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Items: 40

1.

Zoonotic Source Attribution of Salmonella enterica Serotype Typhimurium Using Genomic Surveillance Data, United States.

Zhang S, Li S, Gu W, den Bakker H, Boxrud D, Taylor A, Roe C, Driebe E, Engelthaler DM, Allard M, Brown E, McDermott P, Zhao S, Bruce BB, Trees E, Fields PI, Deng X.

Emerg Infect Dis. 2019 Jan;25(1):82-91. doi: 10.3201/eid2501.180835.

2.

Improved Subtyping of Staphylococcus aureus Clonal Complex 8 Strains Based on Whole-Genome Phylogenetic Analysis.

Bowers JR, Driebe EM, Albrecht V, McDougal LK, Granade M, Roe CC, Lemmer D, Rasheed JK, Engelthaler DM, Keim P, Limbago BM.

mSphere. 2018 May 2;3(3). pii: e00464-17. doi: 10.1128/mSphere.00464-17. eCollection 2018 May-Jun.

3.

Direct detection of Coccidioides from Arizona soils using CocciENV, a highly sensitive and specific real-time PCR assay.

Bowers JR, Parise KL, Kelley EJ, Lemmer D, Schupp JM, Driebe EM, Engelthaler DM, Keim P, Barker BM.

Med Mycol. 2019 Feb 1;57(2):246-255. doi: 10.1093/mmy/myy007.

PMID:
29534236
4.

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

Sahl JW, Lemmer D, Travis J, Schupp JM, Gillece JD, Aziz M, Driebe EM, Drees KP, Hicks ND, Williamson CHD, Hepp CM, Smith DE, Roe C, Engelthaler DM, Wagner DM, Keim P.

Microb Genom. 2016 Aug 25;2(8):e000074. doi: 10.1099/mgen.0.000074. eCollection 2016 Aug.

5.

Whole genome SNP typing to investigate methicillin-resistant Staphylococcus aureus carriage in a health-care provider as the source of multiple surgical site infections.

Roe CC, Horn KS, Driebe EM, Bowers J, Terriquez JA, Keim P, Engelthaler DM.

Hereditas. 2016 Nov 14;153:11. doi: 10.1186/s41065-016-0017-x. eCollection 2016.

6.

KlebSeq, a Diagnostic Tool for Surveillance, Detection, and Monitoring of Klebsiella pneumoniae.

Bowers JR, Lemmer D, Sahl JW, Pearson T, Driebe EM, Wojack B, Saubolle MA, Engelthaler DM, Keim P.

J Clin Microbiol. 2016 Oct;54(10):2582-96. doi: 10.1128/JCM.00927-16. Epub 2016 Aug 10.

7.

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

Engelthaler DM, Roe CC, Hepp CM, Teixeira M, Driebe EM, Schupp JM, Gade L, Waddell V, Komatsu K, Arathoon E, Logemann H, Thompson GR 3rd, Chiller T, Barker B, Keim P, Litvintseva AP.

MBio. 2016 Apr 26;7(2):e00550-16. doi: 10.1128/mBio.00550-16.

8.

Hypervirulent emm59 Clone in Invasive Group A Streptococcus Outbreak, Southwestern United States.

Engelthaler DM, Valentine M, Bowers J, Pistole J, Driebe EM, Terriquez J, Nienstadt L, Carroll M, Schumacher M, Ormsby ME, Brady S, Livar E, Yazzie D, Waddell V, Peoples M, Komatsu K, Keim P.

Emerg Infect Dis. 2016 Apr;22(4):734-8. doi: 10.3201/eid2204.151582.

9.

Whole-Genome Sequencing to Determine Origin of Multinational Outbreak of Sarocladium kiliense Bloodstream Infections.

Etienne KA, Roe CC, Smith RM, Vallabhaneni S, Duarte C, Escadon P, Castaneda E, Gomez BL, de Bedout C, López LF, Salas V, Hederra LM, Fernandez J, Pidal P, Hormazabel JC, Otaiza F, Vannberg FO, Gillece J, Lemmer D, Driebe EM, Englethaler DM, Litvintseva AP.

Emerg Infect Dis. 2016 Mar;22(3):476-81. doi: 10.3201/eid2203.151193.

10.

Mapping the Evolution of Hypervirulent Klebsiella pneumoniae.

Struve C, Roe CC, Stegger M, Stahlhut SG, Hansen DS, Engelthaler DM, Andersen PS, Driebe EM, Keim P, Krogfelt KA.

MBio. 2015 Jul 21;6(4):e00630. doi: 10.1128/mBio.00630-15.

11.

