Identification of gram-negative bacteria and genetic resistance determinants from positive blood culture broths by use of the verigene gram-negative blood culture multiplex microarray-based molecular assay

Journal of Clinical Microbiology

Volumn 53, Issue 8, 2015, Pages 2460-2472

  Ledeboer, Nathan A ^a   Lopansri, Bert K ^b   Dhiman, Neelam ^c   Cavagnolo, Robert ^c   Carroll, Karen C ^d   Granato, Paul ^e   Thomson, Richard ^f   Butler Wu, Susan M ^g   Berger, Heather ^g   Samuel, Linoj ^h   Pancholi, Preeti ⁱ   Swyers, Lettie ⁱ   Hansen, Glen T ^j   Tran, Nam K ^k   Polage, Christopher R ^k   Thomson, Kenneth S ^l   Hanson, Nancy D ^l   Winegar, Richard ^m   Buchan, Blake W ^a  

^a MEDICAL COLLEGE OF WISCONSIN   (United States)

^b INTERMOUNTAIN MEDICAL CENTER   (United States)

^c Med Fusion   (United States)

^d JOHNS HOPKINS UNIVERSITY   (United States)

^e Laboratory Alliance of Central New York LLC Hospital   (United States)

^f NORTHSHORE UNIVERSITY HEALTHSYSTEM   (United States)

^g UNIVERSITY OF WASHINGTON   (United States)

^h HENRY FORD HOSPITAL   (United States)

ⁱ THE OHIO STATE UNIVERSITY WEXNER MEDICAL CENTER   (United States)

^j HENNEPIN COUNTY MEDICAL CENTER   (United States)

^k UNIVERSITY OF CALIFORNIA   (United States)

^l CREIGHTON UNIVERSITY SCHOOL OF MEDICINE   (United States)

^m MRIGlobal   (United States)

more..

Author keywords

[No Author keywords available]

Indexed keywords

ACINETOBACTER; ANTIBIOTIC RESISTANCE; ANTIBIOTIC THERAPY; ARTICLE; BACTERIUM IDENTIFICATION; BLOOD CULTURE; BLOODSTREAM INFECTION; CITROBACTER; CONTROLLED STUDY; CULTURE MEDIUM; ENTEROBACTER; ESCHERICHIA COLI; FLUORESCENCE IN SITU HYBRIDIZATION; GENETIC RESISTANCE; GRAM NEGATIVE BACTERIUM; HUMAN; HUMAN TISSUE; KLEBSIELLA OXYTOCA; KLEBSIELLA PNEUMONIAE; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MICROARRAY ANALYSIS; MORBIDITY; MORGANELLA; MORTALITY; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEUS; PSEUDOMONAS; PSEUDOMONAS AERUGINOSA; SEQUENCE ANALYSIS; STENOTROPHOMONAS MALTOPHILIA; BACTEREMIA; COMPARATIVE STUDY; EVALUATION STUDY; GENETICS; GRAM-NEGATIVE BACTERIAL INFECTIONS; ISOLATION AND PURIFICATION; MICROBIOLOGICAL EXAMINATION; MICROBIOLOGY; MOLECULAR DIAGNOSIS; PROCEDURES; PROSPECTIVE STUDY; RETROSPECTIVE STUDY; TIME FACTOR;

ACINETOBACTER; BACTERIA (MICROORGANISMS); CITROBACTER; ENTEROBACTER; ESCHERICHIA COLI; KLEBSIELLA OXYTOCA; KLEBSIELLA PNEUMONIAE; KLEBSIELLA VARIICOLA; NEGIBACTERIA; PROTEUS (ENTEROBACTERIA); PSEUDOMONAS AERUGINOSA;

