Tracing the Evolutionary History and Global Expansion of Candida auris Using Population Genomic Analyses

por Chow, Nancy A., Muñoz, José F., Gade, Lalitha, Berkow, Elizabeth L., Li, Xiao, Welsh, Rory M., Forsberg, Kaitlin, Lockhart, Shawn R., Adam, Rodney, Alanio, Alexandre, Alastruey-Izquierdo, Ana, Althawadi, Sahar, Araúz, Ana Belén, Ben-Ami, Ronen, Bharat, Amrita, Calvo, Belinda, Desnos-Ollivier, Marie, Escandón, Patricia, Gardam, Dianne, Gunturu, Revathi, Heath, Christopher H., Kurzai, Oliver, Martin, Ronny, Litvintseva, Anastasia P., Cuomo, Christina A.
Publicado 2020

Genomic insights into the host specific adaptation of the Pneumocystis genus

por Cissé, Ousmane H., Ma, Liang, Dekker, John P., Khil, Pavel P., Youn, Jung-Ho, Brenchley, Jason M., Blair, Robert, Pahar, Bapi, Chabé, Magali, Van Rompay, Koen K. A., Keesler, Rebekah, Sukura, Antti, Hirsch, Vanessa, Kutty, Geetha, Liu, Yueqin, Peng, Li, Chen, Jie, Song, Jun, Weissenbacher-Lang, Christiane, Xu, Jie, Upham, Nathan S., Stajich, Jason E., Cuomo, Christina A., Cushion, Melanie T., Kovacs, Joseph A.
Publicado 2021

Comparing genomic variant identification protocols for Candida auris

por Li, Xiao, Muñoz, José F., Gade, Lalitha, Argimon, Silvia, Bougnoux, Marie-Elisabeth, Bowers, Jolene R., Chow, Nancy A., Cuesta, Isabel, Farrer, Rhys A., Maufrais, Corinne, Monroy-Nieto, Juan, Pradhan, Dibyabhaba, Uehling, Jessie, Vu, Duong, Yeats, Corin A., Aanensen, David M., d’Enfert, Christophe, Engelthaler, David M., Eyre, David W., Fisher, Matthew C., Hagen, Ferry, Meyer, Wieland, Singh, Gagandeep, Alastruey-Izquierdo, Ana, Litvintseva, Anastasia P., Cuomo, Christina A.
Publicado 2023

The Dynamic Genome and Transcriptome of the Human Fungal Pathogen Blastomyces and Close Relative Emmonsia

por Muñoz, José F., Gauthier, Gregory M., Desjardins, Christopher A., Gallo, Juan E., Holder, Jason, Sullivan, Thomas D., Marty, Amber J., Carmen, John C., Chen, Zehua, Ding, Li, Gujja, Sharvari, Magrini, Vincent, Misas, Elizabeth, Mitreva, Makedonka, Priest, Margaret, Saif, Sakina, Whiston, Emily A., Young, Sarah, Zeng, Qiandong, Goldman, William E., Mardis, Elaine R., Taylor, John W., McEwen, Juan G., Clay, Oliver K., Klein, Bruce S., Cuomo, Christina A.
Publicado 2015

Tracing Genetic Exchange and Biogeography of Cryptococcus neoformans var. grubii at the Global Population Level

por Rhodes, Johanna, Desjardins, Christopher A., Sykes, Sean M., Beale, Mathew A., Vanhove, Mathieu, Sakthikumar, Sharadha, Chen, Yuan, Gujja, Sharvari, Saif, Sakina, Chowdhary, Anuradha, Lawson, Daniel John, Ponzio, Vinicius, Colombo, Arnaldo Lopes, Meyer, Wieland, Engelthaler, David M., Hagen, Ferry, Illnait-Zaragozi, Maria Teresa, Alanio, Alexandre, Vreulink, Jo-Marie, Heitman, Joseph, Perfect, John R., Litvintseva, Anastasia P., Bicanic, Tihana, Harrison, Thomas S., Fisher, Matthew C., Cuomo, Christina A.
Publicado 2017

