Pearson, Talima, Giffard, Philip, Beckstrom-Sternberg, Stephen, Auerbach, Raymond, Hornstra, Heidie, Tuanyok, Apichai, ...
Abstract Background Phylogeographic reconstruction of some bacterial populations is hindered by low diversity coupled with high levels of lateral gene transfer. A comparison of recombination levels...
Francisella tularensissubsp. novicidaisolated from a human in Arizona (2009)
Birdsell, Dawn N, Stewart, Tasha, Vogler, Amy J, Lawaczeck, Elisabeth, Diggs, Alisa, Sylvester, Tammy L, ...
Abstract Background Francisella tularensis is the etiologic agent of tularemia and is classified as a select agent by the Centers for Disease Control and Prevention. Currently four known subspecies...
Bacillus anthracisin China and its relationship to worldwide lineages (2009)
Simonson, Tatum S, Okinaka, Richard T, Wang, Bingxiang, Easterday, W Ryan, Huynh, Lynn, U'Ren, Jana M, ...
Abstract Background The global pattern of distribution of 1033 B. anthracis isolates has previously been defined by a set of 12 conserved canonical single nucleotide polymorphisms (canSNP). These...
Bacillus anthracis in China and Its Relationship to Worldwide Lineages (2009)
Simonson, Tatum S., Okinaka, Richard T., Wang, Bingxiang, Easterday, W. Ryan, Huynh, Lynn, U'Ren, Jana M., ...
Background: The global pattern of distribution of 1033 B. anthracis isolates has previously been defined by a set of 12 conserved canonical single nucleotide polymorphisms (canSNP). These studies...
Extending the Path Analysis Technique to Obtain a Soft WCET (2009)
Keim, Paul, Noyes, Amanda, Ferguson, Andrew, Neal, Joshua, Healy, Christopher
This paper discusses an efficient approach to statically compute a WCET that is "soft" rather than "hard". The goal of most timing analysis is to determine a guaranteed WCET; however this execution...
Genomic islands from five strains of Burkholderia pseudomallei (2008)
Tuanyok, Apichai, Leadem, Benjamin R, Auerbach, Raymond K, Beckstrom-Sternberg, Stephen M, Beckstrom-Sternberg, James S, Mayo, Mark, ...
Abstract Background Burkholderia pseudomallei is the etiologic agent of melioidosis, a significant cause of morbidity and mortality where this infection is endemic. Genomic differences among strains...
Christopher J. Allender, Karen M. Clancy, Tom E. Degomez, Joel D. McMillin, Scott A. Woolbright, Paul Keim, ...
Bark beetles (Coleoptera: Curculionidae, Scolytinae) play an important role as disturbance agents in ponderosa pine (Pinus ponderosa Douglas ex Lawson) forests of Arizona. However, from 2001 to 2003,...
The Complete Genome Sequence of Bacillus thuringiensis Al Hakam (2008)
Challacombe, Jean F., Altherr, Michael R., Xie, Gary, Bhotika, Smriti S., Brown, Nancy, Bruce, David, ...
Bacillus thuringiensis is an insect pathogen that is widely used as a biopesticide (3). Here we report the finished, annotated genome sequence of B. thuringiensis Al Hakam, which was collected in...
Uloga zakonskih mjera i mikrobiološke sudskomedicinske znanosti u proučavanju bioterorozma (2007)
Bruce Budowle, Jodi A. Beaudry, Neel G. Barnaby, Alan M. Giusti, Jason D. Bannan, Paul Keim
Rizici i opasnosti od bioterorizma i biološkog kriminala postali su velika briga i izazov za državne vlade i društvo, jer oni moraju povećati sigurnosne mjere u odnosu na te prijetnje. Primjena...
U'Ren, Jana M, Schupp, James M, Pearson, Talima, Hornstra, Heidie, Friedman, Christine, Smith, Kimothy L, ...
Abstract Background The facultative, intracellular bacterium Burkholderia pseudomallei is the causative agent of melioidosis, a serious infectious disease of humans and animals. We identified and...
POLYGYNY AND EXTRA-PAIR PATERNITY IN A POPULATION OF SOUTHWESTERN WILLOW FLYCATCHERS (2006)
Talima Pearson, Mary J. Whitfield, Tad C. Theimer, Paul Keim
Han, Cliff S., Xie, Gary, Challacombe, Jean F., Altherr, Michael R., Smriti, B., Bruce, David, ...
The sequencing and analysis of two close relatives of Bacillus anthracis are reported. AFLP analysis of over 300 isolates of B. cereus, B. thuringiensis and B. anthracis identified two isolates as...
