D. Wagner

发表

The In Silico Genotyper (ISG): an open-source pipeline to rapidly identify and annotate nucleotide variants for comparative genomics applications

Raymond K. Auerbach, S. Beckstrom-Sternberg, P. Keim, 2015, bioRxiv.

Within-Host Evolution of Burkholderia pseudomallei in Four Cases of Acute Melioidosis

Amy J. Vogler, J. Foster, A. Vogler, 2010, PLoS pathogens.

VNTR analysis of selected outbreaks of Burkholderia pseudomallei in Australia.

Amy J. Vogler, A. Vogler, P. Keim, 2007, Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases.

Thirty years of tick population genetics: a comprehensive review.

D. Wagner, J. Busch, G. Scoles, 2015, Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases.

Molecular Epidemiology, Evolution, and Ecology of Francisella

P. Keim, D. Wagner, A. Johansson, 2007, Annals of the New York Academy of Sciences.

Climate‐driven reduction of genetic variation in plant phenology alters soil communities and nutrient pools

C. Schadt, Zamin-K. Yang, D. Wagner, 2019, Global change biology.

No evidence for enzootic plague within black‐tailed prairie dog (Cynomys ludovicianus) populations

R. Colman, P. Keim, J. Sahl, 2021, Integrative zoology.

Fine-scale Identification of the Most Likely Source of a Human Plague Infection

Amy J. Vogler, K. Gage, P. Reynolds, 2009, Emerging infectious diseases.

Multiple Antimicrobial Resistance in Plague: An Emerging Public Health Risk

T. Cebula, J. E. Leclerc, J. Ravel, 2007, PloS one.

Tracking the Increase of Acaricide Resistance in an Invasive Population of Cattle Fever Ticks (Acari: Ixodidae) and Implementation of Real-Time PCR Assays to Rapidly Genotype Resistance Mutations

Robert A. Miller, J. Mosqueda, P. Olafson, 2020, Annals of the Entomological Society of America.

Humans and evolutionary and ecological forces shaped the phylogeography of recently emerged diseases

P. Keim, D. Wagner, D. Wagner, 2009, Nature Reviews Microbiology.

NASP: an accurate, rapid method for the identification of SNPs in WGS datasets that supports flexible input and output formats.

Maliha Aziz, Paul Keim, Jason W Sahl, 2016, Microbial genomics.

The Northern Arizona SNP Pipeline (NASP): accurate, flexible, and rapid identification of SNPs in WGS datasets

D. Engelthaler, P. Keim, C. Hepp, 2016, bioRxiv.

Melt Analysis of Mismatch Amplification Mutation Assays (Melt-MAMA): A Functional Study of a Cost-Effective SNP Genotyping Assay in Bacterial Models

Dawn N. Birdsell, P. Keim, T. Pearson, 2012, PloS one.

Anthrax molecular epidemiology and forensics: using the appropriate marker for different evolutionary scales.

Paul Keim, Talima Pearson, Lynn Y. Huynh, 2004, Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases.

Phenotypic and functional characterization of Bacillus anthracis biofilms.

Raymond K. Auerbach, J. Ravel, P. Keim, 2007, Microbiology.

Francisella tularensis in the United States

P. Keim, K. Kubota, J. Petersen, 2005, Emerging infectious diseases.

Phylogeographic reconstruction of a bacterial species with high levels of lateral gene transfer

Raymond K. Auerbach, R. Kaul, A. Hoffmaster, 2009, BMC Biology.

THE INNATE IMMUNE RESPONSE MAY BE IMPORTANT FOR SURVIVING PLAGUE IN WILD GUNNISON'S PRAIRIE DOGS

J. Foster, S. Beckstrom-Sternberg, P. Keim, 2013, Journal of wildlife diseases.

Population Differences in Host Immune Factors May Influence Survival of Gunnison’s Prairie Dogs (Cynomys gunnisoni) during Plague Outbreaks

R. Colman, P. Keim, D. Wagner, 2011, Journal of wildlife diseases.

Microevolution and history of the plague bacillus, Yersinia pestis.

Giovanna Morelli, Julian Parkhill, Paul Keim, 2004, Proceedings of the National Academy of Sciences of the United States of America.

Ecosystem Consequences of Plant Genetic Divergence with Colonization of New Habitat

C. Giardina, D. Wagner, J. Busch, 2017 .

Comparison of Two Multiple-Locus Variable-Number Tandem-Repeat Analysis Methods for Molecular Strain Typing of Human Brucella melitensis Isolates from the Middle East

Lynn Y. Huynh, A. Hoffmaster, P. Keim, 2009, Journal of Clinical Microbiology.

Multiple Locus Variable Number Tandem Repeat (VNTR) Analysis (MLVA) of Brucella spp. Identifies Species-Specific Markers and Insights into Phylogenetic Relationships

Lynn Y. Huynh, T. Popović, T. Hadfield, 2008 .

