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Items: 1 to 50 of 156

1.

Plasmid Dissemination and Selection of a Multidrug-Resistant Klebsiella pneumoniae Strain during Transplant-Associated Antibiotic Therapy.

Conlan S, Lau AF, Deming C, Spalding CD, Lee-Lin S, Thomas PJ, Park M, Dekker JP, Frank KM, Palmore TN, Segre JA.

MBio. 2019 Oct 8;10(5). pii: e00652-19. doi: 10.1128/mBio.00652-19.

2.

From the Pipeline to the Bedside: Advances and Challenges in Clinical Metagenomics.

Dulanto Chiang A, Dekker JP.

J Infect Dis. 2019 Sep 20. pii: jiz151. doi: 10.1093/infdis/jiz151. [Epub ahead of print]

PMID:
31538184
3.

Dynamic Emergence of Mismatch Repair Deficiency Facilitates Rapid Evolution of Ceftazidime-Avibactam Resistance in Pseudomonas aeruginosa Acute Infection.

Khil PP, Dulanto Chiang A, Ho J, Youn JH, Lemon JK, Gea-Banacloche J, Frank KM, Parta M, Bonomo RA, Dekker JP.

MBio. 2019 Sep 17;10(5). pii: e01822-19. doi: 10.1128/mBio.01822-19.

4.

Rapid Identification of New Delhi Metallo-β-Lactamase (NDM) Using Tryptic Peptides and LC-MS/MS.

Wang H, Strich JR, Drake SK, Chen Y, Youn JH, Rosenberg AZ, Gucek M, Dekker JP, Suffredini AF.

Antimicrob Agents Chemother. 2019 Aug 23;63(9). pii: e00461-19. doi: 10.1128/AAC.00461-19. Print 2019 Sep.

PMID:
31307990
5.

External Validation of Difficult-to-Treat Resistance Prevalence and Mortality Risk in Gram-Negative Bloodstream Infection Using Electronic Health Record Data From 140 US Hospitals.

Kadri SS, Lai YLE, Ricotta EE, Strich JR, Babiker A, Rhee C, Klompas M, Dekker JP, Powers JH 3rd, Danner RL, Adjemian J; NIH Antimicrobial Resistance Outcomes Research Initiative (NIH-ARORI).

Open Forum Infect Dis. 2019 Feb 28;6(4):ofz110. doi: 10.1093/ofid/ofz110. eCollection 2019 Apr.

6.

Rapid detection of colistin resistance protein MCR-1 by LC-MS/MS.

Wang H, Chen Y, Strich JR, Drake SK, Youn JH, Rosenberg AZ, Gucek M, McGann PT, Suffredini AF, Dekker JP.

Clin Proteomics. 2019 Feb 26;16:8. doi: 10.1186/s12014-019-9228-2. eCollection 2019.

7.

Attributable mortality from extensively drug-resistant gram-negative infections using propensity-matched tracer antibiotic algorithms.

Kadri SS, Strich JR, Swihart BJ, Hohmann S, Dekker JP, Palmore T, Bonne S, Freeman B, Raybould J, Shah NG, Patel D, Husson J, Jacobs MD, Duong L, Follmann D, Hooper DC, Timpone J, Danner RL.

Am J Infect Control. 2019 Sep;47(9):1040-1047. doi: 10.1016/j.ajic.2019.01.010. Epub 2019 Feb 27.

PMID:
30824387
8.

Identification of the OXA-48 Carbapenemase Family by Use of Tryptic Peptides and Liquid Chromatography-Tandem Mass Spectrometry.

Strich JR, Wang H, Cissé OH, Youn JH, Drake SK, Chen Y, Rosenberg AZ, Gucek M, McGann PT, Dekker JP, Suffredini AF.

J Clin Microbiol. 2019 Apr 26;57(5). pii: e01240-18. doi: 10.1128/JCM.01240-18. Print 2019 May.

9.

Protracted course of disseminated adenovirus disease with necrotizing granulomas in the liver.

Lerner AM, Bennett JE, Pittaluga S, Khil PP, Youn JH, Fahle GA, Frank KM, Dekker JP, Jerussi TD, Sun C, Wiestner A, Gea-Banacloche J.

Diagn Microbiol Infect Dis. 2019 Jun;94(2):180-182. doi: 10.1016/j.diagmicrobio.2018.12.012. Epub 2019 Jan 2.

