, but they are typically…”
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DksA regulates RNA polymerase in Escherichia coli through a network of interactions in the secondary channel that includes Sequence Insertion 1 by Parshin, Andrey, Shiver, Anthony L, Lee, Jookyung, Ozerova, Maria, Schneidman-Duhovny, Dina, Gross, Carol A, Borukhov, Sergei

“…Sensing and responding to nutritional status is a major challenge for microbial life. In Escherichia coli, the global response to amino acid starvation is…”
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Construction and characterization of a genome-scale ordered mutant collection of Bacteroides thetaiotaomicron by Arjes, Heidi A, Sun, Jiawei, Liu, Hualan, Nguyen, Taylor H, Culver, Rebecca N, Celis, Arianna I, Walton, Sophie Jean, Vasquez, Kimberly S, Yu, Feiqiao Brian, Xue, Katherine S, Newton, Daniel, Zermeno, Ricardo, Weglarz, Meredith, Deutschbauer, Adam, Huang, Kerwyn Casey, Shiver, Anthony L

“…Ordered transposon-insertion collections, in which specific transposon-insertion mutants are stored as monocultures in a genome-scale collection, represent a…”
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A Chemical-Genomic Screen of Neglected Antibiotics Reveals Illicit Transport of Kasugamycin and Blasticidin S by Shiver, Anthony L, Osadnik, Hendrik, Kritikos, George, Li, Bo, Krogan, Nevan, Typas, Athanasios, Gross, Carol A

“…Fighting antibiotic resistance requires a deeper understanding of the genetic factors that determine the antibiotic susceptibility of bacteria. Here we…”
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Randomly barcoded transposon mutant libraries for gut commensals I: Strategies for efficient library construction by Tripathi, Surya, Voogdt, Carlos Geert Pieter, Bassler, Stefan Oliver, Anderson, Mary, Huang, Po-Hsun, Sakenova, Nazgul, Capraz, Tümay, Jain, Sunit, Koumoutsi, Alexandra, Bravo, Afonso Martins, Trotter, Valentine, Zimmerman, Michael, Sonnenburg, Justin L., Buie, Cullen, Typas, Athanasios, Deutschbauer, Adam M., Shiver, Anthony L., Huang, Kerwyn Casey

“…Randomly barcoded transposon mutant libraries are powerful tools for studying gene function and organization, assessing gene essentiality and pathways,…”
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DNA methylation and normal chromosome behavior in Neurospora depend on five components of a histone methyltransferase complex, DCDC by Lewis, Zachary A, Adhvaryu, Keyur K, Honda, Shinji, Shiver, Anthony L, Knip, Marijn, Sack, Ragna, Selker, Eric U

“…Methylation of DNA and of Lysine 9 on histone H3 (H3K9) is associated with gene silencing in many animals, plants, and fungi. In Neurospora crassa, methylation…”
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Randomly barcoded transposon mutant libraries for gut commensals II: Applying libraries for functional genetics by Voogdt, Carlos Geert Pieter, Tripathi, Surya, Bassler, Stefan Oliver, McKeithen-Mead, Saria A., Guiberson, Emma R., Koumoutsi, Alexandra, Bravo, Afonso Martins, Buie, Cullen, Zimmermann, Michael, Sonnenburg, Justin L., Typas, Athanasios, Deutschbauer, Adam M., Shiver, Anthony L., Huang, Kerwyn Casey

“…The critical role of the intestinal microbiota in human health and disease is well recognized. Nevertheless, there are still large gaps in our understanding of…”
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Correction: A Chemical-Genomic Screen of Neglected Antibiotics Reveals Illicit Transport of Kasugamycin and Blasticidin S by Shiver, Anthony L, Osadnik, Hendrik, Kritikos, George, Li, Bo, Krogan, Nevan, Typas, Athanasios, Gross, Carol A

“…[This corrects the article DOI: 10.1371/journal.pgen.1006124.]…”
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Identification of DIM-7, a protein required to target the DIM-5 H3 methyltransferase to chromatin by Lewis, Zachary A, Adhvaryu, Keyur K, Honda, Shinji, Shiver, Anthony L, Selker, Eric U

