Detection of bacterial DNA from central venous catheter removed from patients by next generation sequencing: a preliminary clinical study
Tóm tắt
Từ khóa
Tài liệu tham khảo
Timsit JF, Rupp M, Bouza E, Chopra V, Kärpänen T, Laupland K, et al. A state of the art review on optimal practices to prevent, recognize, and manage complications associated with intravascular devices in the critically ill. Intens Care Med. 2018;44:742–59.
Rupp ME, Karnatak R. Intravascular catheter-related bloodstream infections. Infect Dis Clin North Am. 2018;32:765–87.
Nuckols TK, Keeler E, Morton SC, Anderson L, Doyle B, Booth M, et al. Economic evaluation of quality improvement interventions for bloodstream infections related to central catheters: a systematic review. JAMA Intern Med. 2016;176:1843–54.
Zakhour R, Chaftari AM, Raad II. Catheter-related infections in patients with haematological malignancies: novel preventive and therapeutic strategies. Lancet Infect Dis. 2016;16:e241–50.
Seifert H. The clinical importance of microbiological findings in the diagnosis and management of bloodstream infections. Clin Infect Dis. 2009;48:S238–45.
Blot SI, Depuydt P, Annemans L, Benoit D, Hoste E, De Waele JJ, et al. Clinical and economic outcomes in critically ill patients with nosocomial catheter-related bloodstream infections. Clin Infect Dis. 2005;41:1591–8.
Wisplinghoff H, Bischoff T, Tallent SM, Seifert H, Wenzel RP, Edmond MB. Nosocomial bloodstream infections in US hospitals: analysis of 24,179 cases from a prospective nationwide surveillance study. Clin Infect Dis. 2004;39:309–17.
Rhodes A, Evans LE, Alhazzani W, Levy MM, Antonelli M, Ferrer R, et al. Surviving sepsis campaign: international guidelines for management of sepsis and septic shock: 2016. Intens Care Med. 2017;43:304–77.
Fenollar F, Raoult D. Molecular diagnosis of bloodstream infections caused by non-cultivable bacteria. Int J Antimicrob Agents. 2007;30:S7–15.
van de Groep K, Bos MP, Savelkoul PH, Rubenjan A, Gazenbeek C, Melchers WJ, et al. Development and first evaluation of a novel multiplex real-time PCR on whole blood samples for rapid pathogen identification in critically ill patients with sepsis. Eur J Clin Microbiol Infect Dis. 2018;37:1333–44.
Guembe M, Marín M, Martín-Rabadán P, Echenagusia A, Camúñez F, Rodríguez-Rosales G, et al. Use of universal 16S rRNA gene PCR as a diagnostic tool for venous access port-related bloodstream infections. J Clin Microbiol. 2013;51:799–804.
Kommedal O, Karlsen B, Saebo O. Analysis of mixed sequencing chromatograms and its application in direct 16S rRNA gene sequencing of polymicrobial samples. J Clin Microbiol. 2008;46:3766–71.
García-Rodríguez JF, Álvarez-Díaz H, Vilariño-Maneiro L, Lorenzo-García MV, Cantón-Blanco A, Ordoñez-Barrosa P, et al. Epidemiology and impact of a multifaceted approach in controlling central venous catheter associated blood stream infections outside the intensive care unit. BMC Infect Dis. 2013;13:445.
Timsit JF, L’Hériteau F, Lepape A, Francais A, Ruckly S, Venier AG, et al. A multicentre analysis of catheter-related infection based on a hierarchical model. Intens Care Med. 2012;38:1662–72.
Frey KG, Bishop-Lilly KA. Next-generation sequencing for pathogen detection and identification. In: Sails A, Tang YW, editors. Current and emerging technologies for the diagnosis of microbial infections. Cambridge: Academic Press; 2015. p. 525–54.
Deurenberg RH, Bathoorn E, Chlebowicz MA, Couto N, Ferdous M, Garcia-Cobos S, et al. Application of next generation sequencing in clinical microbiology and infection prevention. J Biotechnol. 2017;243:16–24.
Besser J, Carleton HA, Gerner-Smidt P, Lindsey RL, Trees E. Next-generation sequencing technologies and their application to the study and control of bacterial infections. Clin Microbiol Infect. 2018;24:335–41.