Microevolution and history of the plague bacillus, Yersinia pestis (2004)
Achtman,Mark, Morelli,Giovanna, Zhu,Peixuan X., Wirth,Thierry, Diehl,Ines, Kusecek,Barica, ...
The association of historical plague pandemics with Yersinia pestis remains controversial, partly because the evolutionary history of this largely monomorphic bacterium was unknown. The...
Vodkin, Lila O, Khanna, Anupama, Shealy, Robin, Clough, Steven J, Gonzalez, Delkin, Philip, Reena, ...
Abstract Background Microarrays are an important tool with which to examine coordinated gene expression. Soybean ( Glycine max ) is one of the most economically valuable crop species in the world...
Microevolution and history of the plague bacillus, Yersinia pestis (2004)
Achtman, Mark, Morelli, Giovanna, Zhu, Peixuan X., Wirth, Thierry, Diehl, Ines, Kusecek, Barica, ...
Vodkin, Lila, Khanna, Anupama, Shealy, Robin, Clough, Steven, Gonzalez, Delkin, Philip, Reena, ...
BACKGROUND:Microarrays are an important tool with which to examine coordinated gene expression. Soybean (Glycine max) is one of the most economically valuable crop species in the world food supply....
NESTLING SEX RATIO IN THE SOUTHWESTERN WILLOW FLYCATCHER (2002)
Eben H. Paxton, Mark K. Sogge, Tracy D. McCarthey, Paul Keim
Using molecular-genetic techniques, we determined the gender of 202 Southwestern Willow Flycatcher (Empidonax traillii extimus) nestlings from 95 nests sampled over a five-year period. Overall...
HYBRID POPULATIONS SELECTIVELY FILTER GENE INTROGRESSION BETWEEN SPECIES (2001)
Gregory D. Martinsen, Thomas G. Whitham, Richard J. Turek, Paul Keim
Hybrids have long been recognized as a potential pathway for gene flow between species that can have important consequences for evolution and conservation biology. However, few studies have...
GENETIC VARIATION IN THE ENDANGERED SOUTHWESTERN WILLOW FLYCATCHER (2000)
Joseph D. Busch, Mark P. Miller, Eben H. Paxton, Mark K. Sogge, Paul Keim
Über die Vereinigung von Benzil mit Phenol / (1909)
Thesis (doctoral)--Hessische Ludwigs-Universität Giessen, 1909.
Jackson, Paul J., Hugh-Jones, Martin E., Adair, Debra M., Green, Gertrude, Hill, Karen K., Kuske, Cheryl R., ...
An outbreak of human anthrax occurred in Sverdlovsk, Union of Soviet Socialists Republic (now Ekaterinburg, Russia) in April 1979. Officials attributed this to consumption of contaminated meat, but...
Identification and Characterization of Variable-Number Tandem Repeats in the Yersinia pestis Genome
Klevytska, Alexandra M., Price, Lance B., Schupp, James M., Worsham, Patricia L., Wong, Jane, Keim, Paul
Yersinia pestis, the infamous plague-causing pathogen, appears to have emerged in relatively recent history. Evidence of this fact comes from several studies that document a lack of nucleotide...
Francisella tularensis Strain Typing Using Multiple-Locus, Variable-Number Tandem Repeat Analysis
Farlow, Jason, Smith, Kimothy L., Wong, Jane, Abrams, Michelle, Lytle, Michael, Keim, Paul
Francisella tularensis, the etiological agent of tularemia, is found throughout the Northern hemisphere. After analyzing the F. tularensis genomic sequence for potential variable-number tandem...
Molecular Investigation of the Aum Shinrikyo Anthrax Release in Kameido, Japan
Keim, Paul, Smith, Kimothy L., Keys, Christine, Takahashi, Hiroshi, Kurata, Takeshi, Kaufmann, Arnold
In 1993, the Aum Shinrikyo cult aerosolized Bacillus anthracis spores over Kameido, Japan. Spore samples were obtained from the release site, cultured, and characterized by molecular genetic typing....
Ticknor, Lawrence O., Kolstø, Anne-Brit, Hill, Karen K., Keim, Paul, Laker, Miriam T., Tonks, Melinda, ...
We examined 154 Norwegian B. cereus and B. thuringiensis soil isolates (collected from five different locations), 8 B. cereus and 2 B. thuringiensis reference strains, and 2 Bacillus anthracis...
Genetic Diversity in the Protective Antigen Gene of Bacillus anthracis
Price, Lance B., Hugh-Jones, Martin, Jackson, Paul J., Keim, Paul
Bacillus anthracis is a gram-positive spore-forming bacterium that causes the disease anthrax. The anthrax toxin contains three components, including the protective antigen (PA), which binds to...
vrrB, a Hypervariable Open Reading Frame in Bacillus anthracis
Schupp, James M., Klevytska, Alexandra M., Zinser, Guenevier, Price, Lance B., Keim, Paul
Bacillus anthracis appears to be the most molecularly homogeneous bacterial species known. Extensive surveys of worldwide isolates have revealed vanishingly small amounts of genomic variation. The...
