References
- Abat C, Chaudet H, Colson P, Rolain JM, Raoult D. Real-time microbiology laboratory surveillance system to detect abnormal events and emerging infections, Marseille, France. Emerg Infect Dis. 2015 Aug;21(8):1302–1310. https://doi.org/10.3201/eid2108.141419
- Asgeirsson H, Thalme A, Weiland O. Staphylococcus aureus bacteraemia and endocarditis – epidemiology and outcome: a review. Infect Dis (Lond). 2018 Mar;50(3):175–192. https://doi.org/10.1080/23744235.2017.1392039
- Baron EJ, Mix S, Moradi W. Clinical utility of an automated instrument for gram staining single slides. J Clin Microbiol. 2010 Jun; 48(6):2014–2015. https://doi.org/10.1128/jcm.02503-09
- Belmekki M, Mammeri H, Hamdad F, Rousseau F, Canarelli B, Biendo M. Comparison of Xpert MRSA/SA nasal and MRSA/SA ELITe MGB assays for detection of the mecA gene with susceptibility testing methods for determination of methicillin resistance in Staphylococcus aureus isolates. J Clin Microbiol. 2013 Oct;51(10):3183–3191. https://doi.org/10.1128/jcm.00860-13
- Boyanova L. Direct Gram staining and its various benefits in the diagnosis of bacterial infections. Postgrad Med. 2018 Jan;130(1):105–110. https://doi.org/10.1080/00325481.2018.1398049
- Carretto E, Bardaro M, Russello G, Mirra M, Zuelli C, Barbarini D. Comparison of the Staphylococcus QuickFISH BC test with the tube coagulase test performed on positive blood cultures for evaluation and application in a clinical routine setting. J Clin Microbiol. 2013 Jan;51(1):131–135. https://doi.org/10.1128/jcm.02103-12
- Cenci E, Paggi R, Socio GV, Bozza S, Camilloni B, Pietrella D, Mencacci A. Accelerate Pheno™ blood culture detection system: a literature review. Future Microbiol. 2020 Oct; 15:1595–1605. https://doi.org/10.2217/fmb-2020-0177
- Charnot-Katsikas A, Tesic V, Love N, Hill B, Bethel C, Boonlayangoor S, Beavis KG. Use of the Accelerate Pheno system for identification and antimicrobial susceptibility testing of pathogens in positive blood cultures and impact on time to results and workflow. J Clin Microbiol. 2017 Dec 26;56(1):e01166-17. https://doi.org/10.1128/jcm.01166-17
- Christner M, Rohde H, Wolters M, Sobottka I, Wegscheider K, Aepfelbacher M. Rapid identification of bacteria from positive blood culture bottles by use of matrix-assisted laser desorption-ionization time of flight mass spectrometry fingerprinting. J Clin Microbiol. 2010 May;48(5):1584–1591. https://doi.org/10.1128/jcm.01831-09
- Cortazzo V, D’Inzeo T, Giordano L, Menchinelli G, Liotti FM, Fiori B, De Maio F, Luzzaro F, Sanguinetti M, Posteraro B, et al. Comparing BioFire FilmArray BCID2 and BCID panels for direct detection of bacterial pathogens and antimicrobial resistance genes from positive blood cultures. J Clin Microbiol. 2021 Mar 19;59(4): e03163-20. https://doi.org/10.1128/jcm.03163-20
- Curtoni A, Cipriani R, Marra ES, Barbui AM, Cavallo R, Costa C. Rapid identification of microorganisms from positive blood culture by MALDI-TOF MS after short-term incubation on solid medium. Curr Microbiol. 2017 Jan;74(1):97–102. https://doi.org/10.1007/s00284-016-1161-2
- De Angelis G, Posteraro B, De Carolis E, Menchinelli G, Franceschi F, Tumbarello M, De Pascale G, Spanu T, Sanguinetti M. T2Bacteria magnetic resonance assay for the rapid detection of ESKAPEc pathogens directly in whole blood. J Antimicrob Chem-other. 2018 Mar 1;73(suppl 4):iv20–iv26. https://doi.org/10.1093/jac/dky049