Comparative Genome Analysis of Trichophyton rubrum and Related Dermatophytes Reveals Candidate Genes Involved in Infection

por Martinez, Diego A., Oliver, Brian G., Gräser, Yvonne, Goldberg, Jonathan M., Li, Wenjun, Martinez-Rossi, Nilce M., Monod, Michel, Shelest, Ekaterina, Barton, Richard C., Birch, Elizabeth, Brakhage, Axel A., Chen, Zehua, Gurr, Sarah J., Heiman, David, Heitman, Joseph, Kosti, Idit, Rossi, Antonio, Saif, Sakina, Samalova, Marketa, Saunders, Charles W., Shea, Terrance, Summerbell, Richard C., Xu, Jun, Young, Sarah, Zeng, Qiandong, Birren, Bruce W., Cuomo, Christina A., White, Theodore C.
Publicado 2012

Comparative Genomics Yields Insights into Niche Adaptation of Plant Vascular Wilt Pathogens

por Klosterman, Steven J., Subbarao, Krishna V., Kang, Seogchan, Veronese, Paola, Gold, Scott E., Thomma, Bart P. H. J., Chen, Zehua, Henrissat, Bernard, Lee, Yong-Hwan, Park, Jongsun, Garcia-Pedrajas, Maria D., Barbara, Dez J., Anchieta, Amy, de Jonge, Ronnie, Santhanam, Parthasarathy, Maruthachalam, Karunakaran, Atallah, Zahi, Amyotte, Stefan G., Paz, Zahi, Inderbitzin, Patrik, Hayes, Ryan J., Heiman, David I., Young, Sarah, Zeng, Qiandong, Engels, Reinhard, Galagan, James, Cuomo, Christina A., Dobinson, Katherine F., Ma, Li-Jun
Publicado 2011

Diploid-dominant life cycles characterize the early evolution of Fungi

por Amses, Kevin R., Simmons, D. Rabern, Longcore, Joyce E., Mondo, Stephen J., Seto, Kensuke, Jerônimo, Gustavo H., Bonds, Anne E., Quandt, C. Alisha, Davis, William J., Chang, Ying, Federici, Brian A., Kuo, Alan, LaButti, Kurt, Pangilinan, Jasmyn, Andreopoulos, William, Tritt, Andrew, Riley, Robert, Hundley, Hope, Johnson, Jenifer, Lipzen, Anna, Barry, Kerrie, Lang, B. Franz, Cuomo, Christina A., Buchler, Nicolas E., Grigoriev, Igor V., Spatafora, Joseph W., Stajich, Jason E., James, Timothy Y.
Publicado 2022

Diversity and Complexity of the Large Surface Protein Family in the Compacted Genomes of Multiple Pneumocystis Species

por Ma, Liang, Chen, Zehua, Huang, Da Wei, Cissé, Ousmane H., Rothenburger, Jamie L., Latinne, Alice, Bishop, Lisa, Blair, Robert, Brenchley, Jason M., Chabé, Magali, Deng, Xilong, Hirsch, Vanessa, Keesler, Rebekah, Kutty, Geetha, Liu, Yueqin, Margolis, Daniel, Morand, Serge, Pahar, Bapi, Peng, Li, Van Rompay, Koen K. A., Song, Xiaohong, Song, Jun, Sukura, Antti, Thapar, Sabrina, Wang, Honghui, Weissenbacher-Lang, Christiane, Xu, Jie, Lee, Chao-Hung, Jardine, Claire, Lempicki, Richard A., Cushion, Melanie T., Cuomo, Christina A., Kovacs, Joseph A.
Publicado 2020