Development and Testing of a Bacterial Biosensor for Toluene-Based Environmental Contaminants
Willardson, Barry M., Wilkins, Jon F., Rand, Timothy A., Schupp, James M., Hill, Karen K., Keim, Paul, ...
A bacterial biosensor for benzene, toluene, and similar compounds has been constructed, characterized, and field tested on contaminated water and soil. The biosensor is based on a plasmid...
Molecular Analysis of Rifampin Resistance in Bacillus anthracis and Bacillus cereus
Vogler, Amy J., Busch, Joseph D., Percy-Fine, Stephanie, Tipton-Hunton, Christine, Smith, Kimothy L., Keim, Paul
Rifampin-resistant mutants were selected from UV-light-treated Bacillus cereus (20 mutants) and attenuated B. anthracis (23 mutants). In addition, spontaneous rifampin-resistant mutants were also...
Radnedge, Lyndsay, Agron, Peter G., Hill, Karen K., Jackson, Paul J., Ticknor, Lawrence O., Keim, Paul, ...
The three species of the group 1 bacilli, Bacillus anthracis, B. cereus, and B. thuringiensis, are genetically very closely related. All inhabit soil habitats but exhibit different phenotypes. B....
Farlow, Jason, Postic, Danielle, Smith, Kimothy L., Jay, Zack, Baranton, Guy, Keim, Paul
Human Lyme borreliosis (LB) is the most prevalent arthropod-borne infection in temperate climate zones around the world and is caused by Borrelia spirochetes. We have identified 10 variable-number...
Diversity among French Bacillus anthracis Isolates
Fouet, Agnès, Smith, Kimothy L., Keys, Chris, Vaissaire, Josée, Le Doujet, Claudine, Lévy, Martine, ...
While outbreaks of animal anthrax zoonoses still regularly occur in France, little is known about the epidemiology links between them. We have used the eight-locus multilocus variable-number tandem...
Price, Lance B., Vogler, Amy, Pearson, Talima, Busch, Joseph D., Schupp, James M., Keim, Paul
Mutants of attenuated Bacillus anthracis with high-level ciprofloxacin resistance were isolated using a three-step in vitro selection. Ciprofloxacin MICs were 0.5 μg/ml for first-step mutants, which...
Scott Spurgiesz, R., Quitugua, Teresa N., Smith, Kimothy L., Schupp, James, Palmer, Eldon G., Cox, Rebecca A., ...
Molecular epidemiological tools for genotyping clinical isolates of Mycobacterium tuberculosis have been developed and used to help track and contain transmission of tuberculosis. We identified 87...
Hill, Karen K., Ticknor, Lawrence O., Okinaka, Richard T., Asay, Michelle, Blair, Heather, Bliss, Katherine A., ...
DNA from over 300 Bacillus thuringiensis, Bacillus cereus, and Bacillus anthracis isolates was analyzed by fluorescent amplified fragment length polymorphism (AFLP). B. thuringiensis and B. cereus...
Girard, Jessica M., Wagner, David M., Vogler, Amy J., Keys, Christine, Allender, Christopher J., Drickamer, Lee C., ...
Plague, the disease caused by the bacterium Yersinia pestis, has greatly impacted human civilization. Y. pestis is a successful global pathogen, with active foci on all continents except Australia...
Johansson, Anders, Farlow, Jason, Larsson, Pär, Dukerich, Meghan, Chambers, Elias, Byström, Mona, ...
The intracellular bacterium Francisella tularensis is the causative agent of tularemia and poses a serious threat as an agent of bioterrorism. We have developed a highly effective molecular subtyping...
Pearson, Talima, Busch, Joseph D., Ravel, Jacques, Read, Timothy D., Rhoton, Shane D., U'Ren, Jana M., ...
Phylogenetic reconstruction using molecular data is often subject to homoplasy, leading to inaccurate conclusions about phylogenetic relationships among operational taxonomic units. Compared with...
Vodkin, Lila O, Khanna, Anupama, Shealy, Robin, Clough, Steven J, Gonzalez, Delkin Orlando, Philip, Reena, ...
Microevolution and history of the plague bacillus, Yersinia pestis
Achtman, Mark, Morelli, Giovanna, Zhu, Peixuan, Wirth, Thierry, Diehl, Ines, Kusecek, Barica, ...