BACTEREMIA; BACTERIOLOGICAL TECHNIQUES; DRUG RESISTANCE, BACTERIAL; GRAM-NEGATIVE BACTERIA; GRAM-NEGATIVE BACTERIAL INFECTIONS; HUMANS; MICROARRAY ANALYSIS; MOLECULAR DIAGNOSTIC TECHNIQUES; PROSPECTIVE STUDIES; RETROSPECTIVE STUDIES; TIME FACTORS;

EID: 84938118582     PISSN: 00951137     EISSN: 1098660X     Source Type: Journal    
DOI: 10.1128/JCM.00581-15     Document Type: Article

References (57)

1. Angus DC, Wax RS. 2001. Epidemiology of sepsis: an update. Crit Care Med 29(7 Suppl):S109-S116.
2. Levy MM, Rhodes A, Phillips GS, Townsend SR, Schorr CA, Beale R, Osborn T, Lemeshow S, Chiche JD, Artigas A, Dellinger RP. 2014. Surviving Sepsis Campaign: association between performance metrics and outcomes in a 7.5-year study. Intensive Care Med 40:1623-1633. http://dx.doi.org/10.1007/s00134-014-3496-0.
3. Gaynes R, Edwards JR, National Nosocomial Infections Surveillance System. 2005. Overview of nosocomial infections caused by Gramnegative bacilli. Clin Infect Dis 41:848-854. http://dx.doi.org/10.1086/432803.
4. Al-Hasan MN, Eckel-Passow JE, Baddour LM. 2012. Impact of healthcare-associated acquisition on community-onset Gram-negative bloodstream infection: a population-based study: healthcare-associated Gramnegative BSI. Eur J Clin Microbiol Infect Dis 31:1163-1171. http://dx.doi.org/10.1007/s10096-011-1424-6.
5. Wisplinghoff H, Seifert H, Tallent SM, Bischoff T, Wenzel RP, Edmond MB. 2003. Nosocomial bloodstream infections in pediatric patients in United States hospitals: epidemiology, clinical features and susceptibilities. Pediatr Infect Dis J 22:686-691. http://dx.doi.org/10.1097/01.inf.0000078159.53132.40.
6. Patel G, Huprikar S, Factor SH, Jenkins SG, Calfee DP. 2008. Outcomes of carbapenem-resistant Klebsiella pneumoniae infection and the impact of antimicrobial and adjunctive therapies. Infect Control Hosp Epidemiol 29:1099-1106. http://dx.doi.org/10.1086/592412.
7. Schwaber MJ, Navon-Venezia S, Kaye KS, Ben-Ami R, Schwartz D, Carmeli Y. 2006. Clinical and economic impact of bacteremia with extended-spectrum-beta-lactamase-producing Enterobacteriaceae. Antimicrob Agents Chemother 50:1257-1262. http://dx.doi.org/10.1128/AAC.50.4.1257-1262.2006.
8. Ibrahim EH, Sherman G, Ward S, Fraser VJ, Kollef MH. 2000. The influence of inadequate antimicrobial treatment of bloodstream infections on patient outcomes in the ICU setting. Chest 118:146-155. http://dx.doi.org/10.1378/chest.118.1.146.
9. Kumar A, Roberts D, Wood KE, Light B, Parrillo JE, Sharma S, Suppes R, Feinstein D, Zanotti S, Taiberg L, Gurka D, Kumar A, Cheang M. 2006. Duration of hypotension before initiation of effective antimicrobial therapy is the critical determinant of survival in human septic shock. Crit Care Med 34:1589-1596. http://dx.doi.org/10.1097/01.CCM.0000217961.75225.E9.
10. Shorr AF, Micek ST, Welch EC, Doherty JA, Reichley RM, Kollef MH. 2011. Inappropriate antibiotic therapy in Gram-negative sepsis increases hospital length of stay. Crit Care Med 39:46-51. http://dx.doi.org/10.1097/CCM.0b013e3181fa41a7.
11. Montoya M, Detorres O. 2013. Antimicrobial selection and its impact on the incidence of Clostridium difficile-associated diarrhea. J Pharm Pract 26:483-487. http://dx.doi.org/10.1177/0897190013499524.
