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Items: 1 to 50 of 95

1.

On the Emergence of Cryptococcus gattii in the Pacific Northwest: Ballast Tanks, Tsunamis, and Black Swans.

Engelthaler DM, Casadevall A.

MBio. 2019 Oct 1;10(5). pii: e02193-19. doi: 10.1128/mBio.02193-19.

2.

The detection of Coccidioides from ambient air in Phoenix, Arizona: Evidence of uneven distribution and seasonality.

Gade L, McCotter OZ, Bowers JR, Waddell V, Brady S, Carvajal JA, Sunenshine R, Komatsu KK, Engelthaler DM, Chiller T, Litvintseva AP.

Med Mycol. 2019 Sep 10. pii: myz093. doi: 10.1093/mmy/myz093. [Epub ahead of print]

PMID:
31506673
3.

A unique multidrug-resistant clonal Trichophyton population distinct from Trichophyton mentagrophytes/Trichophyton interdigitale complex causing an ongoing alarming dermatophytosis outbreak in India: Genomic insights and resistance profile.

Singh A, Masih A, Monroy-Nieto J, Singh PK, Bowers J, Travis J, Khurana A, Engelthaler DM, Meis JF, Chowdhary A.

Fungal Genet Biol. 2019 Sep 3;133:103266. doi: 10.1016/j.fgb.2019.103266. [Epub ahead of print]

PMID:
31491507
4.

Utility of targeted, amplicon-based deep sequencing to detect resistance to first-line tuberculosis drugs in Botswana.

Wang Q, Modongo C, Allender C, Engelthaler DM, Warren RM, Zetola NM, Shin SS.

Antimicrob Agents Chemother. 2019 Aug 12. pii: AAC.00982-19. doi: 10.1128/AAC.00982-19. [Epub ahead of print]

PMID:
31405858
5.

Jet-Setting Koalas Spread Cryptococcus gattii VGII in Australia.

Schmertmann LJ, Danesi P, Monroy-Nieto J, Bowers J, Engelthaler DM, Malik R, Meyer W, Krockenberger MB.

mSphere. 2019 Jun 5;4(3). pii: e00216-19. doi: 10.1128/mSphere.00216-19.

6.

Bedaquiline Microheteroresistance after Cessation of Tuberculosis Treatment.

de Vos M, Ley SD, Wiggins KB, Derendinger B, Dippenaar A, Grobbelaar M, Reuter A, Dolby T, Burns S, Schito M, Engelthaler DM, Metcalfe J, Theron G, van Rie A, Posey J, Warren R, Cox H.

N Engl J Med. 2019 May 30;380(22):2178-2180. doi: 10.1056/NEJMc1815121. No abstract available.

7.

Whole-genome and targeted sequencing of drug-resistant Mycobacterium tuberculosis on the iSeq100 and MiSeq: A performance, ease-of-use, and cost evaluation.

Colman RE, Mace A, Seifert M, Hetzel J, Mshaiel H, Suresh A, Lemmer D, Engelthaler DM, Catanzaro DG, Young AG, Denkinger CM, Rodwell TC.

PLoS Med. 2019 Apr 30;16(4):e1002794. doi: 10.1371/journal.pmed.1002794. eCollection 2019 Apr. Erratum in: PLoS Med. 2019 Jun 3;16(6):e1002823.

8.

Phylogenetic Analysis of Francisella tularensis Group A.II Isolates from 5 Patients with Tularemia, Arizona, USA, 2015-2017.

Birdsell DN, Yaglom H, Rodriguez E, Engelthaler DM, Maurer M, Gaither M, Vinocur J, Weiss J, Terriquez J, Komatsu K, Ormsby ME, Gebhardt M, Solomon C, Nienstadt L, Williamson CHD, Sahl JW, Keim PS, Wagner DM.

Emerg Infect Dis. 2019 May;25(5):944-946. doi: 10.3201/eid2505.180363.

9.

Utility of Whole-Genome Sequencing to Ascertain Locally Acquired Cases of Coccidioidomycosis, Washington, USA.

Oltean HN, Etienne KA, Roe CC, Gade L, McCotter OZ, Engelthaler DM, Litvintseva AP.

Emerg Infect Dis. 2019 Mar;25(3):501-506. doi: 10.3201/eid2503.181155.

10.

Coccidioidal Meningitis in New York Traced to Texas by Fungal Genomic Analysis.

Barker BM, Rajan S, De Melo Teixeira M, Sewnarine M, Roe C, Engelthaler DM, Galgiani JN.

Clin Infect Dis. 2019 Aug 30;69(6):1060-1062. doi: 10.1093/cid/ciz052.

PMID:
30715178
11.

Update on the Epidemiology of coccidioidomycosis in the United States.