Range-wide genetic analysis of Dermacentor variabilis and its Francisella-like endosymbionts demonstrates phylogeographic concordance between both taxa

C. Hepp, D. Wagner, J. Busch, 2018, Parasites & vectors.

A global to local genomics analysis of Clostridioides difficile ST1/RT027 identifies cryptic transmission events in a northern Arizona healthcare network

P. Keim, C. Roe, J. Gillece, 2019, bioRxiv.

Molecular genotyping of Acinetobacter spp. isolated in Arizona, USA, using multilocus PCR and mass spectrometry.

D. Ecker, R. Sampath, V. Waddell, 2013, Journal of medical microbiology.

A local-scale One Health genomic surveillance of Clostridioides difficile demonstrates highly related strains from humans, canines, and the environment

P. Keim, C. Roe, J. Sahl, 2023, Microbial genomics.

Long-range dispersal moved Francisella tularensis into Western Europe from the East

Dawn N. Birdsell, P. Keim, M. Forsman, 2016, Microbial genomics.

Phylogeography of Francisella tularensis subsp. holarctica, Europe

Paul Keim, Amy J. Vogler, Dawn N. Birdsell, 2012, Emerging infectious diseases.

Phylogeography of Francisella tularensis subspecies holarctica from the country of Georgia

Paul Keim, Talima Pearson, Amy J. Vogler, 2011, BMC Microbiology.

Phylogeography of Francisella tularensis: Global Expansion of a Highly Fit Clone

Raymond K. Auerbach, Paul Keim, Talima Pearson, 2009, Journal of bacteriology.

Clonality of erythromycin resistance in Francisella tularensis.

Dawn N. Birdsell, I. Golovliov, M. Forsman, 2016, The Journal of antimicrobial chemotherapy.

Burkholderia pseudomallei, the causative agent of melioidosis, is rare but ecologically established and widely dispersed in the environment in Puerto Rico

A. Hoffmaster, P. Keim, C. Roe, 2019, PLoS neglected tropical diseases.

Diverse lineages of pathogenic Leptospira species are widespread in the environment in Puerto Rico, USA

T. Pearson, J. Sahl, J. Nally, 2022, PLoS neglected tropical diseases.

Proteomic Signatures of Antimicrobial Resistance in Yersinia pestis and Francisella tularensis

Sarah C. Jenson, Dawn N. Birdsell, H. Schweizer, 2022, Frontiers in Medicine.

Multiple phylogenetically-diverse, differentially-virulent Burkholderia pseudomallei isolated from a single soil sample collected in Thailand

P. Keim, S. Peacock, C. Roe, 2022, PLoS neglected tropical diseases.

Identification of novel, cryptic Clostridioides species isolates from environmental samples collected from diverse geographical locations

P. Keim, C. Roe, J. Sahl, 2022, Microbial genomics.

Expanding the Burkholderia pseudomallei Complex with the Addition of Two Novel Species: Burkholderia mayonis sp. nov. and Burkholderia savannae sp. nov.

P. Keim, H. Schweizer, J. Schupp, 2021, Applied and environmental microbiology.

Development and Validation of Burkholderia pseudomallei-Specific Real-Time PCR Assays for Clinical, Environmental or Forensic Detection Applications

Direk Limmathurotsakul, Paul Keim, Talima Pearson, 2012, PloS one.

The Genetic and Molecular Basis of O-Antigenic Diversity in Burkholderia pseudomallei Lipopolysaccharide

P. Keim, S. Peacock, C. Allender, 2012, PLoS neglected tropical diseases.

Systematic Review and Consensus Guidelines for Environmental Sampling of Burkholderia pseudomallei

H. Wertheim, N. Day, S. Peacock, 2013, PLoS neglected tropical diseases.

Yersinia pestis and the plague of Justinian 541-543 AD: a genomic analysis.

Dawn N. Birdsell, D. Earn, E. Holmes, 2014, The Lancet. Infectious diseases.

Phylogenetic diversity and historical patterns of pandemic spread of Yersinia pestis

Giovanna Morelli, Thibaut Jombart, Paul Keim, 2010, Nature Genetics.

Yersinia pestis DNA from Skeletal Remains from the 6th Century AD Reveals Insights into Justinianic Plague

Dawn N. Birdsell, P. Keim, B. Bramanti, 2013, PLoS pathogens.

Human plague: An old scourge that needs new answers

N. Stenseth, P. Horby, Y. Yazdanpanah, 2020, PLoS neglected tropical diseases.

Eighteenth century Yersinia pestis genomes reveal the long-term persistence of an historical plague focus

E. Holmes, G. B. Golding, J. Krause, 2016, bioRxiv.

A Decade of Plague in Mahajanga, Madagascar: Insights into the Global Maritime Spread of Pandemic Plague

Amy J. Vogler, S. Beckstrom-Sternberg, S. Chanteau, 2013, mBio.

Temporal phylogeography of Yersinia pestis in Madagascar: Insights into the long-term maintenance of plague

Amy J. Vogler, Dawn N. Birdsell, L. Rahalison, 2017, PLoS neglected tropical diseases.