12. Stevens V, Dumyati G, Fine LS, Fisher SG, van Wijngaarden E. 2011. Cumulative antibiotic exposures over time and the risk of Clostridium difficile infection. Clin Infect Dis 53:42-48. http://dx.doi.org/10.1093/cid/cir301.
13. Wener KM, Schechner V, Gold HS, Wright SB, Carmeli Y. 2010. Treatment with fluoroquinolones or with beta-lactam-beta-lactamase inhibitor combinations is a risk factor for isolation of extended-spectrumbeta-lactamase-producing Klebsiella species in hospitalized patients. Antimicrob Agents Chemother 54:2010-2016. http://dx.doi.org/10.1128/AAC.01131-09.
14. Forrest GN, Mehta S, Weekes E, Lincalis DP, Johnson JK, Venezia RA. 2006. Impact of rapid in situ hybridization testing on coagulase-negative staphylococci positive blood cultures. J Antimicrob Chemother 58:154-158. http://dx.doi.org/10.1093/jac/dkl146.
15. Huang AM, Newton D, Kunapuli A, Gandhi TN, Washer LL, Isip J, Collins CD, Nagel JL. 2013. Impact of rapid organism identification via matrix-assisted laser desorption/ionization time-of-flight combined with antimicrobial stewardship team intervention in adult patients with bacteremia and candidemia. Clin Infect Dis, 57:1237-1245. http://dx.doi.org/10.1093/cid/cit498.
16. Buchan BW, Riebe KM, Ledeboer NA. 2012. Comparison of the MALDI Biotyper system using Sepsityper specimen processing to routine microbiological methods for identification of bacteria from positive blood culture bottles. J Clin Microbiol 50:346-352. http://dx.doi.org/10.1128/JCM.05021-11.
17. Bauer KA, West JE, Balada-Llasat JM, Pancholi P, Stevenson KB, Goff DA. 2010. An antimicrobial stewardship program?s impact with rapid polymerase chain reaction methicillin-resistant Staphylococcus aureus/S. aureus blood culture test in patients with S. aureus bacteremia. Clin Infect Dis 51:1074-1080. http://dx.doi.org/10.1086/656623.
18. Buchan BW, Ginocchio CC, Manii R, Cavagnolo R, Pancholi P, Swyers L, Thomson RB, Jr, Anderson C, Kaul K, Ledeboer NA. 2013. Multiplex identification of Gram-positive bacteria and resistance determinants directly from positive blood culture broths: evaluation of an automated microarray-based nucleic acid test. PLoS Med 10:e1001478. http://dx.doi.org/10.1371/journal.pmed.1001478.
19. Perez KK, Olsen RJ, Musick WL, Cernoch PL, Davis JR, Land GA, Peterson LE, Musser JM. 2013. Integrating rapid pathogen identification and antimicrobial stewardship significantly decreases hospital costs. Arch Pathol Lab Med 137:1247-1254. http://dx.doi.org/10.5858/arpa.2012-0651-OA.
20. Mancini N, Infurnari L, Ghidoli N, Valzano G, Clementi N, Burioni R, Clementi M. 2014. Potential impact of a microarray-based nucleic acid assay for rapid detection of Gram-negative bacteria and resistance markers in positive blood cultures. J Clin Microbiol 52:1242-1245. http://dx.doi.org/10.1128/JCM.00142-14.
21. Alby K, Daniels LM, Weber DJ, Miller MB. 2013. Development of a treatment algorithm for streptococci and enterococci from positive blood cultures identified with the Verigene Gram-positive blood culture assay. J Clin Microbiol 51:3869-3871. http://dx.doi.org/10.1128/JCM.01587-13.
