Bactopia: a Flexible Pipeline for Complete Analysis of Bacterial Genomes

by Robert A. Petit, Timothy D. Read
Published 2020

Comparative Analysis of <named-content content-type="genus-species">Chlamydia psittaci</named-content> Genomes Reveals the Recent Emergence of a Pathogenic Lineage with a Broad Hos...

by Timothy D. Read, Sandeep J. Joseph, Xavier Didelot, Brooke Liang, Lisa Patel, Deborah Dean
Published 2013

Genotypic and Phenotypic Diversity of <named-content content-type="genus-species">Staphylococcus aureus</named-content> Isolates from Cystic Fibrosis Patient Lung Infections and Th...

by Eryn E. Bernardy, Robert A. Petit, Vishnu Raghuram, Ashley M. Alexander, Timothy D. Read, Joanna B. Goldberg
Published 2020

Hypervirulent <named-content content-type="genus-species">Chlamydia trachomatis</named-content> Clinical Strain Is a Recombinant between Lymphogranuloma Venereum (L₂) an...

by Naraporn Somboonna, Raymond Wan, David M. Ojcius, Matthew A. Pettengill, Sandeep J. Joseph, Alexander Chang, Ray Hsu, Timothy D. Read, Deborah Dean
Published 2011

Transmission and Microevolution of USA300 MRSA in U.S. Households: Evidence from Whole-Genome Sequencing

by Md Tauqeer Alam, Timothy D. Read, Robert A. Petit, Susan Boyle-Vavra, Loren G. Miller, Samantha J. Eells, Robert S. Daum, Michael Z. David
Published 2015

Whole genome sequencing for investigations of meningococcal outbreaks in the United States: a retrospective analysis

by Melissa J. Whaley, Sandeep J. Joseph, Adam C. Retchless, Cecilia B. Kretz, Amy Blain, Fang Hu, How-Yi Chang, Sarah A. Mbaeyi, Jessica R. MacNeil, Timothy D. Read, Xin Wang
Published 2018

USA300 and USA500 Clonal Lineages of <named-content content-type="genus-species">Staphylococcus aureus</named-content> Do Not Produce a Capsular Polysaccharide Due to Conserved Mut...

by Susan Boyle-Vavra, Xue Li, Md Tauqeer Alam, Timothy D. Read, Julia Sieth, Colette Cywes-Bentley, Ginette Dobbins, Michael Z. David, Neha Kumar, Samantha J. Eells, Loren G. Miller, David J. Boxrud, Henry F. Chambers, Ruth Lynfield, Jean C. Lee, Robert S. Daum
Published 2015

Characterization of <named-content content-type="genus-species">Aeromonas hydrophila</named-content> Wound Pathotypes by Comparative Genomic and Functional Analyses of Virulence Ge...

by Christopher J. Grim, Elena V. Kozlova, Jian Sha, Eric C. Fitts, Christina J. van Lier, Michelle L. Kirtley, Sandeep J. Joseph, Timothy D. Read, Eileen M. Burd, Ben D. Tall, Sam W. Joseph, Amy J. Horneman, Ashok K. Chopra, Joshua R. Shak
Published 2013

Genomic signatures of strain selection and enhancement in Bacillus atrophaeus var. globigii, a historical biowarfare simulant.

by Henry S Gibbons, Stacey M Broomall, Lauren A McNew, Hajnalka Daligault, Carol Chapman, David Bruce, Mark Karavis, Michael Krepps, Paul A McGregor, Charles Hong, Kyong H Park, Arya Akmal, Andrew Feldman, Jeffrey S Lin, Wenling E Chang, Brandon W Higgs, Plamen Demirev, John Lindquist, Alvin Liem, Ed Fochler, Timothy D Read, Roxanne Tapia, Shannon Johnson, Kimberly A Bishop-Lilly, Chris Detter, Cliff Han, Shanmuga Sozhamannan, C Nicole Rosenzweig, Evan W Skowronski
Published 2011