The association of historical plague pandemics with Yersinia pestis remains controversial, partly because the evolutionary history of this largely monomorphic bacterium was unknown. The...
Identifying Sources of Human Exposure to Plague
Lowell, Jennifer L., Wagner, David M., Atshabar, Bakyt, Antolin, Michael F., Vogler, Amy J., Keim, Paul, ...
Yersinia pestis, the etiologic agent of plague, has shaped the course of human history, killing millions of people in three major pandemics. This bacterium is still endemic in parts of Asia, Africa,...
Easterday, W. Ryan, Van Ert, Matthew N., Simonson, Tatum S., Wagner, David M., Kenefic, Leo J., Allender, Christopher J., ...
A TaqMan-minor groove binding assay designed around a nonsense mutation in the plcR gene was used to genotype Bacillus anthracis, B. cereus, and B. thuringiensis isolates. The assay differentiated B....
Cheung, Danny T. L., Kam, Kai Man, Hau, Kong Lung, Au, Tak Kong, Marston, Chung K., Gee, Jay E., ...
We used multiple-locus variable-number tandem repeat analysis (MLVA) and pagA sequencing to genotype a Bacillus anthracis isolate from a fatal case of human anthrax in Hong Kong. The isolate has a...
Identifying Sources of Human Exposure to Plague
Lowell, Jennifer L., Wagner, David M., Atshabar, Bakyt, Antolin, Michael F., Vogler, Amy J., Keim, Paul, ...
Molecular Diversity of Bacillus anthracis in Italy
Fasanella, Antonio, Van Ert, Matthew, Altamura, Settimia A., Garofolo, Giuliano, Buonavoglia, Canio, Leori, Guido, ...
We used multiple-locus variable-number tandem repeat analysis (MLVA) to type 64 Bacillus anthracis isolates from outbreaks that have occurred during the past 40 years in Italy. MLVA of the 64...
Detection of Diverse New Francisella-Like Bacteria in Environmental Samples†
Barns, Susan M., Grow, Christy C., Okinaka, Richard T., Keim, Paul, Kuske, Cheryl R.
Following detection of putative Francisella species in aerosol samples from Houston, Texas, we surveyed soil and water samples from the area for the agent of tularemia, Francisella tularensis, and...
U'Ren, Jana M., Van Ert, Matthew N., Schupp, James M., Easterday, W. Ryan, Simonson, Tatum S., Okinaka, Richard T., ...
A TaqMan allelic-discrimination assay designed around a synonymous single-nucleotide polymorphism was used to genotype Burkholderia pseudomallei and Burkholderia mallei isolates. The assay rapidly...
Han, Cliff S., Xie, Gary, Challacombe, Jean F., Altherr, Michael R., Bhotika, Smriti S., Bruce, David, ...
Bacillus anthracis, Bacillus cereus, and Bacillus thuringiensis are closely related gram-positive, spore-forming bacteria of the B. cereus sensu lato group. While independently derived strains of B....
Forbes, Scott N., Valenzuela, Robert K., Keim, Paul, Service, Philip M.
Composite interval mapping was used to identify life-span QTL in F2 progeny of three crosses between different pairs of inbred lines. Each inbred line was derived from a different outbred population...
Valenzuela, Robert K., Forbes, Scott N., Keim, Paul, Service, Philip M.
Three selection experiments were used to identify chromosome regions that contain QTL affecting late-life and early-life fitness in Drosophila melanogaster. The selection experiments were initiated...
Effect of Repeat Copy Number on Variable-Number Tandem Repeat Mutations in Escherichia coli O157:H7
Vogler, Amy J., Keys, Christine, Nemoto, Yoshimi, Colman, Rebecca E., Jay, Zack, Keim, Paul
Variable-number tandem repeat (VNTR) loci have shown a remarkable ability to discriminate among isolates of the recently emerged clonal pathogen Escherichia coli O157:H7, making them a very useful...
Jackson, Paul J., Hugh-Jones, Martin E., Adair, Debra M., Green, Gertrude, Hill, Karen K., Kuske, Cheryl R., ...
An outbreak of human anthrax occurred in Sverdlovsk, Union of Soviet Socialists Republic (now Ekaterinburg, Russia) in April 1979. Officials attributed this to consumption of contaminated meat, but...
Identification and Characterization of Variable-Number Tandem Repeats in the Yersinia pestis Genome
Klevytska, Alexandra M., Price, Lance B., Schupp, James M., Worsham, Patricia L., Wong, Jane, Keim, Paul
Yersinia pestis, the infamous plague-causing pathogen, appears to have emerged in relatively recent history. Evidence of this fact comes from several studies that document a lack of nucleotide...