- Deck MK, Anderson ES, Buckner RJ, Colasante G, Coull JM, Crystal B, Della Latta P, Fuchs M, Fuller D, Harris W, et al. Multicenter evaluation of the Staphylococcus QuickFISH method for simultaneous identification of Staphylococcus aureus and coagulase-negative staphylococci directly from blood culture bottles in less than 30 minutes. J Clin Microbiol. 2012 Jun;50(6):1994–1998. https://doi.org/10.1128/jcm.00225-12
- Dhiman N, Trienski TL, DiPersio LP, DiPersio JR. Evaluation of the BinaxNOW Staphylococcus aureus test for rapid identification of Gram-positive cocci from VersaTREK blood culture bottles. J Clin Microbiol. 2013 Sep;51(9):2939–2942. https://doi.org/10.1128/jcm.01087-13
- Drevinek P, Hurych J, Antuskova M, Tkadlec J, Berousek J, Prikrylova Z, Bures J, Vajter J, Soucek M, Masopust J, et al. Direct detection of ESKAPEc pathogens from whole blood using the T2Bacteria Panel allows early antimicrobial stewardship intervention in patients with sepsis. Microbiologyopen. 2021 Jun;10(3):e1210. https://doi.org/10.1002/mbo3.1210
- Enomoto H, Inoue S, Matsuhisa A, Nishiguchi S. Diagnosis of spontaneous bacterial peritonitis and an in situ hybridization approach to detect an “unidentified” pathogen. Int J Hepatol. 2014; 2014:634617. https://doi.org/10.1155/2014/634617
- Foster AG. Rapid Identification of microbes in positive blood cultures by use of the Vitek MS matrix-assisted laser desorption ionization-time of flight mass spectrometry system. J Clin Microbiol. 2013 Nov;51(11):3717–3719. https://doi.org/10.1128/jcm.01679-13
- Gonzalez MD, Chao T, Pettengill MA. Modern blood culture: management decisions and method options. Clin Lab Med. 2020 Dec; 40(4):379–392. https://doi.org/10.1016/j.cll.2020.07.001
- González V, Padilla E, Giménez M, Vilaplana C, Pérez A, Fernández G, Quesada MD, Pallarés MA, Ausina V. Rapid diagnosis of
- Staphylococcus aureus bacteremia using S. aureus PNA FISH. Eur J Clin Microbiol Infect Dis. 2004 May;23(5):396–398. https://doi.org/10.1007/s10096-004-1112-x
- Hadano Y, Isoda M, Ishibashi K, Kakuma T. Validation of blood culture gram staining for the detection of Staphylococcus aureus by the ‘oozing sign’ surrounding clustered gram-positive cocci: a prospective observational study. BMC Infect Dis. 2018 Sep 29;18(1):490. https://doi.org/10.1186/s12879-018-3412-2
- Heraud S, Freydiere AM, Doleans-Jordheim A, Bes M, Tristan A, Vandenesch F, Laurent F, Dauwalder O. Direct identification of Staphylococcus aureus and determination of methicillin susceptibility from positive blood-culture bottles in a Bact/ALERT system using Binax Now S. aureus and PBP2a tests. Ann Lab Med. 2015 Jul; 35(4):454–457. https://doi.org/10.3343/alm.2015.35.4.454
- Holma T, Torvikoski J, Friberg N, Nevalainen A, Tarkka E, Antikainen J, Martelin JJ. Rapid molecular detection of pathogenic microorganisms and antimicrobial resistance markers in blood cultures: evaluation and utility of the next-generation FilmArray Blood Culture Identification 2 panel. Eur J Clin Microbiol Infect Dis. 2022 Mar;41(3):363–371. https://doi.org/10.1007/s10096-021-04314-2
