Next-generation sequencing for hypothesis-free genomic detection of invasive tropical infections in poly-microbially contaminated, formalin-fixed, paraffin-embedded tissue samples – a proof-of-principle assessment

被引:0
作者
Hagen Frickmann
Carsten Künne
Ralf Matthias Hagen
Andreas Podbielski
Jana Normann
Sven Poppert
Mario Looso
Bernd Kreikemeyer
机构
[1] Bundeswehr Hospital Hamburg,Department of Microbiology and Hospital Hygiene
[2] University Medicine Rostock,Institute for Microbiology, Virology and Hygiene
[3] Max-Planck Institute for Heart and Lung Research Bad Nauheim,Department of Bioinformatics
[4] Bundeswehr Medical Academy,Department of Preventive Medicine
[5] Swiss Tropical and Public Health Institute,undefined
[6] Faculty of Medicine,undefined
[7] University Basel,undefined
来源
BMC Microbiology | / 19卷
关键词
NGS; Next-generation sequencing; Hypothesis-free diagnosis of infection; Invasive fungal infections; Invasive amebiasis; FFPE, formalin-fixed, paraffin-embedded samples; Molecular diagnostics; Tropical infectious diseases; Metagenome;
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[11]  
Huijsmans CJJ(2015)DNA sequencing by capillary electrophoresis PLoS One 10 e0135923-1075
[12]  
Damen J(2015)2015 ESC guidelines for the management of infective endocarditis: the task force for the Management of Infective Endocarditis of the European Society of Cardiology (ESC). Endorsed by: European Association for Cardio-Thoracic Surgery (EACTS), the European Association of Nuclear Medicine (EANM) Biomed Res Int 2015 938721-52
[13]  
Linden JC(2013)16S rRNA gene sequence-based identification of bacteria in automatically incubated blood culture materials from tropical sub-Saharan Africa N Engl J Med 369 517-58
[14]  
Van Der Savelkoul PHM(2013)Detection of tropical fungi in formalin-fixed, paraffin-embedded tissue: still an indication for microscopy in times of sequence-based diagnosis? JAMA 309 1502-878
[15]  
Hermans MHA(2014)Sequence-based discovery of Emerg Infect Dis 20 1072-380
[16]  
Lu K(2015) in cord colitis syndrome PLoS One 10 e0127353-1732
[17]  
Ye W(2016)A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic J Biomol Tech 27 46-1153
[18]  
Zhou L(1998) O104:H4 Nat Biotechnol 16 54-109
[19]  
Collins LB(1998)Rapid metagenomic diagnostics for suspected outbreak of severe pneumonia Biotechniques 25 876-146
[20]  
Chen X(2005)Robustness of next generation sequencing in older formalin-fixed, paraffin-embedded tissue Nature 437 376-1997