McCotter OZ, Benedict K, Engelthaler DM, Komatsu K, Lucas KD, Mohle-Boetani JC, Oltean H, Vugia D, Chiller TM, Sondermeyer Cooksey GL, Nguyen A, Roe CC, Wheeler C, Sunenshine R.

Med Mycol. 2019 Feb 1;57(Supplement_1):S30-S40. doi: 10.1093/mmy/myy095. Review.

PMID:
30690599
12.

Genomic Analyses of Acute Flaccid Myelitis Cases among a Cluster in Arizona Provide Further Evidence of Enterovirus D68 Role.

Bowers JR, Valentine M, Harrison V, Fofanov VY, Gillece J, Delisle J, Patton B, Schupp J, Sheridan K, Lemmer D, Ostdiek S, Bains HK, Heim J, Sylvester T, Prasai S, Kretschmer M, Fowle N, Komatsu K, Brady S, Robinson S, Fitzpatrick K, Ostovar GA, Alsop E, Hutchins E, Jensen K, Keim P, Engelthaler DM.

MBio. 2019 Jan 22;10(1). pii: e02262-18. doi: 10.1128/mBio.02262-18.

13.

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.

14.

Phylogenetic analysis of West Nile Virus in Maricopa County, Arizona: Evidence for dynamic behavior of strains in two major lineages in the American Southwest.

Hepp CM, Cocking JH, Valentine M, Young SJ, Damian D, Samuels-Crow KE, Sheridan K, Fofanov VY, Furstenau TN, Busch JD, Erickson DE, Lancione RC, Smith K, Will J, Townsend J, Keim PS, Engelthaler DM.

PLoS One. 2018 Nov 26;13(11):e0205801. doi: 10.1371/journal.pone.0205801. eCollection 2018.

15.

Integrating standardized whole genome sequence analysis with a global Mycobacterium tuberculosis antibiotic resistance knowledgebase.

Ezewudo M, Borens A, Chiner-Oms Á, Miotto P, Chindelevitch L, Starks AM, Hanna D, Liwski R, Zignol M, Gilpin C, Niemann S, Kohl TA, Warren RM, Crook D, Gagneux S, Hoffner S, Rodrigues C, Comas I, Engelthaler DM, Alland D, Rigouts L, Lange C, Dheda K, Hasan R, McNerney R, Cirillo DM, Schito M, Rodwell TC, Posey J.

Sci Rep. 2018 Oct 18;8(1):15382. doi: 10.1038/s41598-018-33731-1.

16.

Timing the Origin of Cryptococcus gattii sensu stricto, Southeastern United States.

Lockhart SR, Roe CC, Engelthaler DM.

Emerg Infect Dis. 2018 Nov;24(11):2095-2097. doi: 10.3201/eid2411.180975.

17.

Mixed Mycobacterium tuberculosis-Strain Infections Are Associated With Poor Treatment Outcomes Among Patients With Newly Diagnosed Tuberculosis, Independent of Pretreatment Heteroresistance.

Shin SS, Modongo C, Baik Y, Allender C, Lemmer D, Colman RE, Engelthaler DM, Warren RM, Zetola NM.

J Infect Dis. 2018 Nov 5;218(12):1974-1982. doi: 10.1093/infdis/jiy480.

PMID:
30085153
18.

Microbial Ecology and Water Chemistry Impact Regrowth of Opportunistic Pathogens in Full-Scale Reclaimed Water Distribution Systems.

Garner E, McLain J, Bowers J, Engelthaler DM, Edwards MA, Pruden A.

Environ Sci Technol. 2018 Aug 21;52(16):9056-9068. doi: 10.1021/acs.est.8b02818. Epub 2018 Aug 2.

PMID:
30040385
19.

Metagenomic Characterization of Antibiotic Resistance Genes in Full-Scale Reclaimed Water Distribution Systems and Corresponding Potable Systems.

Garner E, Chen C, Xia K, Bowers J, Engelthaler DM, McLain J, Edwards MA, Pruden A.

Environ Sci Technol. 2018 Jun 5;52(11):6113-6125. doi: 10.1021/acs.est.7b05419. Epub 2018 May 17.

PMID:
29741366
20.

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.

21.

Flucytosine resistance in Cryptococcus gattii is indirectly mediated by the FCY2-FCY1-FUR1 pathway.

Vu K, Thompson GR 3rd, Roe CC, Sykes JE, Dreibe EM, Lockhart SR, Meyer W, Engelthaler DM, Gelli A.

Med Mycol. 2018 Oct 1;56(7):857-867. doi: 10.1093/mmy/myx135.

PMID:
29554336
22.

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
23.

Dating the Cryptococcus gattii Dispersal to the North American Pacific Northwest.