Gosiewski T, Ludwig-Galezowska AH, Huminska K, Sroka-Oleksiak A, Radkowski P, Salamon D, et al. Comprehensive detection and identification of bacterial DNA in the blood of patients with sepsis and healthy volunteers using next-generation sequencing method—the observation of DNAemia. Eur J Clin Microbiol Infect Dis. 2017;36:329–36.
Grumaz S, Stevens P, Grumaz C, Decker SO, Weigand MA, Hofer S, et al. Next-generation sequencing diagnostics of bacteremia in septic patients. Genome Med. 2016;8:73.
Sabat AJ, van Zanten E, Akkerboom V, Wisselink G, van Slochteren K, de Boer RF, et al. Targeted next-generation sequencing of the 16S-23S rRNA region for culture-independent bacterial identification—increased discrimination of closely related species. Sci Rep. 2017;7:3434.
Joensen KG, Engsbro ALØ, Lukjancenko O, Kaas RS, Lund O, Westh H, et al. Evaluating next-generation sequencing for direct clinical diagnostics in diarrhoeal disease. Eur J Clin Microbiol Infect Dis. 2017;36:1325–38.
Wang Y, Zhang Y, Zhang Q, Chen H, Feng Y. Characterization of pelvic and cervical microbiotas from patients with pelvic inflammatory disease. J Med Microbiol. 2018;67:1519–26.
Song YG, Shim SG, Kim KM, Lee DH, Kim DS, Choi SH, et al. Profiling of the bacteria responsible for pyogenic liver abscess by 16S rRNA gene pyrosequencing. J Microbiol. 2014;52:504–9.
Singer M, Deutschman CS, Seymour CW, Shankar-Hari M, Annane D, Bauer M, et al. The third international consensus definitions for sepsis and septic shock (Sepsis-3). JAMA. 2016;315:801–10.
Li W, Fu L, Niu B, Wu S, Wooley J. Ultrafast clustering algorithms for metagenomic sequence analysis. Brief Bioinform. 2012;13:656–68.
Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, et al. QIIME allows analysis of high-throughput community sequencing data. Nat Methods. 2010;7:335–6.
See I, Freifeld AG, Magill SS. Causative organisms and associated antimicrobial resistance in healthcare-associated, central line-associated bloodstream infections from oncology settings, 2009–2012. Clin Infect Dis. 2016;62:1203–9.
Strasheim W, Kock MM, Ueckermann V, Hoosien E, Dreyer AW, Ehlers MM. Surveillance of catheter-related infections: the supplementary role of the microbiology laboratory. BMC Infect Dis. 2015;15:5.
Leon C, Alvarez-Lerma F, Ruiz-Santana S, Gonzalez V, de la Torre MV, Sierra R, et al. Antiseptic chamber-containing hub reduces central venous catheter related infection: a prospective, randomized study. Crit Care Med. 2003;31:1318–24.
Ranucci M, Isgro G, Giomarelli PP, Pavesi M, Luzzani A, Cattabriga I, et al. Impact of oligon central venous catheters on catheter colonization and catheter-related bloodstream infection. Crit Care Med. 2003;31:52–9.
Merrer J, De Jonghe B, Golliot F, Lefrant JY, Raffy B, Barre E, et al. Complications of femoral and subclavian venous catheterization in critically ill patients: a randomized controlled trial. JAMA. 2001;286:700–7.
Lefterova MI, Suarez CJ, Banaei N, Pinsky BA. Next-generation sequencing for infectious disease diagnosis and management: a report of the association for molecular pathology. J Mol Diagn. 2015;17:623–34.
Mitsuhashi S, Kryukov K, Nakagawa S, Takeuchi JS, Shiraishi Y, Asano K, et al. A portable system for rapid bacterial composition analysis using a nanopore-based sequencer and laptop computer. Sci Rep. 2017;7:5657.
Alonso R, Pisa D, Fernández-Fernández AM, Carrasco L. Infection of fungi and bacteria in brain tissue from elderly persons and patients with Alzheimer’s disease. Front Aging Neurosci. 2018;10:159.