Vaughn's Publications

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Year Title Author(s) Link/PDF
2017 Parallel evolution of two clades of a major Atlantic endemic Vibrio parahaemolyticus pathogen lineage by independent acquisition of related pathogenicity islands Feng Xu, Narjol Gonzalez-Escalona, Kevin P Drees, Robert P Sebra, Vaughn S Cooper, Stephen H Jones, Cheryl A Whistler PDF
2017 Structure of O-Antigen and Hybrid Biosynthetic Locus in Burkholderia cenocepacia Clonal Variants Recovered from a Cystic Fibrosis Patient A Amir Hassan, Rita F Maldonado, Sandra C dos Santos, Flaviana Di Lorenzo, Alba Silipo, Carla P Coutinho, Vaughn S Cooper, Antonio Molinaro, Miguel A Valvano, Isabel Sá-Correia Link
2017 Comparative genomics of Burkholderia multivorans, a ubiquitous pathogen with a highly conserved genomic structure Charlotte Peeters, Vaughn S Cooper, Philip J Hatcher, Bart Verheyde, Aurélien Carlier, Peter Vandamme Link
2017 RelA mutant Enterococcus faecium with multiantibiotic tolerance arising in an immunocompromised host Erin S Honsa, Vaughn S Cooper, Mohammed N Mhaissen, Matthew Frank, Jessica Shaker, Amy Iverson, Jeffrey Rubnitz, Randall T Hayden, Richard E Lee, Charles O Rock, Elaine I Tuomanen, Joshua Wolf, Jason W Rosch Link
2017 Outbreak of Klebsiella pneumoniae Carbapenemase–Producing Citrobacter freundii at a Tertiary Acute Care Facility in Miami, Florida Adriana Jiménez, José G Castro, L Silvia Munoz-Price, Dennise De Pascale, Luis Shimose, Mustapha M Mustapha, Caressa N Spychala, Roberta T Mettus, Vaughn S Cooper, Yohei Doi PDF
2017 Ceftolozane-tazobactam for the treatment of multidrug-resistant Pseudomonas aeruginosa infections: Clinical effectiveness and evolution of resistance Ghady Haidar, Nathan J Philips, Ryan K Shields, Daniel Snyder, Shaoji Cheng, Brian A Potoski, Yohei Doi, Binghua Hao, Ellen G Press, Vaughn S Cooper, Cornelius J Clancy, M Hong Nguyen Link
2017 Genome-wide analysis of influenza viral RNA and nucleoprotein association Nara Lee, Valerie Le Sage, Adalena V Nanni, Dan J Snyder, Vaughn S Cooper, Seema S Lakdawala Link
2017 Bacterial community profiles and Vibrio parahaemolyticus abundance in individual oysters and their association with estuarine ecology Ashley L Marcinkiewicz, Brian M Schuster, Stephen H Jones, Vaughn S Cooper, Cheryl A Whistler PDF
2017 Host-selected mutations converging on a global regulator drive an adaptive leap towards symbiosis in bacteria M Sabrina Pankey, Randi L Foxall, Ian M Ster, Lauren A Perry, Brian M Schuster, Rachel A Donner, Matthew Coyle, Vaughn S Cooper, Cheryl A Whistler Link
2016 Vibrio parahaemolyticus sequence type 631, an emerging foodborne pathogen in North America Feng Xu, Narjol Gonzalez-Escalona, Julie Haendiges, Robert A Myers, Jana Ferguson, Tracy Stiles, Eric Hickey, Michael Moore, John Michael Hickey, Christopher Schillaci, Laurn Mank, Kristin DeRosia-Banick, Nicholas Matluk, Amy Robbins, Robert P Sebra, Vaughn S Cooper, Stephen H Jones, Cheryl A Whistler PDF
2016 Characterization of a Novel IncHI2 Plasmid Carrying Tandem Copies of blaCTX-M-2 in a fosA6-Harboring Escherichia coli Sequence Type 410 Strain Qinglan Guo, Baixing Ding, Thomas Jové, Nicole Stoesser, Vaughn S Cooper, Minggui Wang, Yohei Doi Link
2016 The fitness effects of spontaneous mutations nearly unseen by selection in a bacterium with multiple chromosomes Marcus M Dillon, Vaughn S Cooper PDF
2016 Genome-wide biases in the rate and molecular spectrum of spontaneous mutations in Vibrio cholerae and Vibrio fischeri Marcus M Dillon, Way Sung, Robert Sebra, Michael Lynch, Vaughn S Cooper Link