22. Altun O, Almuhayawi M, Ullberg M, Ozenci V. 2013. Clinical evaluation of the FilmArray blood culture identification panel in identification of bacteria and yeasts from positive blood culture bottles. J Clin Microbiol 51:4130-4136. http://dx.doi.org/10.1128/JCM.01835-13.
23. Blaschke AJ, Heyrend C, Byington CL, Fisher MA, Barker E, Garrone NF, Thatcher SA, Pavia AT, Barney T, Alger GD, Daly JA, Ririe KM, Ota I, Poritz MA. 2012. Rapid identification of pathogens from positive blood cultures by multiplex polymerase chain reaction using the FilmArray system. Diagn Microbiol Infect Dis 74:349-355. http://dx.doi.org/10.1016/j.diagmicrobio.2012.08.013.
24. Samuel LP, Tibbetts RJ, Agotesku A, Fey M, Hensley R, Meier FA. 2013. Evaluation of a microarray-based assay for rapid identification of Grampositive organisms and resistance markers in positive blood cultures. J Clin Microbiol 51:1188-1192. http://dx.doi.org/10.1128/JCM.02982-12.
25. Wojewoda CM, Sercia L, Navas M, Tuohy M, Wilson D, Hall GS, Procop GW, Richter SS. 2013. Evaluation of the Verigene Gram-positive blood culture nucleic acid test for rapid detection of bacteria and resistance determinants. J Clin Microbiol 51:2072-2076. http://dx.doi.org/10.1128/JCM.00831-13.
26. Bhatti MM, Boonlayangoor S, Beavis KG, Tesic V. 2014. Evaluation of FilmArray and Verigene systems for rapid identification of positive blood cultures. J Clin Microbiol 52:3433-3436. http://dx.doi.org/10.1128/JCM.01417-14.
27. Dodemont M, De Mendonça R, Nonhoff C, Roisin S, Denis O. 2014. Performance of the Verigene Gram-negative blood culture assay for rapid detection of bacteria and resistance determinants. J Clin Microbiol 52: 3085-3087. http://dx.doi.org/10.1128/JCM.01099-14.
28. Hill JT, Tran KD, Barton KL, Labreche MJ, Sharp SE. 2014. Evaluation of the Nanosphere Verigene BC-GN assay for direct identification of Gram-negative bacilli and antibiotic resistance markers from positive blood cultures and potential impact for more-rapid antibiotic interventions. J Clin Microbiol 52:3805-3807. http://dx.doi.org/10.1128/JCM.01537-14.
29. Sullivan KV, DeBurger B, Roundtree SS, Ventrola CA, Blecker-Shelly DL, Mortensen JE. 2014. Pediatric multicenter evaluation of the Verigene Gram-negative blood culture test for rapid detection of inpatient bacteremia involving Gram-negative organisms, extendedspectrum beta-lactamases, and carbapenemases. J Clin Microbiol 52: 2416-2421. http://dx.doi.org/10.1128/JCM.00737-14.
30. Tojo M, Fujita T, Ainoda Y, Nagamatsu M, Hayakawa K, Mezaki K, Sakurai A, Masui Y, Yazaki H, Takahashi H, Miyoshi-Akiyama T, Totsuka K, Kirikae T, Ohmagari N. 2014. Evaluation of an automated rapid diagnostic assay for detection of Gram-negative bacteria and their drug-resistance genes in positive blood cultures. PLoS One 9:e94064. http://dx.doi.org/10.1371/journal.pone.0094064.
31. Seki M, Gotoh K, Nakamura S, Akeda Y, Yoshii T, Miyaguchi S, Inohara H, Horii T, Oishi K, Iida T, Tomono K. 2013. Fatal sepsis caused by an unusual Klebsiella species that was misidentified by an automated identification system. J Med Microbiol 62(Pt 5):801-803. http://dx.doi.org/10.1099/jmm.0.051334-0.
