Deciphering drug resistance in Mycobacterium tuberculosis using whole-genome sequencing: progress, promise, and challenges von Cohen, Keira A, Manson, Abigail L, Desjardins, Christopher A, Abeel, Thomas, Earl, Ashlee M

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Ubiquitin-mediated response to microsporidia and virus infection in C. elegans von Bakowski, Malina A, Desjardins, Christopher A, Smelkinson, Margery G, Dunbar, Tiffany L, Dunbar, Tiffany A, Lopez-Moyado, Isaac F, Rifkin, Scott A, Cuomo, Christina A, Troemel, Emily R

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Titan cells formation in Cryptococcus neoformans is finely tuned by environmental conditions and modulated by positive and negative genetic regulators von Hommel, Benjamin, Mukaremera, Liliane, Cordero, Radames J B, Coelho, Carolina, Desjardins, Christopher A, Sturny-Leclère, Aude, Janbon, Guilhem, Perfect, John R, Fraser, James A, Casadevall, Arturo, Cuomo, Christina A, Dromer, Françoise, Nielsen, Kirsten, Alanio, Alexandre

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Antagonistic paralogs control a switch between growth and pathogen resistance in C. elegans von Reddy, Kirthi C, Dror, Tal, Underwood, Ryan S, Osman, Guled A, Elder, Corrina R, Desjardins, Christopher A, Cuomo, Christina A, Barkoulas, Michalis, Troemel, Emily R

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Advances in Cryptococcus genomics: insights into the evolution of pathogenesis von Cuomo, Christina A, Rhodes, Johanna, Desjardins, Christopher A

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Comparative and functional genomics of Rhodococcus opacus PD630 for biofuels development von Holder, Jason W, Ulrich, Jil C, DeBono, Anthony C, Godfrey, Paul A, Desjardins, Christopher A, Zucker, Jeremy, Zeng, Qiandong, Leach, Alex L B, Ghiviriga, Ion, Dancel, Christine, Abeel, Thomas, Gevers, Dirk, Kodira, Chinnappa D, Desany, Brian, Affourtit, Jason P, Birren, Bruce W, Sinskey, Anthony J

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Genomics of Loa loa, a Wolbachia-free filarial parasite of humans von Desjardins, Christopher A, Cerqueira, Gustavo C, Goldberg, Jonathan M, Hotopp, Julie C Dunning, Haas, Brian J, Zucker, Jeremy, Ribeiro, José M C, Saif, Sakina, Levin, Joshua Z, Fan, Lin, Zeng, Qiandong, Russ, Carsten, Wortman, Jennifer R, Fink, Doran L, Birren, Bruce W, Nutman, Thomas B

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Baeyer-Villiger Monooxygenases EthA and MymA Are Required for Activation of Replicating and Non-replicating Mycobacterium tuberculosis Inhibitors von Grant, Sarah Schmidt, Wellington, Samantha, Kawate, Tomohiko, Desjardins, Christopher A., Silvis, Melanie R., Wivagg, Carl, Thompson, Matthew, Gordon, Katherine, Kazyanskaya, Edward, Nietupski, Raymond, Haseley, Nathan, Iwase, Noriaki, Earl, Ashlee M., Fitzgerald, Michael, Hung, Deborah T.

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Distinct Escherichia coli transcriptional profiles in the guts of recurrent UTI sufferers revealed by pangenome hybrid selection von Young, Mark G., Straub, Timothy J., Worby, Colin J., Metsky, Hayden C., Gnirke, Andreas, Bronson, Ryan A., van Dijk, Lucas R., Desjardins, Christopher A., Matranga, Christian, Qu, James, Villicana, Jesús Bazan, Azimzadeh, Philippe, Kau, Andrew, Dodson, Karen W., Schreiber, Henry L., Manson, Abigail L., Hultgren, Scott J., Earl, Ashlee M.