Genomic Analysis of the Basal Lineage Fungus Rhizopus oryzae Reveals a Whole-Genome Duplication

por Ma, Li-Jun, Ibrahim, Ashraf S., Skory, Christopher, Grabherr, Manfred G., Burger, Gertraud, Butler, Margi, Elias, Marek, Idnurm, Alexander, Lang, B. Franz, Sone, Teruo, Abe, Ayumi, Calvo, Sarah E., Corrochano, Luis M., Engels, Reinhard, Fu, Jianmin, Hansberg, Wilhelm, Kim, Jung-Mi, Kodira, Chinnappa D., Koehrsen, Michael J., Liu, Bo, Miranda-Saavedra, Diego, O'Leary, Sinead, Ortiz-Castellanos, Lucila, Poulter, Russell, Rodriguez-Romero, Julio, Ruiz-Herrera, José, Shen, Yao-Qing, Zeng, Qiandong, Galagan, James, Birren, Bruce W., Cuomo, Christina A., Wickes, Brian L.
Publicado 2009

Inter-species geographic signatures for tracing horizontal gene transfer and long-term persistence of carbapenem resistance

por Salamzade, Rauf, Manson, Abigail L., Walker, Bruce J., Brennan-Krohn, Thea, Worby, Colin J., Ma, Peijun, He, Lorrie L., Shea, Terrance P., Qu, James, Chapman, Sinéad B., Howe, Whitney, Young, Sarah K., Wurster, Jenna I., Delaney, Mary L., Kanjilal, Sanjat, Onderdonk, Andrew B., Bittencourt, Cassiana E., Gussin, Gabrielle M., Kim, Diane, Peterson, Ellena M., Ferraro, Mary Jane, Hooper, David C., Shenoy, Erica S., Cuomo, Christina A., Cosimi, Lisa A., Huang, Susan S., Kirby, James E., Pierce, Virginia M., Bhattacharyya, Roby P., Earl, Ashlee M.
Publicado 2022

The Case for Adopting the “Species Complex” Nomenclature for the Etiologic Agents of Cryptococcosis

por Kwon-Chung, Kyung J., Bennett, John E., Wickes, Brian L., Meyer, Wieland, Cuomo, Christina A., Wollenburg, Kurt R., Bicanic, Tihana A., Castañeda, Elizabeth, Chang, Yun C., Chen, Jianghan, Cogliati, Massimo, Dromer, Françoise, Ellis, David, Filler, Scott G., Fisher, Matthew C., Harrison, Thomas S., Holland, Steven M., Kohno, Shigeru, Kronstad, James W., Lazera, Marcia, Levitz, Stuart M., Lionakis, Michail S., May, Robin C., Ngamskulrongroj, Popchai, Pappas, Peter G., Perfect, John R., Rickerts, Volker, Sorrell, Tania C., Walsh, Thomas J., Williamson, Peter R., Xu, Jianping, Zelazny, Adrian M., Casadevall, Arturo
Publicado 2017

Genome analysis of three Pneumocystis species reveals adaptation mechanisms to life exclusively in mammalian hosts

por Ma, Liang, Chen, Zehua, Huang, Da Wei, Kutty, Geetha, Ishihara, Mayumi, Wang, Honghui, Abouelleil, Amr, Bishop, Lisa, Davey, Emma, Deng, Rebecca, Deng, Xilong, Fan, Lin, Fantoni, Giovanna, Fitzgerald, Michael, Gogineni, Emile, Goldberg, Jonathan M., Handley, Grace, Hu, Xiaojun, Huber, Charles, Jiao, Xiaoli, Jones, Kristine, Levin, Joshua Z., Liu, Yueqin, Macdonald, Pendexter, Melnikov, Alexandre, Raley, Castle, Sassi, Monica, Sherman, Brad T., Song, Xiaohong, Sykes, Sean, Tran, Bao, Walsh, Laura, Xia, Yun, Yang, Jun, Young, Sarah, Zeng, Qiandong, Zheng, Xin, Stephens, Robert, Nusbaum, Chad, Birren, Bruce W., Azadi, Parastoo, Lempicki, Richard A., Cuomo, Christina A., Kovacs, Joseph A.
Publicado 2016