Genomic Analysis of the Emergence and Rapid Global Dissemination of the Clonal Group 258 Klebsiella pneumoniae Pandemic.

Bowers JR, Kitchel B, Driebe EM, MacCannell DR, Roe C, Lemmer D, de Man T, Rasheed JK, Engelthaler DM, Keim P, Limbago BM.

PLoS One. 2015 Jul 21;10(7):e0133727. doi: 10.1371/journal.pone.0133727. eCollection 2015.

12.

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

Driebe EM, Sahl JW, Roe C, Bowers JR, Schupp JM, Gillece JD, Kelley E, Price LB, Pearson TR, Hepp CM, Brzoska PM, Cummings CA, Furtado MR, Andersen PS, Stegger M, Engelthaler DM, Keim PS.

PLoS One. 2015 Jul 10;10(7):e0130955. doi: 10.1371/journal.pone.0130955. eCollection 2015.

13.

Comparative analysis of subtyping methods against a whole-genome-sequencing standard for Salmonella enterica serotype Enteritidis.

Deng X, Shariat N, Driebe EM, Roe CC, Tolar B, Trees E, Keim P, Zhang W, Dudley EG, Fields PI, Engelthaler DM.

J Clin Microbiol. 2015 Jan;53(1):212-8. doi: 10.1128/JCM.02332-14. Epub 2014 Nov 5.

14.

MetaGeniE: characterizing human clinical samples using deep metagenomic sequencing.

Rawat A, Engelthaler DM, Driebe EM, Keim P, Foster JT.

PLoS One. 2014 Nov 3;9(11):e110915. doi: 10.1371/journal.pone.0110915. eCollection 2014.

15.

Transmission of methicillin-resistant Staphylococcus aureus infection through solid organ transplantation: confirmation via whole genome sequencing.

Wendt JM, Kaul D, Limbago BM, Ramesh M, Cohle S, Denison AM, Driebe EM, Rasheed JK, Zaki SR, Blau DM, Paddock CD, McDougal LK, Engelthaler DM, Keim PS, Roe CC, Akselrod H, Kuehnert MJ, Basavaraju SV.

Am J Transplant. 2014 Nov;14(11):2633-9. doi: 10.1111/ajt.12898. Epub 2014 Sep 22.

16.

TaqMan real-time PCR assays for single-nucleotide polymorphisms which identify Francisella tularensis and its subspecies and subpopulations.

Birdsell DN, Vogler AJ, Buchhagen J, Clare A, Kaufman E, Naumann A, Driebe E, Wagner DM, Keim PS.

PLoS One. 2014 Sep 19;9(9):e107964. doi: 10.1371/journal.pone.0107964. eCollection 2014.

17.

Valley fever: finding new places for an old disease: Coccidioides immitis found in Washington State soil associated with recent human infection.

Litvintseva AP, Marsden-Haug N, Hurst S, Hill H, Gade L, Driebe EM, Ralston C, Roe C, Barker BM, Goldoft M, Keim P, Wohrle R, Thompson GR 3rd, Engelthaler DM, Brandt ME, Chiller T.

Clin Infect Dis. 2015 Jan 1;60(1):e1-3. doi: 10.1093/cid/ciu681. Epub 2014 Aug 27.

18.

Origin and evolution of European community-acquired methicillin-resistant Staphylococcus aureus.

Stegger M, Wirth T, Andersen PS, Skov RL, De Grassi A, Simões PM, Tristan A, Petersen A, Aziz M, Kiil K, Cirković I, Udo EE, del Campo R, Vuopio-Varkila J, Ahmad N, Tokajian S, Peters G, Schaumburg F, Olsson-Liljequist B, Givskov M, Driebe EE, Vigh HE, Shittu A, Ramdani-Bougessa N, Rasigade JP, Price LB, Vandenesch F, Larsen AR, Laurent F.

MBio. 2014 Aug 26;5(5):e01044-14. doi: 10.1128/mBio.01044-14.

19.

Cryptococcus gattii in North American Pacific Northwest: whole-population genome analysis provides insights into species evolution and dispersal.

Engelthaler DM, Hicks ND, Gillece JD, Roe CC, Schupp JM, Driebe EM, Gilgado F, Carriconde F, Trilles L, Firacative C, Ngamskulrungroj P, Castañeda E, Lazera Mdos S, Melhem MS, Pérez-Bercoff A, Huttley G, Sorrell TC, Voelz K, May RC, Fisher MC, Thompson GR 3rd, Lockhart SR, Keim P, Meyer W.

MBio. 2014 Jul 15;5(4):e01464-14. doi: 10.1128/mBio.01464-14.

20.