2016 Laboratory evolution of microbial interactions in bacterial biofilms Marivic Martin, Theresa Hölscher, Anna Dragoš, Vaughn S Cooper, Ákos T Kovács Link
2016 Evolution of ecological diversity in biofilms of Pseudomonas aeruginosa by altered cyclic diguanylate signaling Kenneth M Flynn, Gabrielle Dowell, Thomas M Johnson, Benjamin J Koestler, Christopher M Waters, Vaughn S Cooper Link
2016 Evolution of the insertion-deletion mutation rate across the tree of life Way Sung, Matthew S Ackerman, Marcus M Dillon, Thomas G Platt, Clay Fuqua, Vaughn S Cooper, Michael Lynch Link
2016 Long-term evolution of Burkholderia multivorans during a chronic cystic fibrosis infection reveals shifting forces of selection Inês N Silva, Pedro M Santos, Mário R Santos, James EA Zlosnik, David P Speert, Sean W Buskirk, Eric L Bruger, Christopher M Waters, Vaughn S Cooper, Leonilde M Moreira Link
2016 Glutathione-S-transferase FosA6 of Klebsiella pneumoniae origin conferring fosfomycin resistance in ESBL-producing Escherichia coli Qinglan Guo, Adam D Tomich, Christi L McElheny, Vaughn S Cooper, Nicole Stoesser, Minggui Wang, Nicolas Sluis-Cremer, Yohei Doi Link
2016 Environmental conditions associated with elevated Vibrio parahaemolyticus concentrations in Great Bay Estuary, New Hampshire Erin A Urquhart, Stephen H Jones, W Yu Jong, Brian M Schuster, Ashley L Marcinkiewicz, Cheryl A Whistler, Vaughn S Cooper Link
2016 Benefit of transferred mutations is better predicted by the fitness of recipients than by their ecological or genetic relatedness Yinhua Wang, Carolina Diaz Arenas, Daniel M Stoebel, Kenneth Flynn, Ethan Knapp, Marcus M Dillon, Andrea Wünsche, Philip J Hatcher, Francisco B-G Moore, Vaughn S Cooper, Tim F Cooper Link
2016 Diverse phenotypic and genetic responses to short‐term selection in evolving Escherichia coli populations Marcus M Dillon, Nicholas P Rouillard, Brian Dam, Romain Gallet, Vaughn S Cooper PDF
2016 Long-Term Evolution of Burkholderia multivorans during a Chronic Cystic Fibrosis Infection Reveals Shifting Forces of Selection IN Silva, PM Santos, MR Santos, JEA Zlosnik, DP Speert, SW Buskirk, EL Bruger, CM Waters, Vaughn S Cooper, LM Moreira PDF
2016 Phylogenomic study of Burkholderia glathei-like organisms, proposal of 13 novel Burkholderia species and emended descriptions of Burkholderia sordidicola, Burkholderia zhejiangensis, and Burkholderia grimmiae Charlotte Peeters, Jan P Meier-Kolthoff, Bart Verheyde, Evie De Brandt, Vaughn S Cooper, Peter Vandamme Link
2015 Genetic characterization of clinical and environmental Vibrio parahaemolyticus from the Northeast USA reveals emerging resident and non-indigenous pathogen lineages Feng Xu, Saba Ilyas, Jeffrey A Hall, Stephen H Jones, Vaughn S Cooper, Cheryl A Whistler Link
2015 Long-term trends of pathogenic Vibrio SPP. populations in New Hampshire Oysters Stephen H Jones, Erin Urquhart, Meghan Hartwick, Michael Taylor, Vaughn S Cooper, Cheryl A Whistler No Link
2015 Genome sequence and comparative analysis of a putative entomopathogenic Serratia isolated from Caenorhabditis briggsae Feseha Abebe-Akele, Louis S Tisa, Vaughn S Cooper, Philip J Hatcher, Eyualem Abebe, W Kelley Thomas Link
2015 The rate and molecular spectrum of spontaneous mutations in the GC-rich multichromosome genome of Burkholderia cenocepacia Marcus M Dillon, Way Sung, Michael Lynch, Vaughn S Cooper Link