- Hu YL, Hsueh SC, Ding GS, Chuang PC, Chen JM, Lu CY, Chang LY, Huang LM, Lee PI, Hsueh PR. Applicability of an in-house saponin-based extraction method in Bruker Biotyper matrix-assisted laser desorption/ionization time-of-flight mass spectrometry system for identifying bacterial and fungal species in positively flagged pediatric VersaTREK blood cultures. J Microbiol Immunol Infect. 2020 Dec;53(6):916–924. https://doi.org/10.1016/j.jmii.2020.01.004
- Jones BE, Ying J, Stevens V, Haroldsen C, He T, Nevers M, Christensen MA, Nelson RE, Stoddard GJ, Sauer BC, et al. Empirical anti-MRSA vs standard antibiotic therapy and risk of 30-day mortality in patients hospitalized for pneumonia. JAMA Intern Med. 2020 Apr 1;180(4):552–560. https://doi.org/10.1001/jamainternmed.2019.7495
- Kern WV, Rieg S. Burden of bacterial bloodstream infection – a brief update on epidemiology and significance of multidrug-resistant pathogens. Clin Microbiol Infect. 2020 Feb; 26 (2):151–157. https://doi.org/10.1016/j.cmi.2019.10.031
- Kudo M, Matsuo Y, Nakasendo A, Inoue S, Goto H, Tsukiji J, Watanuki Y, Ueda A, Kaneko T, Ishigatsubo Y. Potential clinical benefit of the in situ hybridization method for the diagnosis of sepsis. J Infect Chemother. 2009 Feb;15(1):23–26. https://doi.org/10.1007/s10156-008-0655-7
- Lin JF, Ge MC, Liu TP, Chang SC, Lu JJ. A simple method for rapid microbial identification from positive monomicrobial blood culture bottles through matrix-assisted laser desorption ionization time-of-flight mass spectrometry. J Microbiol Immunol Infect. 2018 Oct;51(5):659–665. https://doi.org/10.1016/j.jmii.2017.03.005
- Liu X, Su T, Hsu YS, Yu H, Yang HS, Jiang L, Zhao Z. Rapid identification and discrimination of methicillin-resistant Staphylococcus aureus strains via matrix-assisted laser desorption/ ionization time-of-flight mass spectrometry. Rapid Commun Mass Spectrom. 2021 Jan 30;35(2):e8972. https://doi.org/10.1002/rcm.8972
- Lutgring JD, Bittencourt C, McElvania TeKippe E, Cavuoti D, Hollaway R, Burd EM. Evaluation of the Accelerate Pheno system: results from two academic medical centers. J Clin Microbiol. 2018 Mar 26;56(4):e01672-17. https://doi.org/10.1128/jcm.01672-17
- Marschal M, Bachmaier J, Autenrieth I, Oberhettinger P, Willmann M, Peter S. Evaluation of the Accelerate Pheno system for fast identification and antimicrobial susceptibility testing from positive blood cultures in bloodstream infections caused by Gram-negative pathogens. J Clin Microbiol. 2017 Jul;55(7):2116–2126. https://doi.org/10.1128/jcm.00181-17
- Mather CA, Werth BJ, Sivagnanam S, SenGupta DJ, Butler-Wu SM. Rapid detection of vancomycin-intermediate Staphylococcus aureus by matrix-assisted laser desorption ionization-time of flight mass spectrometry. J Clin Microbiol. 2016 Apr;54(4):883–890. https://doi.org/10.1128/jcm.02428-15
- McHugh MP, Parcell BJ, MacKenzie FM, Templeton KE; Scottish Microbiology and Virology Network Smvn Molecular Diagnostics Evaluation Group. Rapid molecular testing for Staphylococcus aureus bacteraemia improves clinical management. J Med Microbiol. 2020 Apr;69(4):552–557. https://doi.org/10.1099/jmm.0.001171
- Mitchell DH, Howden BP. Diagnosis and management of Staphylococcus aureus bacteraemia. Intern Med J. 2005 Dec;35 Suppl 2:S17–S24. https://doi.org/10.1111/j.1444-0903.2005.00977.x
- Mitteregger D, Barousch W, Nehr M, Kundi M, Zeitlinger M, Makristathis A, Hirschl AM. Neutralization of antimicrobial substances in new BacT/Alert FA and FN Plus blood culture bottles. J Clin Microbiol. 2013 May;51(5):1534–1540. https://doi.org/10.1128/jcm.00103-13