Real-time PCR assays for genotyping of Cryptococcus gattii in North America.

Kelley EJ, Driebe EM, Etienne K, Brandt ME, Schupp JM, Gillece JD, Trujillo JS, Lockhart SR, Deak E, Keim PS, Engelthaler DM.

BMC Microbiol. 2014 May 13;14:125. doi: 10.1186/1471-2180-14-125.

21.

Coccidioides immitis identified in soil outside of its known range - Washington, 2013.

Marsden-Haug N, Hill H, Litvintseva AP, Engelthaler DM, Driebe EM, Roe CC, Ralston C, Hurst S, Goldoft M, Gade L, Wohrle R, Thompson GR, Brandt ME, Chiller T; Centers for Disease Control and Prevention (CDC).

MMWR Morb Mortal Wkly Rep. 2014 May 23;63(20):450.

22.

Genome Sequence of Staphylococcus aureus Strain CA-347, a USA600 Methicillin-Resistant Isolate.

Stegger M, Driebe EM, Roe C, Lemmer D, Bowers JR, Engelthaler DM, Keim P, Andersen PS.

Genome Announc. 2013 Jul 25;1(4). pii: e00517-13. doi: 10.1128/genomeA.00517-13.

23.

Rapid and robust phylotyping of spa t003, a dominant MRSA clone in Luxembourg and other European countries.

Engelthaler DM, Kelley E, Driebe EM, Bowers J, Eberhard CF, Trujillo J, Decruyenaere F, Schupp JM, Mossong J, Keim P, Even J.

BMC Infect Dis. 2013 Jul 23;13:339. doi: 10.1186/1471-2334-13-339.

24.

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

Sahl JW, Gillece JD, Schupp JM, Waddell VG, Driebe EM, Engelthaler DM, Keim P.

PLoS One. 2013;8(1):e54287. doi: 10.1371/journal.pone.0054287. Epub 2013 Jan 24.

25.

Coccidioidomycosis: adenosine deaminase levels, serologic parameters, culture results, and polymerase chain reaction testing in pleural fluid.

Thompson GR 3rd, Sharma S, Bays DJ, Pruitt R, Engelthaler DM, Bowers J, Driebe EM, Davis M, Libke R, Cohen SH, Pappagianis D.

Chest. 2013 Mar;143(3):776-781. doi: 10.1378/chest.12-1312.

26.

Staphylococcus aureus CC398: host adaptation and emergence of methicillin resistance in livestock.

Price LB, Stegger M, Hasman H, Aziz M, Larsen J, Andersen PS, Pearson T, Waters AE, Foster JT, Schupp J, Gillece J, Driebe E, Liu CM, Springer B, Zdovc I, Battisti A, Franco A, Zmudzki J, Schwarz S, Butaye P, Jouy E, Pomba C, Porrero MC, Ruimy R, Smith TC, Robinson DA, Weese JS, Arriola CS, Yu F, Laurent F, Keim P, Skov R, Aarestrup FM.

MBio. 2012 Feb 21;3(1). pii: e00305-11. doi: 10.1128/mBio.00305-11. Print 2012. Erratum in: MBio. 2013;4(1):doi/10.1128/mBio.00520-12.

27.

Dominance of multidrug resistant CC271 clones in macrolide-resistant streptococcus pneumoniae in Arizona.

Bowers JR, Driebe EM, Nibecker JL, Wojack BR, Sarovich DS, Wong AH, Brzoska PM, Hubert N, Knadler A, Watson LM, Wagner DM, Furtado MR, Saubolle M, Engelthaler DM, Keim PS.

BMC Microbiol. 2012 Jan 18;12:12. doi: 10.1186/1471-2180-12-12.

28.

Triple combination antiviral drug (TCAD) composed of amantadine, oseltamivir, and ribavirin impedes the selection of drug-resistant influenza A virus.

Hoopes JD, Driebe EM, Kelley E, Engelthaler DM, Keim PS, Perelson AS, Rong L, Went GT, Nguyen JT.

PLoS One. 2011;6(12):e29778. doi: 10.1371/journal.pone.0029778. Epub 2011 Dec 29.

29.

Cyclopropavir inhibits the normal function of the human cytomegalovirus UL97 kinase.

James SH, Hartline CB, Harden EA, Driebe EM, Schupp JM, Engelthaler DM, Keim PS, Bowlin TL, Kern ER, Prichard MN.

Antimicrob Agents Chemother. 2011 Oct;55(10):4682-91. doi: 10.1128/AAC.00571-11. Epub 2011 Jul 25.

30.

Multidrug-Resistant Staphylococcus aureus in US Meat and Poultry.