Roe CC, Bowers J, Oltean H, DeBess E, Dufresne PJ, McBurney S, Overy DP, Wanke B, Lysen C, Chiller T, Meyer W, Thompson GR 3rd, Lockhart SR, Hepp CM, Engelthaler DM.

mSphere. 2018 Jan 17;3(1). pii: e00499-17. doi: 10.1128/mSphere.00499-17. eCollection 2018 Jan-Feb.

24.

A standardised method for interpreting the association between mutations and phenotypic drug resistance in Mycobacterium tuberculosis.

Miotto P, Tessema B, Tagliani E, Chindelevitch L, Starks AM, Emerson C, Hanna D, Kim PS, Liwski R, Zignol M, Gilpin C, Niemann S, Denkinger CM, Fleming J, Warren RM, Crook D, Posey J, Gagneux S, Hoffner S, Rodrigues C, Comas I, Engelthaler DM, Murray M, Alland D, Rigouts L, Lange C, Dheda K, Hasan R, Ranganathan UDK, McNerney R, Ezewudo M, Cirillo DM, Schito M, Köser CU, Rodwell TC.

Eur Respir J. 2017 Dec 28;50(6). pii: 1701354. doi: 10.1183/13993003.01354-2017. Print 2017 Dec.

25.

Mycobacterium tuberculosis Subculture Results in Loss of Potentially Clinically Relevant Heteroresistance.

Metcalfe JZ, Streicher E, Theron G, Colman RE, Penaloza R, Allender C, Lemmer D, Warren RM, Engelthaler DM.

Antimicrob Agents Chemother. 2017 Oct 24;61(11). pii: e00888-17. doi: 10.1128/AAC.00888-17. Print 2017 Nov.

26.

Notes from the Field: Cluster of Acute Flaccid Myelitis in Five Pediatric Patients - Maricopa County, Arizona, 2016.

Iverson SA, Ostdiek S, Prasai S, Engelthaler DM, Kretschmer M, Fowle N, Tokhie HK, Routh J, Sejvar J, Ayers T, Bowers J, Brady S, Rogers S, Nix WA, Komatsu K, Sunenshine R; AFM Investigation Team.

MMWR Morb Mortal Wkly Rep. 2017 Jul 21;66(28):758-760. doi: 10.15585/mmwr.mm6628a4. No abstract available.

27.

Tracing Genetic Exchange and Biogeography of Cryptococcus neoformans var. grubii at the Global Population Level.

Rhodes J, Desjardins CA, Sykes SM, Beale MA, Vanhove M, Sakthikumar S, Chen Y, Gujja S, Saif S, Chowdhary A, Lawson DJ, Ponzio V, Colombo AL, Meyer W, Engelthaler DM, Hagen F, Illnait-Zaragozi MT, Alanio A, Vreulink JM, Heitman J, Perfect JR, Litvintseva AP, Bicanic T, Harrison TS, Fisher MC, Cuomo CA.

Genetics. 2017 Sep;207(1):327-346. doi: 10.1534/genetics.117.203836. Epub 2017 Jul 5.

28.

Furthering the Continental Drift Speciation Hypothesis in the Pathogenic Cryptococcus Species Complexes.

Engelthaler DM, Meyer W.

mSphere. 2017 Jun 14;2(3). pii: e00241-17. doi: 10.1128/mSphere.00241-17. eCollection 2017 May-Jun. No abstract available.

29.

Cryptic Microheteroresistance Explains Mycobacterium tuberculosis Phenotypic Resistance.

Metcalfe JZ, Streicher E, Theron G, Colman RE, Allender C, Lemmer D, Warren R, Engelthaler DM.

Am J Respir Crit Care Med. 2017 Nov 1;196(9):1191-1201. doi: 10.1164/rccm.201703-0556OC.

30.

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.

31.

MLST-Based Population Genetic Analysis in a Global Context Reveals Clonality amongst Cryptococcus neoformans var. grubii VNI Isolates from HIV Patients in Southeastern Brazil.

Ferreira-Paim K, Andrade-Silva L, Fonseca FM, Ferreira TB, Mora DJ, Andrade-Silva J, Khan A, Dao A, Reis EC, Almeida MT, Maltos A, Junior VR, Trilles L, Rickerts V, Chindamporn A, Sykes JE, Cogliati M, Nielsen K, Boekhout T, Fisher M, Kwon-Chung J, Engelthaler DM, Lazéra M, Meyer W, Silva-Vergara ML.

PLoS Negl Trop Dis. 2017 Jan 18;11(1):e0005223. doi: 10.1371/journal.pntd.0005223. eCollection 2017 Jan. Erratum in: PLoS Negl Trop Dis. 2017 Feb 15;11(2):e0005380.

32.

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.

33.

Next-generation sequencing-based user-friendly platforms for drug-resistant tuberculosis diagnosis: A promise for the near future.

Dolinger DL, Colman RE, Engelthaler DM, Rodwell TC.