“…Functionally distinct chromatin domains are delineated by distinct posttranslational modifications of histones, and in some organisms by differences in DNA…”
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Design, construction, and in vivo augmentation of a complex gut microbiome by Cheng, Alice G., Ho, Po-Yi, Aranda-Díaz, Andrés, Jain, Sunit, Yu, Feiqiao B., Meng, Xiandong, Wang, Min, Iakiviak, Mikhail, Nagashima, Kazuki, Zhao, Aishan, Murugkar, Pallavi, Patil, Advait, Atabakhsh, Katayoon, Weakley, Allison, Yan, Jia, Brumbaugh, Ariel R., Higginbottom, Steven, Dimas, Alejandra, Shiver, Anthony L., Deutschbauer, Adam, Neff, Norma, Sonnenburg, Justin L., Huang, Kerwyn Casey, Fischbach, Michael A.

“…Efforts to model the human gut microbiome in mice have led to important insights into the mechanisms of host-microbe interactions. However, the model…”
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A Comprehensive, CRISPR-based Functional Analysis of Essential Genes in Bacteria by Peters, Jason M., Colavin, Alexandre, Shi, Handuo, Czarny, Tomasz L., Larson, Matthew H., Wong, Spencer, Hawkins, John S., Lu, Candy H.S., Koo, Byoung-Mo, Marta, Elizabeth, Shiver, Anthony L., Whitehead, Evan H., Weissman, Jonathan S., Brown, Eric D., Qi, Lei S., Huang, Kerwyn Casey, Gross, Carol A.

“…Essential gene functions underpin the core reactions required for cell viability, but their contributions and relationships are poorly studied in vivo. Using…”
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Rapid ordering of barcoded transposon insertion libraries of anaerobic bacteria by Shiver, Anthony L., Culver, Rebecca, Deutschbauer, Adam M., Huang, Kerwyn Casey

“…Commensal bacteria from the human intestinal microbiota play important roles in health and disease. Research into the mechanisms by which these bacteria exert…”
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A genome-wide screen in Escherichia coli reveals that ubiquinone is a key antioxidant for metabolism of long-chain fatty acids by Agrawal, Shashank, Jaswal, Kanchan, Shiver, Anthony L., Balecha, Himanshi, Patra, Tapas, Chaba, Rachna

“…Long-chain fatty acids (LCFAs) are used as a rich source of metabolic energy by several bacteria including important pathogens. Because LCFAs also induce…”
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Functional genetics of human gut commensal Bacteroides thetaiotaomicron reveals metabolic requirements for growth across environments by Liu, Hualan, Shiver, Anthony L., Price, Morgan N., Carlson, Hans K., Trotter, Valentine V., Chen, Yan, Escalante, Veronica, Ray, Jayashree, Hern, Kelsey E., Petzold, Christopher J., Turnbaugh, Peter J., Huang, Kerwyn Casey, Arkin, Adam P., Deutschbauer, Adam M.

“…Harnessing the microbiota for beneficial outcomes is limited by our poor understanding of the constituent bacteria, as the functions of most of their genes are…”
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Cutting the Gordian Knot of the Microbiota by Vasquez, Kimberly S., Shiver, Anthony L., Huang, Kerwyn Casey

“…The gut microbiota plays a central role in human health. Studies by Tramontano et al. (2018) and Maier et al. (2018) improve our understanding of the…”
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Chemical-genetic interrogation of RNA polymerase mutants reveals structure-function relationships and physiological tradeoffs by Shiver, Anthony L., Osadnik, Hendrik, Peters, Jason M., Mooney, Rachel A., Wu, Peter I., Henry, Kemardo K., Braberg, Hannes, Krogan, Nevan J., Hu, James C., Landick, Robert, Huang, Kerwyn Casey, Gross, Carol A.

“…The multi-subunit bacterial RNA polymerase (RNAP) and its associated regulators carry out transcription and integrate myriad regulatory signals. Numerous…”
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High-throughput bacterial functional genomics in the sequencing era by Gray, Andrew N, Koo, Byoung-Mo, Shiver, Anthony L, Peters, Jason M, Osadnik, Hendrik, Gross, Carol A

“…Highlights • High-throughput phenotyping accelerates understanding of gene function and network. • Tn-seq is enabling functional genomics in a diverse set of…”
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