Waters AE, Contente-Cuomo T, Buchhagen J, Liu CM, Watson L, Pearce K, Foster JT, Bowers J, Driebe EM, Engelthaler DM, Keim PS, Price LB.

Clin Infect Dis. 2011 May;52(10):1227-30. doi: 10.1093/cid/cir181. Epub 2011 Apr 15.

31.

Next-generation sequencing of Coccidioides immitis isolated during cluster investigation.

Engelthaler DM, Chiller T, Schupp JA, Colvin J, Beckstrom-Sternberg SM, Driebe EM, Moses T, Tembe W, Sinari S, Beckstrom-Sternberg JS, Christoforides A, Pearson JV, Carpten J, Keim P, Peterson A, Terashita D, Balajee SA.

Emerg Infect Dis. 2011 Feb;17(2):227-32. doi: 10.3201/eid1702.100620.

32.

In vitro system for modeling influenza A virus resistance under drug pressure.

Brown AN, McSharry JJ, Weng Q, Driebe EM, Engelthaler DM, Sheff K, Keim PS, Nguyen J, Drusano GL.

Antimicrob Agents Chemother. 2010 Aug;54(8):3442-50. doi: 10.1128/AAC.01385-09. Epub 2010 May 24.

33.

No resistance plasmid in Yersinia pestis, North America.

Wagner DM, Runberg J, Vogler AJ, Lee J, Driebe E, Price LB, Engelthaler DM, Fricke WF, Ravel J, Keim P.

Emerg Infect Dis. 2010 May;16(5):885-7. doi: 10.3201/eid1605.090892. No abstract available.

34.

Development of a rapid, cost-effective TaqMan Real-Time PCR Assay for identification and differentiation of Coccidioides immitis and Coccidioides posadasii.

Sheff KW, York ER, Driebe EM, Barker BM, Rounsley SD, Waddell VG, Beckstrom-Sternberg SM, Beckstrom-Sternberg JS, Keim PS, Engelthaler DM.

Med Mycol. 2010 May;48(3):466-9. doi: 10.3109/13693780903218990.

PMID:
20370360
35.

Rapid quantification of single-nucleotide mutations in mixed influenza A viral populations using allele-specific mixture analysis.

Liu CM, Driebe EM, Schupp J, Kelley E, Nguyen JT, McSharry JJ, Weng Q, Engelthaler DM, Keim PS.

J Virol Methods. 2010 Jan;163(1):109-15. doi: 10.1016/j.jviromet.2009.09.007. Epub 2009 Sep 15.

PMID:
19761797
36.

Triple combination of oseltamivir, amantadine, and ribavirin displays synergistic activity against multiple influenza virus strains in vitro.

Nguyen JT, Hoopes JD, Smee DF, Prichard MN, Driebe EM, Engelthaler DM, Le MH, Keim PS, Spence RP, Went GT.

Antimicrob Agents Chemother. 2009 Oct;53(10):4115-26. doi: 10.1128/AAC.00476-09. Epub 2009 Jul 20.

37.

Epidemiology of sexually transmitted infections in suspected child victims of sexual assault.

Girardet RG, Lahoti S, Howard LA, Fajman NN, Sawyer MK, Driebe EM, Lee F, Sautter RL, Greenwald E, Beck-Sagué CM, Hammerschlag MR, Black CM.

Pediatrics. 2009 Jul;124(1):79-86. doi: 10.1542/peds.2008-2947.

PMID:
19564286
38.

Multicenter study of nucleic acid amplification tests for detection of Chlamydia trachomatis and Neisseria gonorrhoeae in children being evaluated for sexual abuse.

Black CM, Driebe EM, Howard LA, Fajman NN, Sawyer MK, Girardet RG, Sautter RL, Greenwald E, Beck-Sague CM, Unger ER, Igietseme JU, Hammerschlag MR.

Pediatr Infect Dis J. 2009 Jul;28(7):608-13. doi: 10.1097/INF.0b013e31819b592e.

PMID:
19451856
39.

Assays for the rapid and specific identification of North American Yersinia pestis and the common laboratory strain CO92.

Vogler AJ, Driebe EM, Lee J, Auerbach RK, Allender CJ, Stanley M, Kubota K, Andersen GL, Radnedge L, Worsham PL, Keim P, Wagner DM.

Biotechniques. 2008 Feb;44(2):201, 203-4, 207.

40.

Cottonwood hybridization affects tannin and nitrogen content of leaf litter and alters decomposition.

Driebe EM, Whitham TG.

Oecologia. 2000 Apr;123(1):99-107. doi: 10.1007/s004420050994.

PMID:
28308750

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