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Genome Evolution and Innovation across the Four Major Lineages of Cryptococcus gattii von Farrer, Rhys A, Desjardins, Christopher A, Sakthikumar, Sharadha, Gujja, Sharvari, Saif, Sakina, Zeng, Qiandong, Chen, Yuan, Voelz, Kerstin, Heitman, Joseph, May, Robin C, Fisher, Matthew C, Cuomo, Christina A

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Evolutionary dynamics of the accessory genome of Listeria monocytogenes von den Bakker, Henk C, Desjardins, Christopher A, Griggs, Allison D, Peters, Joseph E, Zeng, Qiandong, Young, Sarah K, Kodira, Chinnappa D, Yandava, Chandri, Hepburn, Theresa A, Haas, Brian J, Birren, Bruce W, Wiedmann, Martin

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Limited effects of long-term daily cranberry consumption on the gut microbiome in a placebo-controlled study of women with recurrent urinary tract infections von Straub, Timothy J, Chou, Wen-Chi, Manson, Abigail L, Schreiber, 4th, Henry L, Walker, Bruce J, Desjardins, Christopher A, Chapman, Sinéad B, Kaspar, Kerrie L, Kahsai, Orsalem J, Traylor, Elizabeth, Dodson, Karen W, Hullar, Meredith A J, Hultgren, Scott J, Khoo, Christina, Earl, Ashlee M

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Whole Genome Sequencing of Mycobacterium africanum Strains from Mali Provides Insights into the Mechanisms of Geographic Restriction von Winglee, Kathryn, Manson McGuire, Abigail, Maiga, Mamoudou, Abeel, Thomas, Shea, Terrance, Desjardins, Christopher A, Diarra, Bassirou, Baya, Bocar, Sanogo, Moumine, Diallo, Souleymane, Earl, Ashlee M, Bishai, William R

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Comparative genomics of vancomycin-resistant Staphylococcus aureus strains and their positions within the clade most commonly associated with Methicillin-resistant S. aureus hospit... von Kos, Veronica N, Desjardins, Christopher A, Griggs, Allison, Cerqueira, Gustavo, Van Tonder, Andries, Holden, Matthew T G, Godfrey, Paul, Palmer, Kelli L, Bodi, Kip, Mongodin, Emmanuel F, Wortman, Jennifer, Feldgarden, Michael, Lawley, Trevor, Gill, Steven R, Haas, Brian J, Birren, Bruce, Gilmore, Michael S

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Simultaneous Emergence of Multidrug-Resistant Candida auris on 3 Continents Confirmed by Whole-Genome Sequencing and Epidemiological Analyses von Lockhart, Shawn R., Etienne, Kizee A., Vallabhaneni, Snigdha, Farooqi, Joveria, Chowdhary, Anuradha, Govender, Nelesh P., Colombo, Arnaldo Lopes, Calvo, Belinda, Cuomo, Christina A., Desjardins, Christopher A., Berkow, Elizabeth L., Castanheira, Mariana, Magobo, Rindidzani E., Jabeen, Kauser, Asghar, Rana J., Meis, Jacques F., Jackson, Brendan, Chiller, Tom, Litvintseva, Anastasia P.

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Fatal nosocomial MDR TB identified through routine genetic analysis and whole-genome sequencing von Williams, O Martin, Abeel, Thomas, Casali, Nicola, Cohen, Keira, Pym, Alex S, Mungall, Sarah B, Desjardins, Christopher A, Banerjee, Anindo, Drobniewski, Francis, Earl, Ashlee M, Cooke, Graham S

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Recombination and Its Impact on the Genome of the Haplodiploid Parasitoid Wasp Nasonia von Niehuis, Oliver, Gibson, Joshua D, Rosenberg, Michael S, Pannebakker, Bart A, Koevoets, Tosca, Judson, Andrea K, Desjardins, Christopher A, Kennedy, Kathleen, Duggan, David, Beukeboom, Leo W, Zande, Louis van de, Shuker, David M, Werren, John H, Gadau, Jürgen

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Population genomics and the evolution of virulence in the fungal pathogen Cryptococcus neoformans von Desjardins, Christopher A, Giamberardino, Charles, Sykes, Sean M, Yu, Chen-Hsin, Tenor, Jennifer L, Chen, Yuan, Yang, Timothy, Jones, Alexander M, Sun, Sheng, Haverkamp, Miriam R, Heitman, Joseph, Litvintseva, Anastasia P, Perfect, John R, Cuomo, Christina A

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Accelerated microevolution in an outer membrane protein (OMP) of the intracellular bacteria Wolbachia von Baldo, Laura, Desjardins, Christopher A, Russell, Jacob A, Stahlhut, Julie K, Werren, John H

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Microsporidian genome analysis reveals evolutionary strategies for obligate intracellular growth von Cuomo, Christina A, Desjardins, Christopher A, Bakowski, Malina A, Goldberg, Jonathan, Ma, Amy T, Becnel, James J, Didier, Elizabeth S, Fan, Lin, Heiman, David I, Levin, Joshua Z, Young, Sarah, Zeng, Qiandong, Troemel, Emily R

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