PMID:
30679057
10.

Investigation of a Cluster of Sphingomonas koreensis Infections.

Johnson RC, Deming C, Conlan S, Zellmer CJ, Michelin AV, Lee-Lin S, Thomas PJ, Park M, Weingarten RA, Less J, Dekker JP, Frank KM, Musser KA, McQuiston JR, Henderson DK, Lau AF, Palmore TN, Segre JA.

N Engl J Med. 2018 Dec 27;379(26):2529-2539. doi: 10.1056/NEJMoa1803238.

11.

Deciphering the Evolution of Cephalosporin Resistance to Ceftolozane-Tazobactam in Pseudomonas aeruginosa.

Barnes MD, Taracila MA, Rutter JD, Bethel CR, Galdadas I, Hujer AM, Caselli E, Prati F, Dekker JP, Papp-Wallace KM, Haider S, Bonomo RA.

MBio. 2018 Dec 11;9(6). pii: e02085-18. doi: 10.1128/mBio.02085-18.

12.

Difficult-to-Treat Resistance in Gram-negative Bacteremia at 173 US Hospitals: Retrospective Cohort Analysis of Prevalence, Predictors, and Outcome of Resistance to All First-line Agents.

Kadri SS, Adjemian J, Lai YL, Spaulding AB, Ricotta E, Prevots DR, Palmore TN, Rhee C, Klompas M, Dekker JP, Powers JH 3rd, Suffredini AF, Hooper DC, Fridkin S, Danner RL; National Institutes of Health Antimicrobial Resistance Outcomes Research Initiative (NIH–ARORI).

Clin Infect Dis. 2018 Nov 28;67(12):1803-1814. doi: 10.1093/cid/ciy378.

13.

Severe BCG-osis Misdiagnosed as Multidrug-Resistant Tuberculosis in an IL-12Rβ1-Deficient Peruvian Girl.

Esteve-Sole A, Sánchez-Dávila SP, Deyà-Martínez A, Freeman AF, Zelazny AM, Dekker JP, Khil PP, Holland SM, Noguera-Julian A, Bustamante J, Casanova JL, Juan M, Cordova W, Alsina L.

J Clin Immunol. 2018 Aug;38(6):712-716. doi: 10.1007/s10875-018-0535-6. Epub 2018 Jul 23.

PMID:
30039354
14.

Compatibility of Maximum-Containment Virus-Inactivation Protocols With Identification of Bacterial Coinfections by Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry.

Matson MJ, Stock F, Shupert WL, Bushmaker T, Feldmann F, Bishop WB, Frank KM, Dekker JP, Chertow DS, Munster VJ.

J Infect Dis. 2018 Nov 22;218(suppl_5):S297-S300. doi: 10.1093/infdis/jiy292.

15.

Metagenomics for Clinical Infectious Disease Diagnostics Steps Closer to Reality.

Dekker JP.

J Clin Microbiol. 2018 Aug 27;56(9). pii: e00850-18. doi: 10.1128/JCM.00850-18. Print 2018 Sep.

16.

Development of fluorescence quenching in Chlamydomonas reinhardtii upon prolonged illumination at 77 K.

Wlodarczyk LM, Snellenburg JJ, Dekker JP, Stokkum IHM.

Photosynth Res. 2018 Sep;137(3):503-513. doi: 10.1007/s11120-018-0534-8. Epub 2018 Jun 13.

17.

Comparative Population Genomics Analysis of the Mammalian Fungal Pathogen Pneumocystis.

Cissé OH, Ma L, Wei Huang D, Khil PP, Dekker JP, Kutty G, Bishop L, Liu Y, Deng X, Hauser PM, Pagni M, Hirsch V, Lempicki RA, Stajich JE, Cuomo CA, Kovacs JA.

MBio. 2018 May 8;9(3). pii: e00381-18. doi: 10.1128/mBio.00381-18.

18.

Genomic Analysis of Hospital Plumbing Reveals Diverse Reservoir of Bacterial Plasmids Conferring Carbapenem Resistance.

Weingarten RA, Johnson RC, Conlan S, Ramsburg AM, Dekker JP, Lau AF, Khil P, Odom RT, Deming C, Park M, Thomas PJ; NISC Comparative Sequencing Program, Henderson DK, Palmore TN, Segre JA, Frank KM.