Francisella tularensis Strain Typing Using Multiple-Locus, Variable-Number Tandem Repeat Analysis
Farlow, Jason, Smith, Kimothy L., Wong, Jane, Abrams, Michelle, Lytle, Michael, Keim, Paul
Francisella tularensis, the etiological agent of tularemia, is found throughout the Northern hemisphere. After analyzing the F. tularensis genomic sequence for potential variable-number tandem...
Molecular Investigation of the Aum Shinrikyo Anthrax Release in Kameido, Japan
Keim, Paul, Smith, Kimothy L., Keys, Christine, Takahashi, Hiroshi, Kurata, Takeshi, Kaufmann, Arnold
In 1993, the Aum Shinrikyo cult aerosolized Bacillus anthracis spores over Kameido, Japan. Spore samples were obtained from the release site, cultured, and characterized by molecular genetic typing....
Ticknor, Lawrence O., Kolstø, Anne-Brit, Hill, Karen K., Keim, Paul, Laker, Miriam T., Tonks, Melinda, ...
We examined 154 Norwegian B. cereus and B. thuringiensis soil isolates (collected from five different locations), 8 B. cereus and 2 B. thuringiensis reference strains, and 2 Bacillus anthracis...
Genetic Diversity in the Protective Antigen Gene of Bacillus anthracis
Price, Lance B., Hugh-Jones, Martin, Jackson, Paul J., Keim, Paul
Bacillus anthracis is a gram-positive spore-forming bacterium that causes the disease anthrax. The anthrax toxin contains three components, including the protective antigen (PA), which binds to...
vrrB, a Hypervariable Open Reading Frame in Bacillus anthracis
Schupp, James M., Klevytska, Alexandra M., Zinser, Guenevier, Price, Lance B., Keim, Paul
Bacillus anthracis appears to be the most molecularly homogeneous bacterial species known. Extensive surveys of worldwide isolates have revealed vanishingly small amounts of genomic variation. The...
Development and Testing of a Bacterial Biosensor for Toluene-Based Environmental Contaminants
Willardson, Barry M., Wilkins, Jon F., Rand, Timothy A., Schupp, James M., Hill, Karen K., Keim, Paul, ...
A bacterial biosensor for benzene, toluene, and similar compounds has been constructed, characterized, and field tested on contaminated water and soil. The biosensor is based on a plasmid...
Molecular Analysis of Rifampin Resistance in Bacillus anthracis and Bacillus cereus
Vogler, Amy J., Busch, Joseph D., Percy-Fine, Stephanie, Tipton-Hunton, Christine, Smith, Kimothy L., Keim, Paul
Rifampin-resistant mutants were selected from UV-light-treated Bacillus cereus (20 mutants) and attenuated B. anthracis (23 mutants). In addition, spontaneous rifampin-resistant mutants were also...
Radnedge, Lyndsay, Agron, Peter G., Hill, Karen K., Jackson, Paul J., Ticknor, Lawrence O., Keim, Paul, ...
The three species of the group 1 bacilli, Bacillus anthracis, B. cereus, and B. thuringiensis, are genetically very closely related. All inhabit soil habitats but exhibit different phenotypes. B....
Farlow, Jason, Postic, Danielle, Smith, Kimothy L., Jay, Zack, Baranton, Guy, Keim, Paul
Human Lyme borreliosis (LB) is the most prevalent arthropod-borne infection in temperate climate zones around the world and is caused by Borrelia spirochetes. We have identified 10 variable-number...
Diversity among French Bacillus anthracis Isolates
Fouet, Agnès, Smith, Kimothy L., Keys, Chris, Vaissaire, Josée, Le Doujet, Claudine, Lévy, Martine, ...
While outbreaks of animal anthrax zoonoses still regularly occur in France, little is known about the epidemiology links between them. We have used the eight-locus multilocus variable-number tandem...
Price, Lance B., Vogler, Amy, Pearson, Talima, Busch, Joseph D., Schupp, James M., Keim, Paul
Mutants of attenuated Bacillus anthracis with high-level ciprofloxacin resistance were isolated using a three-step in vitro selection. Ciprofloxacin MICs were 0.5 μg/ml for first-step mutants, which...
Scott Spurgiesz, R., Quitugua, Teresa N., Smith, Kimothy L., Schupp, James, Palmer, Eldon G., Cox, Rebecca A., ...
Molecular epidemiological tools for genotyping clinical isolates of Mycobacterium tuberculosis have been developed and used to help track and contain transmission of tuberculosis. We identified 87...
Hill, Karen K., Ticknor, Lawrence O., Okinaka, Richard T., Asay, Michelle, Blair, Heather, Bliss, Katherine A., ...