Comparative Genomic Analysis of Human Fungal Pathogens Causing Paracoccidioidomycosis

por Desjardins, Christopher A., Champion, Mia D., Holder, Jason W., Muszewska, Anna, Goldberg, Jonathan, Bailão, Alexandre M., Brigido, Marcelo Macedo, Ferreira, Márcia Eliana da Silva, Garcia, Ana Maria, Grynberg, Marcin, Gujja, Sharvari, Heiman, David I., Henn, Matthew R., Kodira, Chinnappa D., León-Narváez, Henry, Longo, Larissa V. G., Ma, Li-Jun, Malavazi, Iran, Matsuo, Alisson L., Morais, Flavia V., Pereira, Maristela, Rodríguez-Brito, Sabrina, Sakthikumar, Sharadha, Salem-Izacc, Silvia M., Sykes, Sean M., Teixeira, Marcus Melo, Vallejo, Milene C., Walter, Maria Emília Machado Telles, Yandava, Chandri, Young, Sarah, Zeng, Qiandong, Zucker, Jeremy, Felipe, Maria Sueli, Goldman, Gustavo H., Haas, Brian J., McEwen, Juan G., Nino-Vega, Gustavo, Puccia, Rosana, San-Blas, Gioconda, Soares, Celia Maria de Almeida, Birren, Bruce W., Cuomo, Christina A.
Publicado 2011

Evolution of pathogenicity and sexual reproduction in eight Candida genomes

por Butler, Geraldine, Rasmussen, Matthew D., Lin, Michael F., Santos, Manuel A.S., Sakthikumar, Sharadha, Munro, Carol A., Rheinbay, Esther, Grabherr, Manfred, Forche, Anja, Reedy, Jennifer L., Agrafioti, Ino, Arnaud, Martha B., Bates, Steven, Brown, Alistair J.P., Brunke, Sascha, Costanzo, Maria C., Fitzpatrick, David A., de Groot, Piet W. J., Harris, David, Hoyer, Lois L., Hube, Bernhard, Klis, Frans M., Kodira, Chinnappa, Lennard, Nicola, Logue, Mary E., Martin, Ronny, Neiman, Aaron M., Nikolaou, Elissavet, Quail, Michael A., Quinn, Janet, Santos, Maria C., Schmitzberger, Florian F., Sherlock, Gavin, Shah, Prachi, Silverstein, Kevin, Skrzypek, Marek S., Soll, David, Staggs, Rodney, Stansfield, Ian, Stumpf, Michael P H, Sudbery, Peter E., Thyagarajan, Srikantha, Zeng, Qiandong, Berman, Judith, Berriman, Matthew, Heitman, Joseph, Gow, Neil A. R., Lorenz, Michael C., Birren, Bruce W., Kellis, Manolis, Cuomo, Christina A.
Publicado 2009

Analysis of the Genome and Transcriptome of Cryptococcus neoformans var. grubii Reveals Complex RNA Expression and Microevolution Leading to Virulence Attenuation

por Janbon, Guilhem, Ormerod, Kate L., Paulet, Damien, Byrnes, Edmond J., Yadav, Vikas, Chatterjee, Gautam, Mullapudi, Nandita, Hon, Chung-Chau, Billmyre, R. Blake, Brunel, François, Bahn, Yong-Sun, Chen, Weidong, Chen, Yuan, Chow, Eve W. L., Coppée, Jean-Yves, Floyd-Averette, Anna, Gaillardin, Claude, Gerik, Kimberly J., Goldberg, Jonathan, Gonzalez-Hilarion, Sara, Gujja, Sharvari, Hamlin, Joyce L., Hsueh, Yen-Ping, Ianiri, Giuseppe, Jones, Steven, Kodira, Chinnappa D., Kozubowski, Lukasz, Lam, Woei, Marra, Marco, Mesner, Larry D., Mieczkowski, Piotr A., Moyrand, Frédérique, Nielsen, Kirsten, Proux, Caroline, Rossignol, Tristan, Schein, Jacqueline E., Sun, Sheng, Wollschlaeger, Carolin, Wood, Ian A., Zeng, Qiandong, Neuvéglise, Cécile, Newlon, Carol S., Perfect, John R., Lodge, Jennifer K., Idnurm, Alexander, Stajich, Jason E., Kronstad, James W., Sanyal, Kaustuv, Heitman, Joseph, Fraser, James A., Cuomo, Christina A., Dietrich, Fred S.
Publicado 2014