MBio. 2018 Feb 6;9(1). pii: e02011-17. doi: 10.1128/mBio.02011-17.

19.

Rapid Nanopore Sequencing of Plasmids and Resistance Gene Detection in Clinical Isolates.

Lemon JK, Khil PP, Frank KM, Dekker JP.

J Clin Microbiol. 2017 Dec;55(12):3530-3543. doi: 10.1128/JCM.01069-17. Epub 2017 Oct 11.

20.

Whole-Genome Sequencing Overrules a Suspected Case of Carbapenem-Resistant Enterobacter cloacae Transmission.

Chen M, Conlan S, Lau AF, Dekker JP, Deming C; NISC Comparative Sequencing Program, Henderson DK, Frank KM, Palmore TN, Segre JA.

J Clin Microbiol. 2017 Sep;55(9):2868-2870. doi: 10.1128/JCM.00915-17. Epub 2017 Jun 28. No abstract available.

21.

A Genoproteomic Approach to Detect Peptide Markers of Bacterial Respiratory Pathogens.

Wang H, Drake SK, Yong C, Gucek M, Lyes MA, Rosenberg AZ, Soderblom E, Arthur Moseley M, Dekker JP, Suffredini AF.

Clin Chem. 2017 Aug;63(8):1398-1408. doi: 10.1373/clinchem.2016.269647. Epub 2017 Jun 6.

22.

Peptide Markers for Rapid Detection of KPC Carbapenemase by LC-MS/MS.

Wang H, Drake SK, Youn JH, Rosenberg AZ, Chen Y, Gucek M, Suffredini AF, Dekker JP.

Sci Rep. 2017 May 31;7(1):2531. doi: 10.1038/s41598-017-02749-2.

23.

Healthcare personnel intestinal colonization with multidrug-resistant organisms.

Decker BK, Lau AF, Dekker JP, Spalding CD, Sinaii N, Conlan S, Henderson DK, Segre JA, Frank KM, Palmore TN.

Clin Microbiol Infect. 2018 Jan;24(1):82.e1-82.e4. doi: 10.1016/j.cmi.2017.05.010. Epub 2017 May 12.

24.

Multi-institute analysis of carbapenem resistance reveals remarkable diversity, unexplained mechanisms, and limited clonal outbreaks.

Cerqueira GC, Earl AM, Ernst CM, Grad YH, Dekker JP, Feldgarden M, Chapman SB, Reis-Cunha JL, Shea TP, Young S, Zeng Q, Delaney ML, Kim D, Peterson EM, O'Brien TF, Ferraro MJ, Hooper DC, Huang SS, Kirby JE, Onderdonk AB, Birren BW, Hung DT, Cosimi LA, Wortman JR, Murphy CI, Hanage WP.

Proc Natl Acad Sci U S A. 2017 Jan 31;114(5):1135-1140. doi: 10.1073/pnas.1616248114. Epub 2017 Jan 17.

25.

Mechanisms of Evolution in High-Consequence Drug Resistance Plasmids.

He S, Chandler M, Varani AM, Hickman AB, Dekker JP, Dyda F.

MBio. 2016 Dec 6;7(6). pii: e01987-16. doi: 10.1128/mBio.01987-16.

26.

Molecular Assay Validation Using Genomic Sequence Databases.

Dekker JP.

J Clin Microbiol. 2016 Dec;54(12):2854-2856. Epub 2016 Oct 12.

27.

A model for the 77K excited state dynamics in Chlamydomonas reinhardtii in state 1 and state 2.

Snellenburg JJ, Wlodarczyk LM, Dekker JP, van Grondelle R, van Stokkum IH.

Biochim Biophys Acta Bioenerg. 2017 Jan;1858(1):64-72. doi: 10.1016/j.bbabio.2016.10.001. Epub 2016 Oct 21.

28.
29.

A Model for Transposition of the Colistin Resistance Gene mcr-1 by ISApl1.

Snesrud E, He S, Chandler M, Dekker JP, Hickman AB, McGann P, Dyda F.

Antimicrob Agents Chemother. 2016 Oct 21;60(11):6973-6976. doi: 10.1128/AAC.01457-16. Print 2016 Nov.

30.