2015 Use of whole-genome phylogeny and comparisons for development of a multiplex PCR assay to identify sequence type 36 Vibrio parahaemolyticus Cheryl A Whistler, Jeffrey A Hall, Feng Xu, Saba Ilyas, Puskar Siwakoti, Vaughn S Cooper, Stephen H Jones Link
2015 Character displacement and the evolution of niche complementarity in a model biofilm community Crystal N Ellis, Charles C Traverse, Leslie Mayo‐Smith, Sean W Buskirk, Vaughn S Cooper Link
2015 Genetic characterization of clinical and environmental Vibrio parahaemolyticus from the Northeast USA reveals emerging resident and non-indigenous pathogen lineages Feng Xu, Saba Ilyas, Jeffrey A Hall, Stephen H Jones, Vaughn S Cooper, Cheryl A Whistler Link
2015 There and back again: consequences of biofilm specialization under selection for dispersal Devon O’Rourke, Cody E FitzGerald, Charles C Traverse, Vaughn S Cooper Link
2014 Parallel evolution of small colony variants in Burkholderia cenocepacia biofilms Vaughn S Cooper, Rachel K Staples, Charles C Traverse, Crystal N Ellis Link
2014 Antibiotic resistance correlates with transmission in plasmid evolution Paul E Turner, Elizabeth SCP Williams, Chijioke Okeke, Vaughn S Cooper, Siobain Duffy, John E Wertz PDF
2014 The origins of specialization: insights from bacteria held 25 years in captivity Vaughn S Cooper Link
2013 Evolution In Chronic pseudomonas infections: Biotic Interactions Drive Functional Convergence In Adaptive Targets KM Flynn, Vaughn S Cooper Link
2013 The environment affects epistatic interactions to alter the topology of an empirical fitness landscape Kenneth M Flynn, Tim F Cooper, Francisco BG Moore, Vaughn S Cooper Link
2013 Tangled bank of experimentally evolved Burkholderia biofilms reflects selection during chronic infections Charles C Traverse, Leslie M Mayo-Smith, Steffen R Poltak, Vaughn S Cooper Link
2012 Evolutionary effects of translocations in bacterial genomes Jarrett D Morrow, Vaughn S Cooper Link
2017 Comparative genomics of Burkholderia multivorans, a ubiquitous pathogen with a highly conserved genomic structure Charlotte Peeters, Vaughn S Cooper, Philip J Hatcher, Bart Verheyde, Aurélien Carlier, Peter Vandamme Link
2012 Influence of Seasonality on the Genetic Diversity of Vibrio parahaemolyticus in New Hampshire Shellfish Waters as Determined by Multilocus Sequence Analysis Crystal N Ellis, Brian M Schuster, Megan J Striplin, Stephen H Jones, Cheryl A Whistler, Vaughn S Cooper Link
2012 A New Effective Method for the Disruption of Pseudomonas Aeruginosa Biofilms Using Adaptive Focused Acoustics™(AFA) Carl Beckett, Vaughn Cooper PDF
2011 Ecology and genetic structure of a northern temperate Vibrio cholerae population related to toxigenic isolates Brian M Schuster, Anna L Tyzik, Rachel A Donner, Megan J Striplin, Salvador Almagro-Moreno, Stephen H Jones, Vaughn S Cooper, Cheryl A Whistler Link
2011 Evolution Of Diversity And Interdependency In Experimental Pseudomonas Aeruginosa biofilms KM Flynn, TM Johnson, Vaughn S Cooper Link
2011 The occurence, abundance, phylogeny and virulence potential of pathogenic Vibrio species in New Hampshire shellfish waters Steve Jones, Brian Schuster, Jenny Mahoney, Jong Yu, Crystal Ellis, Vaughn Cooper, Cheryl Whistler No Link
2011 An insect pathogenic symbiosis between a Caenorhabditis and Serratia Eyualem Abebe, Feseha-Abebe Akele, Julie Morrison, Vaughn Cooper, W Kelley Thomas Link
2011 Ecological succession in long-term experimentally evolved biofilms produces synergistic communities Steffen R Poltak, Vaughn S Cooper Link