Identifying experimental surrogates for Bacillus anthracis spores: a review

P. Keim, D. Wagner, David Greenberg, 2010, Investigative Genetics.

Free mutual mate preferences in house mice affect reproductive success and offspring performance

L. C. Drickamer, P. Gowaty, D. Wagner, 2003, Animal Behaviour.

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

P. Keim, Nathan D Hicks, J. Schupp, 2016, PloS one.

Molecular Investigations of a Locally Acquired Case of Melioidosis in Southern AZ, USA

L. Price, V. Waddell, S. Beckstrom-Sternberg, 2011, PLoS neglected tropical diseases.

Protein abundances can distinguish between naturally-occurring and laboratory strains of Yersinia pestis, the causative agent of plague

Landon H. Sego, P. Keim, J. Adkins, 2017, PloS one.

DNA Capture and Enrichment: A Culture-Independent Approach for Characterizing the Genomic Diversity of Pathogenic Leptospira Species

J. Sahl, J. Nally, D. Wagner, 2023, Microorganisms.

Microhabitat Selection by Golden Mice (Ochrotomys nuttalli) at Arboreal Nest Sites

J. Newman, G. A. Feldhamer, D. Wagner, 2000 .

Evidence for two subspecies of Gunnison’s prairie dogs (Cynomys gunnisoni), and the general importance of the subspecies concept

Andrew P. Martin, R. Guralnick, D. Wagner, 2014 .

Local‐scale diversity of Yersinia pestis: A case study from Ambohitromby, Ankazobe District, Madagascar

Amy J. Vogler, J. Sahl, B. Ramasindrazana, 2021, Zoonoses and public health.

Forensic analysis in bacterial pathogens

Amy J. Vogler, J. Foster, A. Vogler, 2020, Microbial Forensics.

Accurate, rapid and high-throughput detection of strain-specific polymorphisms in Bacillus anthracis and Yersinia pestis by next-generation sequencing

Bruce Budowle, Paul Keim, Manohar R Furtado, 2010, Investigative Genetics.

Identifying Sources of Human Exposure to Plague

Amy J. Vogler, K. Gage, A. Vogler, 2005, Journal of Clinical Microbiology.

Resistance to plague among black-tailed prairie dog populations.

M. Antolin, D. Wagner, Kacy R. Cobble, 2012, Vector borne and zoonotic diseases.

Tandem repeat regions within the Burkholderia pseudomallei genome and their application for high resolution genotyping

Lynn Y. Huynh, R. Robison, D. DeShazer, 2007, BMC Microbiology.

Knockdown resistance mutations are common and widely distributed in Xenopsylla cheopis fleas that transmit plague in Madagascar

Crystal M. Hepp, R. Girod, F. N. Raharimalala, 2023, PLoS neglected tropical diseases.

Pre-Columbian Origins for North American Anthrax

J. Foster, J. Ravel, A. Hoffmaster, 2009, PloS one.

Diverse Genotypes of Yersinia pestis Caused Plague in Madagascar in 2007

Amy J. Vogler, A. Vogler, P. Keim, 2015, PLoS neglected tropical diseases.

Phylogeographic, genomic, and meropenem susceptibility analysis of Burkholderia ubonensis

P. Keim, J. Schupp, J. Gillece, 2017, PLoS neglected tropical diseases.

Burkholderia stagnalis sp. nov. and Burkholderia territorii sp. nov., two novel Burkholderia cepacia complex species from environmental and human sources.

P. Vandamme, P. Keim, J. Lipuma, 2015, International journal of systematic and evolutionary microbiology.

Trends of Human Plague, Madagascar, 1998–2016

S. Chanteau, L. Rahalison, F. Rakotomanana, 2019, Emerging infectious diseases.

A single introduction of Yersinia pestis to Brazil during the 3rd plague pandemic

Amy J. Vogler, Dawn N. Birdsell, A. Vogler, 2019, PloS one.

A review of methods for subtyping Yersinia pestis: From phenotypes to whole genome sequencing.

Amy J. Vogler, P. Keim, D. Wagner, 2016, Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases.

Detection of SARS-CoV-2 and its S and N proteins using surface enhanced Raman spectroscopy

P. Keim, A. Koppisch, Sierra A. Jaramillo, 2021, RSC advances.

Burkholderia ubonensis High-Level Tetracycline Resistance Is Due to Efflux Pump Synergy Involving a Novel TetA(64) Resistance Determinant

P. Keim, H. Schweizer, J. Sahl, 2020, Antimicrobial Agents and Chemotherapy.

Epidemiological Tracking and Population Assignment of the Non-Clonal Bacterium, Burkholderia pseudomallei

J. Foster, B. Spratt, D. Godoy, 2011, PLoS neglected tropical diseases.

Burkholderia humptydooensis sp. nov., a New Species Related to Burkholderia thailandensis and the Fifth Member of the Burkholderia pseudomallei Complex

G. Palacios, P. Keim, J. Ladner, 2016, Applied and Environmental Microbiology.

Leptospira sanjuanensis sp. nov., a pathogenic species of the genus Leptospira isolated from soil in Puerto Rico.

C. Roe, J. Sahl, J. Nally, 2022, International journal of systematic and evolutionary microbiology.

Divergent lineages of pathogenic Leptospira species are widespread and persisting in the environment in Puerto Rico, USA

J. Sahl, J. Nally, D. Wagner, 2021, medRxiv.