Standardized Metadata for Human Pathogen/Vector Genomic Sequences

por Dugan, Vivien G., Emrich, Scott J., Giraldo-Calderón, Gloria I., Harb, Omar S., Newman, Ruchi M., Pickett, Brett E., Schriml, Lynn M., Stockwell, Timothy B., Stoeckert, Christian J., Sullivan, Dan E., Singh, Indresh, Ward, Doyle V., Yao, Alison, Zheng, Jie, Barrett, Tanya, Birren, Bruce, Brinkac, Lauren, Bruno, Vincent M., Caler, Elizabet, Chapman, Sinéad, Collins, Frank H., Cuomo, Christina A., Di Francesco, Valentina, Durkin, Scott, Eppinger, Mark, Feldgarden, Michael, Fraser, Claire, Fricke, W. Florian, Giovanni, Maria, Henn, Matthew R., Hine, Erin, Hotopp, Julie Dunning, Karsch-Mizrachi, Ilene, Kissinger, Jessica C., Lee, Eun Mi, Mathur, Punam, Mongodin, Emmanuel F., Murphy, Cheryl I., Myers, Garry, Neafsey, Daniel E., Nelson, Karen E., Nierman, William C., Puzak, Julia, Rasko, David, Roos, David S., Sadzewicz, Lisa, Silva, Joana C., Sobral, Bruno, Squires, R. Burke, Stevens, Rick L., Tallon, Luke, Tettelin, Herve, Wentworth, David, White, Owen, Will, Rebecca, Wortman, Jennifer, Zhang, Yun, Scheuermann, Richard H.
Publicado 2014

Genomic Analysis of the Necrotrophic Fungal Pathogens Sclerotinia sclerotiorum and Botrytis cinerea

por Amselem, Joelle, Cuomo, Christina A., van Kan, Jan A. L., Viaud, Muriel, Benito, Ernesto P., Couloux, Arnaud, Coutinho, Pedro M., de Vries, Ronald P., Dyer, Paul S., Fillinger, Sabine, Fournier, Elisabeth, Gout, Lilian, Hahn, Matthias, Kohn, Linda, Lapalu, Nicolas, Plummer, Kim M., Pradier, Jean-Marc, Quévillon, Emmanuel, Sharon, Amir, Simon, Adeline, ten Have, Arjen, Tudzynski, Bettina, Tudzynski, Paul, Wincker, Patrick, Andrew, Marion, Anthouard, Véronique, Beever, Ross E., Beffa, Rolland, Benoit, Isabelle, Bouzid, Ourdia, Brault, Baptiste, Chen, Zehua, Choquer, Mathias, Collémare, Jérome, Cotton, Pascale, Danchin, Etienne G., Da Silva, Corinne, Gautier, Angélique, Giraud, Corinne, Giraud, Tatiana, Gonzalez, Celedonio, Grossetete, Sandrine, Güldener, Ulrich, Henrissat, Bernard, Howlett, Barbara J., Kodira, Chinnappa, Kretschmer, Matthias, Lappartient, Anne, Leroch, Michaela, Levis, Caroline, Mauceli, Evan, Neuvéglise, Cécile, Oeser, Birgitt, Pearson, Matthew, Poulain, Julie, Poussereau, Nathalie, Quesneville, Hadi, Rascle, Christine, Schumacher, Julia, Ségurens, Béatrice, Sexton, Adrienne, Silva, Evelyn, Sirven, Catherine, Soanes, Darren M., Talbot, Nicholas J., Templeton, Matt, Yandava, Chandri, Yarden, Oded, Zeng, Qiandong, Rollins, Jeffrey A., Lebrun, Marc-Henri, Dickman, Marty
Publicado 2011