DNA from over 300 Bacillus thuringiensis, Bacillus cereus, and Bacillus anthracis isolates was analyzed by fluorescent amplified fragment length polymorphism (AFLP). B. thuringiensis and B. cereus...
Girard, Jessica M., Wagner, David M., Vogler, Amy J., Keys, Christine, Allender, Christopher J., Drickamer, Lee C., ...
Plague, the disease caused by the bacterium Yersinia pestis, has greatly impacted human civilization. Y. pestis is a successful global pathogen, with active foci on all continents except Australia...
Johansson, Anders, Farlow, Jason, Larsson, Pär, Dukerich, Meghan, Chambers, Elias, Byström, Mona, ...
The intracellular bacterium Francisella tularensis is the causative agent of tularemia and poses a serious threat as an agent of bioterrorism. We have developed a highly effective molecular subtyping...
Pearson, Talima, Busch, Joseph D., Ravel, Jacques, Read, Timothy D., Rhoton, Shane D., U'Ren, Jana M., ...
Phylogenetic reconstruction using molecular data is often subject to homoplasy, leading to inaccurate conclusions about phylogenetic relationships among operational taxonomic units. Compared with...
Vodkin, Lila O, Khanna, Anupama, Shealy, Robin, Clough, Steven J, Gonzalez, Delkin Orlando, Philip, Reena, ...
Microevolution and history of the plague bacillus, Yersinia pestis
Achtman, Mark, Morelli, Giovanna, Zhu, Peixuan, Wirth, Thierry, Diehl, Ines, Kusecek, Barica, ...
The association of historical plague pandemics with Yersinia pestis remains controversial, partly because the evolutionary history of this largely monomorphic bacterium was unknown. The...
Identifying Sources of Human Exposure to Plague
Lowell, Jennifer L., Wagner, David M., Atshabar, Bakyt, Antolin, Michael F., Vogler, Amy J., Keim, Paul, ...
Yersinia pestis, the etiologic agent of plague, has shaped the course of human history, killing millions of people in three major pandemics. This bacterium is still endemic in parts of Asia, Africa,...
Easterday, W. Ryan, Van Ert, Matthew N., Simonson, Tatum S., Wagner, David M., Kenefic, Leo J., Allender, Christopher J., ...
A TaqMan-minor groove binding assay designed around a nonsense mutation in the plcR gene was used to genotype Bacillus anthracis, B. cereus, and B. thuringiensis isolates. The assay differentiated B....
Cheung, Danny T. L., Kam, Kai Man, Hau, Kong Lung, Au, Tak Kong, Marston, Chung K., Gee, Jay E., ...
We used multiple-locus variable-number tandem repeat analysis (MLVA) and pagA sequencing to genotype a Bacillus anthracis isolate from a fatal case of human anthrax in Hong Kong. The isolate has a...
Identifying Sources of Human Exposure to Plague
Lowell, Jennifer L., Wagner, David M., Atshabar, Bakyt, Antolin, Michael F., Vogler, Amy J., Keim, Paul, ...
Molecular Diversity of Bacillus anthracis in Italy
Fasanella, Antonio, Van Ert, Matthew, Altamura, Settimia A., Garofolo, Giuliano, Buonavoglia, Canio, Leori, Guido, ...
We used multiple-locus variable-number tandem repeat analysis (MLVA) to type 64 Bacillus anthracis isolates from outbreaks that have occurred during the past 40 years in Italy. MLVA of the 64...
Detection of Diverse New Francisella-Like Bacteria in Environmental Samples†
Barns, Susan M., Grow, Christy C., Okinaka, Richard T., Keim, Paul, Kuske, Cheryl R.
Following detection of putative Francisella species in aerosol samples from Houston, Texas, we surveyed soil and water samples from the area for the agent of tularemia, Francisella tularensis, and...
U'Ren, Jana M., Van Ert, Matthew N., Schupp, James M., Easterday, W. Ryan, Simonson, Tatum S., Okinaka, Richard T., ...
A TaqMan allelic-discrimination assay designed around a synonymous single-nucleotide polymorphism was used to genotype Burkholderia pseudomallei and Burkholderia mallei isolates. The assay rapidly...
Han, Cliff S., Xie, Gary, Challacombe, Jean F., Altherr, Michael R., Bhotika, Smriti S., Bruce, David, ...
Bacillus anthracis, Bacillus cereus, and Bacillus thuringiensis are closely related gram-positive, spore-forming bacteria of the B. cereus sensu lato group. While independently derived strains of B....
Forbes, Scott N., Valenzuela, Robert K., Keim, Paul, Service, Philip M.
Composite interval mapping was used to identify life-span QTL in F2 progeny of three crosses between different pairs of inbred lines. Each inbred line was derived from a different outbred population...