Int J Mycobacteriol. 2016 Dec;5 Suppl 1:S27-S28. doi: 10.1016/j.ijmyco.2016.09.021. Epub 2016 Oct 28.

34.

A microbiome assessment of medical marijuana.

Thompson GR 3rd, Tuscano JM, Dennis M, Singapuri A, Libertini S, Gaudino R, Torres A, Delisle JM, Gillece JD, Schupp JM, Engelthaler DM.

Clin Microbiol Infect. 2017 Apr;23(4):269-270. doi: 10.1016/j.cmi.2016.12.001. Epub 2016 Dec 9. No abstract available.

35.

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.

36.

MLST and Whole-Genome-Based Population Analysis of Cryptococcus gattii VGIII Links Clinical, Veterinary and Environmental Strains, and Reveals Divergent Serotype Specific Sub-populations and Distant Ancestors.

Firacative C, Roe CC, Malik R, Ferreira-Paim K, Escandón P, Sykes JE, Castañón-Olivares LR, Contreras-Peres C, Samayoa B, Sorrell TC, Castañeda E, Lockhart SR, Engelthaler DM, Meyer W.

PLoS Negl Trop Dis. 2016 Aug 5;10(8):e0004861. doi: 10.1371/journal.pntd.0004861. eCollection 2016 Aug.

37.

Tick-Borne Relapsing Fever Outbreak Among a High School Football Team at an Outdoor Education Camping Trip, Arizona, 2014.

Jones JM, Hranac CR, Schumacher M, Horn K, Lee DM, Terriquez J, Engelthaler DM, Peoples M, Corrigan J, Replogle A, Souders N, Komatsu KK, Nieto NC.

Am J Trop Med Hyg. 2016 Sep 7;95(3):546-50. doi: 10.4269/ajtmh.16-0054. Epub 2016 Jul 18.

38.

Worldwide Phylogenetic Distributions and Population Dynamics of the Genus Histoplasma.

Teixeira Mde M, Patané JS, Taylor ML, Gómez BL, Theodoro RC, de Hoog S, Engelthaler DM, Zancopé-Oliveira RM, Felipe MS, Barker BM.

PLoS Negl Trop Dis. 2016 Jun 1;10(6):e0004732. doi: 10.1371/journal.pntd.0004732. eCollection 2016 Jun.

39.

Rapid Drug Susceptibility Testing of Drug-Resistant Mycobacterium tuberculosis Isolates Directly from Clinical Samples by Use of Amplicon Sequencing: a Proof-of-Concept Study.

Colman RE, Anderson J, Lemmer D, Lehmkuhl E, Georghiou SB, Heaton H, Wiggins K, Gillece JD, Schupp JM, Catanzaro DG, Crudu V, Cohen T, Rodwell TC, Engelthaler DM.

J Clin Microbiol. 2016 Aug;54(8):2058-67. doi: 10.1128/JCM.00535-16. Epub 2016 May 25.

40.

Whole-Genome Analysis of Cryptococcus gattii, Southeastern United States.

Lockhart SR, Roe CC, Engelthaler DM.

Emerg Infect Dis. 2016 Jun;22(6):1098-101. doi: 10.3201/eid2206.151455.

41.

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.

42.

Translating RNA sequencing into clinical diagnostics: opportunities and challenges.

Byron SA, Van Keuren-Jensen KR, Engelthaler DM, Carpten JD, Craig DW.

Nat Rev Genet. 2016 May;17(5):257-71. doi: 10.1038/nrg.2016.10. Epub 2016 Mar 21. Review.

PMID:
26996076
43.

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.

44.

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.

45.

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.

46.

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.

47.

Comparative integrated omics: identification of key functionalities in microbial community-wide metabolic networks.

Roume H, Heintz-Buschart A, Muller EEL, May P, Satagopam VP, Laczny CC, Narayanasamy S, Lebrun LA, Hoopmann MR, Schupp JM, Gillece JD, Hicks ND, Engelthaler DM, Sauter T, Keim PS, Moritz RL, Wilmes P.

NPJ Biofilms Microbiomes. 2015 Jun 17;1:15007. doi: 10.1038/npjbiofilms.2015.7. eCollection 2015.

48.

Detection of Low-Level Mixed-Population Drug Resistance in Mycobacterium tuberculosis Using High Fidelity Amplicon Sequencing.

Colman RE, Schupp JM, Hicks ND, Smith DE, Buchhagen JL, Valafar F, Crudu V, Romancenco E, Noroc E, Jackson L, Catanzaro DG, Rodwell TC, Catanzaro A, Keim P, Engelthaler DM.

PLoS One. 2015 May 13;10(5):e0126626. doi: 10.1371/journal.pone.0126626. eCollection 2015.

49.

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.

50.

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.

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