Plasmid Dynamics in KPC-Positive Klebsiella pneumoniae during Long-Term Patient Colonization.

Conlan S, Park M, Deming C, Thomas PJ, Young AC, Coleman H, Sison C; NISC Comparative Sequencing Program, Weingarten RA, Lau AF, Dekker JP, Palmore TN, Frank KM, Segre JA.

MBio. 2016 Jun 28;7(3). pii: e00742-16. doi: 10.1128/mBio.00742-16.

31.

Horizontal Transfer of Carbapenemase-Encoding Plasmids and Comparison with Hospital Epidemiology Data.

Hardiman CA, Weingarten RA, Conlan S, Khil P, Dekker JP, Mathers AJ, Sheppard AE, Segre JA, Frank KM.

Antimicrob Agents Chemother. 2016 Jul 22;60(8):4910-9. doi: 10.1128/AAC.00014-16. Print 2016 Aug.

32.

A Novel Peptidomic Approach to Strain Typing of Clinical Acinetobacter baumannii Isolates Using Mass Spectrometry.

Wang H, Drake SK, Yong C, Gucek M, Tropea M, Rosenberg AZ, Dekker JP, Suffredini AF.

Clin Chem. 2016 Jun;62(6):866-75. doi: 10.1373/clinchem.2015.253468. Epub 2016 Apr 26.

33.

Excitation energy transfer in Chlamydomonas reinhardtii deficient in the PSI core or the PSII core under conditions mimicking state transitions.

Wlodarczyk LM, Dinc E, Croce R, Dekker JP.

Biochim Biophys Acta. 2016 Jun;1857(6):625-33. doi: 10.1016/j.bbabio.2016.03.002. Epub 2016 Mar 3.

34.

An Update on the Streptococcus bovis Group: Classification, Identification, and Disease Associations.

Dekker JP, Lau AF.

J Clin Microbiol. 2016 Jul;54(7):1694-1699. doi: 10.1128/JCM.02977-15. Epub 2016 Feb 24. Review.

35.

Detection and Whole-Genome Sequencing of Carbapenemase-Producing Aeromonas hydrophila Isolates from Routine Perirectal Surveillance Culture.

Hughes HY, Conlan SP, Lau AF, Dekker JP, Michelin AV, Youn JH, Henderson DK, Frank KM, Segre JA, Palmore TN.

J Clin Microbiol. 2016 Apr;54(4):1167-70. doi: 10.1128/JCM.03229-15. Epub 2016 Feb 17.

36.

Draft Genome Sequence of a Klebsiella pneumoniae Carbapenemase-Positive Sequence Type 111 Pseudomonas aeruginosa Strain.

Dotson GA; NISC Comparative Sequencing Program, Dekker JP, Palmore TN, Segre JA, Conlan S.

Genome Announc. 2016 Feb 11;4(1). pii: e01663-15. doi: 10.1128/genomeA.01663-15.

37.

Performance of the Cryptococcal Antigen Lateral Flow Assay in Non-HIV-Related Cryptococcosis.

Jitmuang A, Panackal AA, Williamson PR, Bennett JE, Dekker JP, Zelazny AM.

J Clin Microbiol. 2016 Feb;54(2):460-3. doi: 10.1128/JCM.02223-15. Epub 2015 Nov 25.

38.

Clinical Performance of Check-Direct CPE, a Multiplex PCR for Direct Detection of bla(KPC), bla(NDM) and/or bla(VIM), and bla(OXA)-48 from Perirectal Swabs.

Lau AF, Fahle GA, Kemp MA, Jassem AN, Dekker JP, Frank KM.

J Clin Microbiol. 2015 Dec;53(12):3729-37. doi: 10.1128/JCM.01921-15. Epub 2015 Sep 2.

39.

Clinical Performance of a Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry Method for Detection of Certain blaKPC-Containing Plasmids.

Youn JH, Drake SK, Weingarten RA, Frank KM, Dekker JP, Lau AF.

J Clin Microbiol. 2016 Jan;54(1):35-42. doi: 10.1128/JCM.01643-15. Epub 2015 Sep 2.

40.

The Use of Contact Mode Atomic Force Microscopy in Aqueous Medium for Structural Analysis of Spinach Photosynthetic Complexes.