32. Rosenblueth M, Martinez L, Silva J, Martinez-Romero E. 2004. Klebsiella variicola, a novel species with clinical and plant-associated isolates. Syst Appl Microbiol 27:27-35. http://dx.doi.org/10.1078/0723-2020-00261.
33. Alves MS, de Silva Dias RC, de Castro ACD, Riley LW, Moreira BM. 2006. Identification of clinical isolates of indole-positive and indolenegative Klebsiella spp. J Clin Microbiol 44:3640-3646. http://dx.doi.org/10.1128/JCM.00940-06.
34. Brisse S, van Himbergen T, Kusters K, Verhoef J. 2004. Development of a rapid identification method for Klebsiella pneumoniae phylogenetic groups and analysis of 420 clinical isolates. Clin Microbiol Infect 10:942-945. http://dx.doi.org/10.1111/j.1469-0691.2004.00973.x.
35. Boucher HW, Talbot GH, Bradley JS, Edwards JE, Gilbert D, Rice LB, Scheld M, Spellberg B, Bartlett J. 2009. Bad bugs, no drugs: no ESKAPE! An update from the Infectious Diseases Society of America. Clin Infect Dis, 48:1-12. http://dx.doi.org/10.1086/595011.
36. Chen LF, Anderson DJ, Paterson DL. 2012. Overview of the epidemiology and the threat of Klebsiella pneumoniae carbapenemases (KPC) resistance. Infect Drug Resist 5:133-141. http://dx.doi.org/10.2147/IDR.S26613.
37. Nordmann P, Naas T, Poirel L. 2011. Global spread of carbapenemaseproducing Enterobacteriaceae. Emerg Infect Dis 17:1791-1798. http://dx.doi.org/10.3201/eid1710.110655.
38. Yigit H, Queenan AM, Anderson GJ, Domenech-Sanchez A, Biddle JW, Steward CD, Alberti S, Bush K, Tenover FC. 2001. Novel carbapenem-hydrolyzing beta-lactamase, KPC-1, from a carbapenem-resistant strain of Klebsiella pneumoniae. Antimicrob Agents Chemother 45:1151-1161. http://dx.doi.org/10.1128/AAC.45.4.1151-1161.2001.
39. Centers for Disease Control and Prevention. 2013. Antibiotic resistance threats in the United States, 2013. Centers for Disease Control and Prevention, Atlanta, GA. http://www.cdc.gov/drugresistance/threat-report-2013/.
40. Calfee D, Jenkins SG. 2008. Use of active surveillance cultures to detect asymptomatic colonization with carbapenem-resistant Klebsiella pneumoniae in intensive care unit patients. Infect Control Hosp Epidemiol 29:966-968. http://dx.doi.org/10.1086/590661.
41. Pasteran F, Mendez T, Guerriero L, Rapoport M, Corso A. 2009. Sensitive screening tests for suspected class A carbapenemase production in species of Enterobacteriaceae. J Clin Microbiol 47:1631-1639. http://dx.doi.org/10.1128/JCM.00130-09.
42. Girlich D, Poirel L, Nordmann P. 2012. Value of the modified Hodge test for detection of emerging carbapenemases in Enterobacteriaceae. J Clin Microbiol 50:477-479. http://dx.doi.org/10.1128/JCM.05247-11.
43. Castanheira M, Deshpande LM, Mathai D, Bell JM, Jones RN, Mendes RE. 2011. Early dissemination of NDM-1-and OXA-181-producing Enterobacteriaceae in Indian hospitals: report from the SENTRY Antimicrobial Surveillance Program, 2006-2007. Antimicrob Agents Chemother 55:1274-1278. http://dx.doi.org/10.1128/AAC.01497-10.
44. Tijet N, Boyd D, Patel SN, Mulvey MR, Melano RG. 2013. Evaluation of the Carba NP test for rapid detection of carbapenemase-producing Enterobacteriaceae and Pseudomonas aeruginosa. Antimicrob Agents Chemother 57:4578-4580. http://dx.doi.org/10.1128/AAC.00878-13.