Valenzuela, Robert K., Forbes, Scott N., Keim, Paul, Service, Philip M.
Three selection experiments were used to identify chromosome regions that contain QTL affecting late-life and early-life fitness in Drosophila melanogaster. The selection experiments were initiated...
Effect of Repeat Copy Number on Variable-Number Tandem Repeat Mutations in Escherichia coli O157:H7
Vogler, Amy J., Keys, Christine, Nemoto, Yoshimi, Colman, Rebecca E., Jay, Zack, Keim, Paul
Variable-number tandem repeat (VNTR) loci have shown a remarkable ability to discriminate among isolates of the recently emerged clonal pathogen Escherichia coli O157:H7, making them a very useful...
Maho, Angaya, Rossano, Alexandra, Hächler, Herbert, Holzer, Anita, Schelling, Esther, Zinsstag, Jakob, ...
We genotyped 15 Bacillus anthracis isolates from Chad, Africa, using multiple-locus variable-number tandem repeat analysis and three additional direct-repeat markers. We identified two unique...
A North American Yersinia pestis Draft Genome Sequence: SNPs and Phylogenetic Analysis
Touchman, Jeffrey W., Wagner, David M., Hao, Jicheng, Mastrian, Stephen D., Shah, Maulik K., Vogler, Amy J., ...
Han, Cliff S., Xie, Gary, Challacombe, Jean F., Altherr, Michael R., Bhotika, Smriti S., Brown, Nancy, ...
U'Ren, Jana M, Schupp, James M, Pearson, Talima, Hornstra, Heidie, Friedman, Christine L Clark, Smith, Kimothy L, ...
Strain-Specific Single-Nucleotide Polymorphism Assays for the Bacillus anthracis Ames Strain† ▿
Van Ert, Matthew N., Easterday, W. Ryan, Simonson, Tatum S., U'Ren, Jana M., Pearson, Talima, Kenefic, Leo J., ...
Highly precise diagnostics and forensic assays can be developed through a combination of evolutionary analysis and the exhaustive examination of genomic sequences. In Bacillus anthracis, whole-genome...
Global Genetic Population Structure of Bacillus anthracis
Van Ert, Matthew N., Easterday, W. Ryan, Huynh, Lynn Y., Okinaka, Richard T., Hugh-Jones, Martin E., Ravel, Jacques, ...
Anthrax, caused by the bacterium Bacillus anthracis, is a disease of historical and current importance that is found throughout the world. The basis of its historical transmission is anecdotal and...
Auerbach, Raymond K., Tuanyok, Apichai, Probert, William S., Kenefic, Leo, Vogler, Amy J., Bruce, David C., ...
The Complete Genome Sequence of Bacillus thuringiensis Al Hakam▿
Challacombe, Jean F., Altherr, Michael R., Xie, Gary, Bhotika, Smriti S., Brown, Nancy, Bruce, David, ...
Bacillus thuringiensis is an insect pathogen that is widely used as a biopesticide (E. Schnepf, N. Crickmore, J. Van Rie, D. Lereclus, J. Baum, J. Feitelson, D. R. Zeigler, and D. H. Dean, Microbiol....
Role of Law Enforcement Response and Microbial Forensics in Investigation of Bioterrorism
Budowle, Bruce, Beaudry, Jodi A., Barnaby, Neel G., Giusti, Alan M., Bannan, Jason D., Keim, Paul
The risk and threat of bioterrorism and biocrime have become a large concern and challenge for governments and society to enhance biosecurity. Law enforcement plays an important role in assessing and...
Fine-Scale Genetic Diversity among Burkholderia pseudomallei Soil Isolates in Northeast Thailand▿
U'Ren, Jana M., Hornstra, Heidie, Pearson, Talima, Schupp, James M., Leadem, Benjamin, Georgia, Shalamar, ...
Burkholderia pseudomallei soil isolates from northeast Thailand were genotyped using multiple-locus variable-number tandem repeat (VNTR) analysis (MLVA) and multilocus sequence typing (MLST). MLVA...
Tuanyok, Apichai, Auerbach, Raymond K., Brettin, Thomas S., Bruce, David C., Munk, A. Christine, Detter, J. Chris, ...
Burkholderia pseudomallei is the etiologic agent of melioidosis. Many disease manifestations are associated with melioidosis, and the mechanisms causing this variation are unknown; genomic...
Real-Time PCR Assays of Single-Nucleotide Polymorphisms Defining the Major Brucella Clades▿
Foster, Jeffrey T., Okinaka, Richard T., Svensson, Rita, Shaw, Kathryn, De, Barun K., Robison, Richard A., ...
