Evolution of a pathogen: a comparative genomics analysis identifies a genetic pathway to pathogenesis in Acinetobacter.

by Jason W Sahl, John D Gillece, James M Schupp, Victor G Waddell, Elizabeth M Driebe, David M Engelthaler, Paul Keim
Published 2013-01-01

Genomic characterization of Burkholderia pseudomallei isolates selected for medical countermeasures testing: comparative genomics associated with differential virulence.

by Jason W Sahl, Christopher J Allender, Rebecca E Colman, Katy J Califf, James M Schupp, Bart J Currie, Kristopher E Van Zandt, H Carl Gelhaus, Paul Keim, Apichai Tuanyok
Published 2015-01-01

First draft genome sequence of a strain belonging to the Zoogloea genus and its gene expression in situ

by Emilie E. L. Muller, Shaman Narayanasamy, Myriam Zeimes, Cédric C. Laczny, Laura A. Lebrun, Malte Herold, Nathan D. Hicks, John D. Gillece, James M. Schupp, Paul Keim, Paul Wilmes
Published 2017-10-01

Whole genome sequence analysis of Cryptococcus gattii from the Pacific Northwest reveals unexpected diversity.

by John D Gillece, James M Schupp, S Arunmozhi Balajee, Julie Harris, Talima Pearson, Yongpan Yan, Paul Keim, Emilio DeBess, Nicola Marsden-Haug, Ron Wohrle, David M Engelthaler, Shawn R Lockhart
Published 2011-01-01

Mechanisms of Resistance to Folate Pathway Inhibitors in Burkholderia pseudomallei: Deviation from the Norm

by Nicole L. Podnecky, Katherine A. Rhodes, Takehiko Mima, Heather R. Drew, Sunisa Chirakul, Vanaporn Wuthiekanun, James M. Schupp, Derek S. Sarovich, Bart J. Currie, Paul Keim, Herbert P. Schweizer, Julian E. Davies
Published 2017-09-01

Diverse Burkholderia Species Isolated from Soils in the Southern United States with No Evidence of B. pseudomallei.

by Carina M Hall, Joseph D Busch, Kenzie Shippy, Christopher J Allender, Mirjam Kaestli, Mark Mayo, Jason W Sahl, James M Schupp, Rebecca E Colman, Paul Keim, Bart J Currie, David M Wagner
Published 2015-01-01

A Bacillus anthracis Genome Sequence from the Sverdlovsk 1979 Autopsy Specimens

by Jason W. Sahl, Talima Pearson, Richard Okinaka, James M. Schupp, John D. Gillece, Hannah Heaton, Dawn Birdsell, Crystal Hepp, Viacheslav Fofanov, Ramón Noseda, Antonio Fasanella, Alex Hoffmaster, David M. Wagner, Paul Keim
Published 2016-09-01

More than 50% of Clostridium difficile Isolates from Pet Dogs in Flagstaff, USA, Carry Toxigenic Genotypes.

by Nathan E Stone, Lindsay C Sidak-Loftis, Jason W Sahl, Adam J Vazquez, Kristin B Wiggins, John D Gillece, Nathan D Hicks, James M Schupp, Joseph D Busch, Paul Keim, David M Wagner
Published 2016-01-01

Best Practices for Evaluating Single Nucleotide Variant Calling Methods for Microbial Genomics

by Nathan eOlson, Steven P. Lund, Rebecca E. Colman, Jeffrey T Foster, Jason W Sahl, James M Schupp, Paul eKeim, Paul eKeim, Jayne B Morrow, Marc L Salit, Marc L Salit, Justin M Zook
Published 2015-07-01

High Leptospira Diversity in Animals and Humans Complicates the Search for Common Reservoirs of Human Disease in Rural Ecuador.

by Veronica Barragan, Jorge Chiriboga, Erin Miller, Sonora Olivas, Dawn Birdsell, Crystal Hepp, Heidie Hornstra, James M Schupp, Melba Morales, Manuel Gonzalez, Soraya Reyes, Carmen de la Cruz, Paul Keim, Rudy Hartskeerl, Gabriel Trueba, Talima Pearson
Published 2016-09-01

Correction: Pre-Columbian Origins for North American Anthrax

by Leo J. Kenefic, Talima Pearson, Richard T. Okinaka, James M. Schupp, David M. Wagner, Alex R. Hoffmaster, Carla B. Trim, Wai-Kwan Chung, Jodi A. Beaudry, Lingxia Jiang, Pawel Gajer, Jeffrey T. Foster, James I. Mead, Jacques Ravel, Paul Keim
Published 2009-01-01

Pre-Columbian origins for North American anthrax.

by Leo J Kenefic, Talima Pearson, Richard T Okinaka, James M Schupp, David M Wagner, Alex R Hoffmaster, Carla B Trim, Wai-Kwan Chung, Jodi A Beaudry, Lingxia Jiang, Pawel Gajer, Jeffrey T Foster, James I Mead, Jacques Ravel, Paul Keim
Published 2009-01-01