- Murdoch DR, Greenlees RL. Rapid identification of Staphylococcus aureus from BacT/ ALERT blood culture bottles by direct Gram stain characteristics. J Clin Pathol. 2004 Feb;57(2):199–201. https://doi.org/10.1136/jcp.2003.10538
- Neely LA, Audeh M, Phung NA, Min M, Suchocki A, Plourde D, Blanco M, Demas V, Skewis LR, Anagnostou T, et al. T2 magnetic resonance enables nanoparticle-mediated rapid detection of candidemia in whole blood. Sci Transl Med. 2013 Apr 24;5(182):182ra54. https://doi.org/10.1126/scitranslmed.3005377
- Nguyen MH, Clancy CJ, Pasculle AW, Pappas PG, Alangaden G, Pankey GA, Schmitt BH, Rasool A, Weinstein MP, Widen R, et al. Performance of the T2Bacteria panel for diagnosing bloodstream infections: a diagnostic accuracy study. Ann Intern Med. 2019 Jun 18;170(12):845–852. https://doi.org/10.7326/m18-2772
- Oliveira K, Brecher SM, Durbin A, Shapiro DS, Schwartz DR, De Girolami PC, Dakos J, Procop GW, Wilson D, Hanna CS, et al. Direct identification of Staphylococcus aureus from positive blood culture bottles. J Clin Microbiol. 2003 Feb;41(2):889–891. https://doi.org/10.1128/jcm.41.2.889-891.2003
- O’Toole GA. Classic spotlight: how the Gram stain works. J Bacteriol. 2016 Nov 4;198(23):3128. https://doi.org/10.1128/jb.00726-16
- Paolucci M, Landini MP, Sambri V. Conventional and molecular techniques for the early diagnosis of bacteraemia. Int J Antimicrob Agents. 2010 Dec;36(Suppl2):S6–S16. https://doi.org/10.1016/j.ijantimicag.2010.11.010
- Parkes-Smith J, Bergh H, Harris PNA. Assessing the performance of the Cepheid Xpert in identifying and differentiating methicillin-susceptible Staphylococcus aureus and methicillin-resistant Staphylococcus aureus from blood culture bottles. Pathology. 2022 Sep 5:S0031-3025(22)00232-X. https://doi.org/10.1016/j.pathol.2022.07.006
- Peker N, Couto N, Sinha B, Rossen JW. Diagnosis of bloodstream infections from positive blood cultures and directly from blood samples: recent developments in molecular approaches. Clin Microbiol Infect. 2018 Sep;24(9):944–955. https://doi.org/10.1016/j.cmi.2018.05.007
- Pliakos EE, Andreatos N, Shehadeh F, Ziakas PD, Mylonakis E. The cost-effectiveness of rapid diagnostic testing for the diagnosis of bloodstream infections with or without antimicrobial stewardship. Clin Microbiol Rev. 2018 May 30;31(3):e00095-17. https://doi.org/10.1128/cmr.00095-17
- Ponderand L, Pavese P, Maubon D, Giraudon E, Girard T, Landelle C, Maurin M, Caspar Y. Evaluation of Rapid Sepsityper® protocol and specific MBT-Sepsityper module (Bruker Daltonics) for the rapid diagnosis of bacteremia and fungemia by MALDI-TOF-MS. Ann Clin Microbiol Antimicrob. 2020 Dec 9;19(1):60. https://doi.org/10.1186/s12941-020-00403-w
- Pritchard L, Baker C, Leggett J, Sehdev P, Brown A, Bayley KB. Increasing vancomycin serum trough concentrations and incidence of nephrotoxicity. Am J Med. 2010 Dec; 123(12):1143–1149. https://doi.org/10.1016/j.amjmed.2010.07.025
- Qian Q, Eichelberger K, Kirby JE. Rapid identification of Staphylococcus aureus directly from Bactec blood culture broth by the BinaxNOW S. aureus test. J Clin Microbiol. 2014 Jan; 52(1):319–320. https://doi.org/10.1128/jcm.02291-13