Members of the genus Brucella are known worldwide as pathogens of wildlife and livestock and are the most common organisms of zoonotic infection in humans. In general, brucellae exhibit a range of...
Persistence of Category A Select Agents in the Environment▿
Sinclair, Ryan, Boone, Stephanie A., Greenberg, David, Keim, Paul, Gerba, Charles P.
Real-Time PCR Assays of Single-Nucleotide Polymorphisms Defining the Major Brucella Clades
Foster, Jeffrey T., Okinaka, Richard T., Svensson, Rita, Shaw, Kathryn, De, Barun K., Robison, Richard A., ...
Genomic islands from five strains of Burkholderia pseudomallei
Tuanyok, Apichai, Leadem, Benjamin R, Auerbach, Raymond K, Beckstrom-Sternberg, Stephen M, Beckstrom-Sternberg, James S, Mayo, Mark, ...
Single Nucleotide Polymorphism Typing of Bacillus anthracis from Sverdlovsk Tissue
Okinaka, Richard T., Henrie, Melinda, Hill, Karen K., Lowery, KristinS., Van Ert, Matthew, Pearson, Talima, ...
A small number of conserved canonical single nucleotide polymorphisms (canSNP) that define major phylogenetic branches for Bacillus anthracis were used to place a Sverdlovsk patient’s B. anthracis...
Texas Isolates Closely Related to Bacillus anthracis Ames
Kenefic, Leo J., Pearson, Talima, Okinaka, Richard T., Chung, Wai-Kwan, Max, Tamara, Van Ert, Matthew N., ...
Pre-Columbian Origins for North American Anthrax
Kenefic, Leo J., Pearson, Talima, Okinaka, Richard T., Schupp, James M., Wagner, David M., Ravel, Jacques, ...
Disease introduction into the New World during colonial expansion is well documented and had a major impact on indigenous populations; however, few diseases have been associated with early human...
Identification of Melioidosis Outbreak by Multilocus Variable Number Tandem Repeat Analysis
Currie, Bart J., Haslem, Asha, Pearson, Talima, Hornstra, Heidie, Leadem, Benjamin, Mayo, Mark, ...
One-sentence summary for table of contents: This analysis can identify a clonal outbreak of this disease within 8 hours of receipt of bacterial isolates.
Bacillus anthracis in China and its relationship to worldwide lineages
Simonson, Tatum S, Okinaka, Richard T, Wang, Bingxiang, Easterday, W Ryan, Huynh, Lynn, U'Ren, Jana M, ...
Champion, Mia D., Zeng, Qiandong, Nix, Eli B., Nano, Francis E., Keim, Paul, Kodira, Chinnappa D., ...
Tularemia is a geographically widespread, severely debilitating, and occasionally lethal disease in humans. It is caused by infection by a gram-negative bacterium, Francisella tularensis. In order to...
Correction: Pre-Columbian Origins for North American Anthrax
Kenefic, Leo J., Pearson, Talima, Okinaka, Richard T., Schupp, James M., Wagner, David M., Hoffmaster, Alex R., ...
Larsson, Pär, Elfsmark, Daniel, Svensson, Kerstin, Wikström, Per, Forsman, Mats, Brettin, Thomas, ...
Francisella tularensis is a potent mammalian pathogen well adapted to intracellular habitats, whereas F. novicida and F. philomiragia are less virulent in mammals and appear to have less specialized...
Trunck, Lily A., Propst, Katie L., Wuthiekanun, Vanaporn, Tuanyok, Apichai, Beckstrom-Sternberg, Stephen M., Beckstrom-Sternberg, James S., ...
Burkholderia pseudomallei is the etiologic agent of melioidosis, an emerging tropical disease. Because of low infectious dose, broad-host-range infectivity, intrinsic antibiotic resistance and...
Phylogeography of Francisella tularensis: Global Expansion of a Highly Fit Clone▿ †
Vogler, Amy J., Birdsell, Dawn, Price, Lance B., Bowers, Jolene R., Beckstrom-Sternberg, Stephen M., Auerbach, Raymond K., ...
Francisella tularensis contains several highly pathogenic subspecies, including Francisella tularensis subsp. holarctica, whose distribution is circumpolar in the northern hemisphere. The...
Whole-Genome-Based Phylogeny and Divergence of the Genus Brucella▿ †
Foster, Jeffrey T., Beckstrom-Sternberg, Stephen M., Pearson, Talima, Beckstrom-Sternberg, James S., Chain, Patrick S. G., Roberto, Francisco F., ...
Brucellae are worldwide bacterial pathogens of livestock and wildlife, but phylogenetic reconstructions have been challenging due to limited genetic diversity. We assessed the taxonomic and...