Detection of Low-Level Mixed-Population Drug Resistance in Mycobacterium tuberculosis Using High Fidelity Amplicon Sequencing.

by Rebecca E Colman, James M Schupp, Nathan D Hicks, David E Smith, Jordan L Buchhagen, Faramarz Valafar, Valeriu Crudu, Elena Romancenco, Ecaterina Noroc, Lynn Jackson, Donald G Catanzaro, Timothy C Rodwell, Antonino Catanzaro, Paul Keim, David M Engelthaler
Published 2015-01-01

Correction: Pre-Columbian Origins for North American Anthrax.

by Leo J. Kenefic, Talima Pearson, Richard T. Okinaka, James M. Schupp, David M. Wagner, Alex R. Hoffmaster, Carla B. Trim, Wai-Kwan Chung, Jodi A. Beaudry, Lingxia Jiang, Pawel Gajer, Jeffrey T. Foster, James I. Mead, Jacques Ravel, Paul Keim
Published 2009-01-01

Local Population Structure and Patterns of Western Hemisphere Dispersal for Coccidioides spp., the Fungal Cause of Valley Fever

by David M. Engelthaler, Chandler C. Roe, Crystal M. Hepp, Marcus Teixeira, Elizabeth M. Driebe, James M. Schupp, Lalitha Gade, Victor Waddell, Kenneth Komatsu, Eduardo Arathoon, Heidi Logemann, George R. Thompson, Tom Chiller, Bridget Barker, Paul Keim, Anastasia P. Litvintseva
Published 2016-04-01

Using Whole Genome Analysis to Examine Recombination across Diverse Sequence Types of Staphylococcus aureus.

by Elizabeth M Driebe, Jason W Sahl, Chandler Roe, Jolene R Bowers, James M Schupp, John D Gillece, Erin Kelley, Lance B Price, Talima R Pearson, Crystal M Hepp, Pius M Brzoska, Craig A Cummings, Manohar R Furtado, Paal S Andersen, Marc Stegger, David M Engelthaler, Paul S Keim
Published 2015-01-01

Molecular Epidemiologic Investigation of an Anthrax Outbreak among Heroin Users, Europe

by Erin P. Price, Meagan L. Seymour, Derek S. Sarovich, Jennie Latham, Spenser R. Wolken, Joanne Mason, Gemma Vincent, Kevin P. Drees, Stephen M. Beckstrom-Sternberg, Adam M. Phillippy, Sergey Koren, Richard T. Okinaka, Wai-Kwan Chung, James M. Schupp, David M. Wagner, Richard Vipond, Jeffrey T. Foster, Nicholas H. Bergman, James Burans, Talima Pearson, Tim Brooks, Paul Keim
Published 2012-08-01

Phylogeographic, genomic, and meropenem susceptibility analysis of Burkholderia ubonensis.

by Erin P Price, Derek S Sarovich, Jessica R Webb, Carina M Hall, Sierra A Jaramillo, Jason W Sahl, Mirjam Kaestli, Mark Mayo, Glenda Harrington, Anthony L Baker, Lindsay C Sidak-Loftis, Erik W Settles, Madeline Lummis, James M Schupp, John D Gillece, Apichai Tuanyok, Jeffrey Warner, Joseph D Busch, Paul Keim, Bart J Currie, David M Wagner
Published 2017-09-01

Integration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance

by Malte Herold, Susana Martínez Arbas, Shaman Narayanasamy, Abdul R. Sheik, Luise A. K. Kleine-Borgmann, Laura A. Lebrun, Benoît J. Kunath, Hugo Roume, Irina Bessarab, Rohan B. H. Williams, John D. Gillece, James M. Schupp, Paul S. Keim, Christian Jäger, Michael R. Hoopmann, Robert L. Moritz, Yuzhen Ye, Sujun Li, Haixu Tang, Anna Heintz-Buschart, Patrick May, Emilie E. L. Muller, Cedric C. Laczny, Paul Wilmes
Published 2020-10-01

The Effects of Signal Erosion and Core Genome Reduction on the Identification of Diagnostic Markers

by Jason W. Sahl, Adam J. Vazquez, Carina M. Hall, Joseph D. Busch, Apichai Tuanyok, Mark Mayo, James M. Schupp, Madeline Lummis, Talima Pearson, Kenzie Shippy, Rebecca E. Colman, Christopher J. Allender, Vanessa Theobald, Derek S. Sarovich, Erin P. Price, Alex Hutcheson, Jonas Korlach, John J. LiPuma, Jason Ladner, Sean Lovett, Galina Koroleva, Gustavo Palacios, Direk Limmathurotsakul, Vanaporn Wuthiekanun, Gumphol Wongsuwan, Bart J. Currie, Paul Keim, David M. Wagner
Published 2016-09-01