2011 An insect pathogenic symbiosis between a Caenorhabditis and Serratia Eyaulem Abebe, Feseha Abebe-Akele, Julie Morrison, Vaughn Cooper, W Kelley Thomas PDF
2010 Breaking the language barrier: experimental evolution of non-native Vibrio fischeri in squid tailors luminescence to the host Brian M Schuster, Lauren A Perry, Vaughn S Cooper, Cheryl A Whistler PDF
2010 Experimental adaptation of Burkholderia cenocepacia to onion medium reduces host range Crystal N Ellis, Vaughn S Cooper Link
2010 Why genes evolve faster on secondary chromosomes in bacteria Vaughn S Cooper, Samuel H Vohr, Sarah C Wrocklage, Philip J Hatcher Link
2010 Evolutionary rates and gene dispensability associate with replication timing in the archaeon Sulfolobus islandicus Kenneth M Flynn, Samuel H Vohr, Philip J Hatcher, Vaughn S Cooper Link
2009 Susceptibility of Caenorhabditis elegans to Burkholderia infection depends on prior diet and secreted bacterial attractants Vaughn S Cooper, Wendy A Carlson, John J LiPuma PDF
2007 Experimental evolution of pathogens Vaughn S Cooper PDF
2006 The study of microbial adaptation by long-term experimental evolution Vaughn S Cooper Link
2002 Long-term experimental evolution in Escherichia coli. X. Quantifying the fundamental and realized niche Vaughn S Cooper Link
2002 Timing of transmission and the evolution of virulence of an insect virus Vaughn S Cooper, Michael H Reiskind, Jonathan A Miller, Kirsten A Shelton, Bruno A Walther, Joseph S Elkinton, Paul W Ewald PDF
2001 Evolution of thermal dependence of growth rate of Escherichia coli populations during 20,000 generations in a constant environment Vaughn S Cooper, Albert F Bennett, Richard E Lenski PDF
2001 Mechanisms causing rapid and parallel losses of ribose catabolism in evolving populations of Escherichia coli B Vaughn S Cooper, Dominique Schneider, Michel Blot, Richard E Lenski Link
2001 Rapid phenotypic change and diversification of a soil bacterium during 1000 generations of experimental evolution Merry S Riley, Vaughn S Cooper, Richard E Lenski, Larry J Forney, Terence L Marsh PDF
2001 Mechanisms Causing Rapid and Parallel Losses of Ribose Catabolism in Evolving Populations of Escherichia coli B Richard E Lenski, Vaughn S Cooper, Dominique Schneider, Michel Blot Link
2000 The population genetics of ecological specialization in evolving Escherichia coli populations Vaughn S Cooper, Richard E Lenski Link
2000 Consequences of ecological specialization in long-term evolving populations of Escherichia coli Vaughn S Cooper Thesis
1998 Tradeoff between horizontal and vertical modes of transmission in bacterial plasmids Paul E Turner, Vaughn S Cooper, Richard E Lenski PDF
1996 Mechanisms of punctuated evolution Jerry A Coyne, Brian Charlesworth, Santiago F Elena, Vaughn S Cooper, Richard E Lenski Link
1996 Punctuated evolution caused by selection of rare beneficial mutations Santiago F Elena, Vaughn S Cooper, Richard E Lenski PDF
1996 Mechanisms of Punctuated Evolution: Response SF Elena, Vaughn S Cooper, RE Lenski No Link
1994 Timing of Transmission, Occlusion Body Size, and the Evolution of Virulence: A Test Using Lymantria Dispar Nuclear Polyhedrosis Virus Vaughn S Cooper No Link
Not Listed Comparative genomics of Burkholderia multivorans, a ubiquitous pathogen with a highly conserved genomic structure JW Yu, TL Howell, CA Whistler, Vaughn S Cooper, SH Jones Link
Book Chapter Chapter II: The study of microbial adaptation by long-term experimental evolution Vaughn S Cooper Link