Phuthong W, Huang Z, Wittkopp TM, Sznee K, Heinnickel ML, Dekker JP, Frese RN, Prinz FB, Grossman AR.

Plant Physiol. 2015 Oct;169(2):1318-32. doi: 10.1104/pp.15.00706. Epub 2015 Jul 28.

41.

Interaction of the PsbH subunit with a chlorophyll bound to histidine 114 of CP47 is responsible for the red 77K fluorescence of Photosystem II.

D'Haene SE, Sobotka R, Bučinská L, Dekker JP, Komenda J.

Biochim Biophys Acta. 2015 Oct;1847(10):1327-34. doi: 10.1016/j.bbabio.2015.07.003. Epub 2015 Jul 9.

42.

Insertion Sequence IS26 Reorganizes Plasmids in Clinically Isolated Multidrug-Resistant Bacteria by Replicative Transposition.

He S, Hickman AB, Varani AM, Siguier P, Chandler M, Dekker JP, Dyda F.

MBio. 2015 Jun 9;6(3):e00762. doi: 10.1128/mBio.00762-15.

43.

Salmonella, Shigella, and yersinia.

Dekker JP, Frank KM.

Clin Lab Med. 2015 Jun;35(2):225-46. doi: 10.1016/j.cll.2015.02.002. Epub 2015 Apr 2. Review.

44.

Identification of common motifs in the regulation of light harvesting: The case of cyanobacteria IsiA.

Wahadoszamen M, D'Haene S, Ara AM, Romero E, Dekker JP, Grondelle RV, Berera R.

Biochim Biophys Acta. 2015 Apr-May;1847(4-5):486-492. doi: 10.1016/j.bbabio.2015.01.003. Epub 2015 Jan 21.

45.

Functional rearrangement of the light-harvesting antenna upon state transitions in a green alga.

Wlodarczyk LM, Snellenburg JJ, Ihalainen JA, van Grondelle R, van Stokkum IH, Dekker JP.

Biophys J. 2015 Jan 20;108(2):261-71. doi: 10.1016/j.bpj.2014.11.3470.

46.

Complete Genome Sequence of a Klebsiella pneumoniae Isolate with Chromosomally Encoded Carbapenem Resistance and Colibactin Synthesis Loci.

Conlan S, Deming C, Tsai YC, Lau AF, Dekker JP, Korlach J, Segre JA.

Genome Announc. 2014 Dec 24;2(6). pii: e01332-14. doi: 10.1128/genomeA.01332-14.

47.

Reply to "Tn4401 carrying blaKPC is inserted within another insertion in pKpQIL and related plasmids".

Lau AF, Wang H, Weingarten RA, Drake SK, Suffredini AF, Chen Y, Gucek M, Youn JH, Stock F, Tso H, DeLeo J, Cimino JJ, Frank KM, Dekker JP.

J Clin Microbiol. 2014 Dec;52(12):4450. doi: 10.1128/JCM.02614-14. No abstract available.

48.

Enzyme immunoassay versus latex agglutination cryptococcal antigen assays in adults with non-HIV-related cryptococcosis.

Panackal AA, Dekker JP, Proschan M, Beri A, Williamson PR.

J Clin Microbiol. 2014 Dec;52(12):4356-8. doi: 10.1128/JCM.02017-14. Epub 2014 Sep 24.

49.

Single-molecule sequencing to track plasmid diversity of hospital-associated carbapenemase-producing Enterobacteriaceae.

Conlan S, Thomas PJ, Deming C, Park M, Lau AF, Dekker JP, Snitkin ES, Clark TA, Luong K, Song Y, Tsai YC, Boitano M, Dayal J, Brooks SY, Schmidt B, Young AC, Thomas JW, Bouffard GG, Blakesley RW; NISC Comparative Sequencing Program, Mullikin JC, Korlach J, Henderson DK, Frank KM, Palmore TN, Segre JA.

Sci Transl Med. 2014 Sep 17;6(254):254ra126. doi: 10.1126/scitranslmed.3009845.

50.

Persistence of Pseudomonas aeruginosa in a pulmonary nodule with late relapse.

Ronkainen S, Xie Y, Battiwalla M, Barrett AJ, Stock F, Dekker JP, Danner RL.

Transpl Infect Dis. 2014 Aug;16(4):666-71. doi: 10.1111/tid.12253. Epub 2014 Jun 26.

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