- Reddy K, Whitelaw A. Can the Xpert MRSA/SA BC assay be used as an antimicrobial stewardship tool? A prospective assay validation and descriptive impact assessment study in a South African setting. BMC Infect Dis. 2021 Feb 15;21(1):177. https://doi.org/10.1186/s12879-021-05857-7
- Roh KH, Kim JY, Kim HN, Lee HJ, Sohn JW, Kim MJ, Cho Y, Kim YK, Lee CK. Evaluation of BACTEC Plus aerobic and anaerobic blood culture bottles and BacT/Alert FAN aerobic and anaerobic blood culture bottles for the detection of bacteremia in ICU patients. Diagn Microbiol Infect Dis. 2012 Jul;73(3):239–242. https://doi.org/10.1016/j.diagmicrobio.2012.03.022
- Shimada J, Hayashi I, Inamatsu T, Ishida M, Iwai S, Kamidono S, Kurosawa H, Masaoka T, Matsumoto F, Monden M, et al. Clinical trial of in-situ hybridization method for the rapid diagnosis of sepsis. J Infect Chemother. 1999 Mar;5(1):21–31. https://doi.org/10.1007/s101560050004
- Smith KP, Kang AD, Kirby JE. Automated interpretation of blood culture Gram stains by use of a deep convolutional neural network. J Clin Microbiol. 2018 Feb 22;56(3):e01521-17. https://doi.org/10.1128/jcm.01521-17
- Srisrattakarn A, Panpru P, Tippayawat P, Chanawong A, Tavichakorntrakool R, Daduang J, Wonglakorn L, Lulitanond A. Rapid detection of methicillin-resistant Staphylococcus aureus in positive blood-cultures by recombinase polymerase amplification combined with lateral flow strip. PLoS One. 2022 Jun 30;17(6):e0270686. https://doi.org/10.1371/journal.pone.0270686
- Sze DTT, Lau CCY, Chan TM, Ma ESK, Tang BSF. Comparison of novel rapid diagnostic of blood culture identification and antimicrobial susceptibility testing by Accelerate Pheno system and Bio-Fire FilmArray Blood Culture Identification and BioFire FilmArray Blood Culture Identification 2 panels. BMC Microbiol. 2021 Dec 18; 21(1):350. https://doi.org/10.1186/s12866-021-02403-y
- Tsuchida S, Murata S, Miyabe A, Satoh M, Takiwaki M, Matsushita K, Nomura F. An improved in-house lysis-filtration protocol for bacterial identification from positive blood culture bottles with high identification rates by MALDI-TOF MS. J Microbiol Methods. 2018 May; 148:40–45. https://doi.org/10.1016/j.mimet.2018.03.014
- Tsuzuki S, Yu J, Matsunaga N, Ohmagari N. Length of stay, hospitalisation costs and in-hospital mortality of methicillin-susceptible and methicillin-resistant Staphylococcus aureus bacteremia in Japan. Public Health. 2021 Sep;198:292–296. https://doi.org/10.1016/j.puhe.2021.07.046
- Turner NA, Sharma-Kuinkel BK, Maskarinec SA, Eichen-berger EM, Shah PP, Carugati M, Holland TL, Fowler VG Jr. Methicillin-resistant Staphylococcus aureus: an overview of basic and clinical research. Nat Rev Microbiol. 2019 Apr; 17(4):203–218. https://doi.org/10.1038/s41579-018-0147-4
- Weaver AJ, Brandenburg KS, Sanjar F, Wells AR, Peacock TJ, Leung KP. Clinical utility of PNA-FISH for burn wound diagnostics: a noninvasive, culture-independent technique for rapid identification of pathogenic organisms in burn wounds. J Burn Care Res. 2019 Jun 21;40 (4):464–470. https://doi.org/10.1093/jbcr/irz047
- Wu KY, Yang TX. A novel improved Gram staining method based on the capillary tube. Pol J Microbiol. 2020 Dec;69(4):503–508. https://doi.org/10.33073/pjm-2020-043
- Zengin Canalp H, Bayraktar B. Direct rapid identification from positive blood cultures by MALDI-TOF MS: specific focus on turnaround times. Microbiol Spectr. 2021 Dec 22;9(3):e0110321. https://doi.org/10.1128/spectrum.01103-21