45. Nordmann P, Poirel L, Dortet L. 2012. Rapid detection of carbapenemase-producing Enterobacteriaceae. Emerg Infect Dis 18:1503-1507. http://dx.doi.org/10.3201/eid1809.120355.
46. Dortet L, Poirel L, Nordmann P. 2012. Rapid detection of carbapenemase-producing Pseudomonas spp. J Clin Microbiol 50:3773-3776. http://dx.doi.org/10.1128/JCM.01597-12.
47. Cantón R, Coque TM. 2006. The CTX-M beta-lactamase pandemic. Curr Opin Microbiol 9:466-475. http://dx.doi.org/10.1016/j.mib.2006.08.011.
48. Bush K, Jacoby GA. 2010. Updated functional classification of betalactamases. Antimicrob Agents Chemother, 54:969-976. http://dx.doi.org/10.1128/AAC.01009-09.
49. Bradford PA. 2001. Extended-spectrum β-lactamases in the 21st century: characterization, epidemiology, and detection of this important resistance threat. Clin Microbiol Rev 14:933-951. http://dx.doi.org/10.1128/CMR.14.4.933-951.2001.
50. Dudley MN, Ambrose PG, Bhavnani SM, Craig WA, Ferraro MJ, Jones RN, Antimicrobial Susceptibility Testing Subcommittee of the Clinical and Laboratory Standards Institute. 2013. Background and rationale for revised clinical and laboratory standards institute interpretive criteria (breakpoints) for Enterobacteriaceae and Pseudomonas aeruginosa: I. Cephalosporins and aztreonam. Clin Infect Dis, 56:1301-1309. http://dx.doi.org/10.1093/cid/cit017.
51. Paterson DL, Ko WC, Von Gottberg A, Mohapatra S, Casellas JM, Goossens H, Mulazimoglu L, Trenholme G, Klugman KP, Bonomo RA, Rice LB, Wagener MM, McCormack JG, Yu VL. 2004. Antibiotic therapy for Klebsiella pneumoniae bacteremia: implications of production of extended-spectrum beta-lactamases. Clin Infect Dis 39:31-37. http://dx.doi.org/10.1086/420816.
52. Jacoby GA. 2009. AmpC beta-lactamases. Clin Microbiol Rev 22:161-182. http://dx.doi.org/10.1128/CMR.00036-08.
53. Munier GK, Johnson CL, Snyder JW, Moland ES, Hanson ND, Thomson KS. 2010. Positive extended-spectrum-β-lactamase (ESBL) screening results may be due toAmpCβ-lactamases more often than to ESBLs. J Clin Microbiol 48:673-674. http://dx.doi.org/10.1128/JCM.01544-09.
54. Clinical and Laboratory Standards Institute. 2011. Performance standards for antimicrobial susceptibility testing; 21st informational supplement. CLSI document M100-S21. Clinical and Laboratory Standards Institute, Wayne, PA.
55. Clinical and Laboratory Standards Institute. 2010. Performance standards for antimicrobial susceptibility testing; 20th informational supplement. CLSI document M100-S20. Clinical and Laboratory Standards Institute, Wayne, PA.
56. Wang P, Hu F, Xiong Z, Ye X, Zhu D, Wang YF, Wang M. 2011. Susceptibility of extended-spectrum-beta-lactamase-producing Enterobacteriaceae according to the new CLSI breakpoints. J Clin Microbiol 49: 3127-3131. http://dx.doi.org/10.1128/JCM.00222-11.
57. Rand KH, Delano JP. 2014. Direct identification of bacteria in positive blood cultures: comparison of two rapid methods, FilmArray and mass spectrometry. Diagn Microbiol Infect Dis 79:293-297. http://dx.doi.org/10.1016/j.diagmicrobio.2014.03.014.