Recommendations for the introduction of metagenomic high-throughput sequencing in clinical virology, part I: Wet lab procedure

被引：53

作者：

Xavier Lopez-Labrador, F. ^{[1
,2
]}

Brown, Julianne R. ^{[3
]}

Fischer, Nicole ^{[4
]}

Harvala, Heli ^{[5
]}

Van Boheemen, Sander ^{[6
]}

Cinek, Ondrej ^{[7
]}

Sayiner, Arzu ^{[8
]}

Madsen, Tina Vasehus ^{[9
]}

Auvinen, Eeva ^{[10
,11
]}

Kufner, Verena ^{[12
]}

Huber, Michael ^{[12
]}

Rodriguez, Christophe ^{[13
,14
]}

Jonges, Marcel ^{[15
,16
]}

Hoenemann, Mario ^{[17
]}

Susi, Petri ^{[18
]}

Sousa, Hugo ^{[19
,20
,21
,22
]}

Klapper, Paul E. ^{[23
]}

Perez-Cataluna, Alba ^{[24
]}

Hernandez, Marta ^{[25
]}

Molenkamp, Richard ^{[6
]}

van der Hoek, Lia ^{[15
,16
]}

Schuurman, Rob ^{[26
]}

Couto, Natacha ^{[27
,28
]}

Leuzinger, Karoline ^{[29
,30
]}

Simmonds, Peter ^{[31
]}

Beer, Martin ^{[32
]}

Hoeper, Dirk ^{[32
]}

Kamminga, Sergio ^{[33
]}

Feltkamp, Mariet C. W. ^{[33
]}

Rodriguez-Diaz, Jesus ^{[34
]}

Keyaerts, Els ^{[35
]}

Nielsen, Xiaohui Chen ^{[9
]}

Puchhammer-Stockl, Elisabeth ^{[36
]}

Kroes, Aloys C. M. ^{[33
]}

Buesa, Javier ^{[34
]}

Breuer, Judy ^{[3
]}

Claas, Eric C. J. ^{[33
]}

de Vries, Jutte J. C. ^{[33
]}

机构：

[1] Ctr Publ Hlth Res FISABIO Publ Hlth, Virol Lab, Genom & Hlth Area, Valencia, Spain

[2] Inst Salud Carlos III, CIBERESP, Madrid, Spain

[3] Great Ormond St Hosp Children NHS Fdn Trust, Microbiol Virol & Infect Prevent & Control, London, England

[4] Univ Med Ctr Hamburg Eppendorf, Inst Med Microbiol Virol & Hyg, Hamburg, Germany

[5] NHS Blood & Transplant, Microbiol Serv, London, England

[6] Erasmus MC, Dept Virosci, ErasmusMC, Rotterdam, Netherlands

[7] Charles Univ Prague, Fac Med 2, Dept Paediat & Med Microbiol, Prague, Czech Republic

[8] Dokuz Eylul Univ, Fac Med, Dept Med Microbiol, Div Med Virol, Izmir, Turkey

[9] Univ Hosp Reg Zealand, Dept Clin Microbiol, Slagelse, Denmark

[10] Helsinki Univ Hosp Lab, Dept Virol, Helsinki, Finland

[11] Univ Helsinki, Helsinki, Finland

[12] Univ Zurich, Inst Med Virol, Zurich, Switzerland

[13] Univ Hosp Henri Mondor, AP HP, Microbiol Dept, Creteil, France

[14] Univ Hosp Henri Mondor, AP HP, NGS Platform, Creteil, France

[15] Amsterdam UMC, Med Microbiol & Infect Control, Amsterdam, Netherlands

[16] Amsterdam UMC, Lab Expt Virol Med Microbiol & Infect Control, Amsterdam, Netherlands

[17] Univ Leipzig, Inst Virol, Leipzig, Germany

[18] Univ Turku, Inst Biomed, Turku, Finland

[19] Univ Minho, Sch Hlth Sci, Life & Hlth Sci Res Inst ICVS, Braga, Portugal

[20] ICVS 3Bs PT Govt Associate Lab, Braga, Guimaraes, Portugal

[21] Portuguese Oncol Inst Porto IPO Porto, Virol Serv, Porto, Portugal

[22] Portuguese Oncol Inst Porto IPO Porto, Mol Oncol & Viral Pathol Grp, Porto, Portugal

[23] Univ Manchester, Fac Biol Med & Hlth, Div Infect Immun & Resp Med, Manchester, Lancs, England

[24] IATA CSIC, Dept Preservat & Food Safety Technol, Valencia, Spain

[25] Inst Tecnol Agrario Castilla & Leon, Lab Mol Biol & Microbiol, Valladolid, Spain

[26] Univ Med Ctr Utrecht, Dept Virol, Utrecht, Netherlands

[27] Univ Groningen, Univ Med Ctr Groningen, Dept Med Microbiol, Groningen, Netherlands

[28] Univ Bath, Milner Ctr Evolut, Dept Biol & Biochem, Bath, Avon, England

[29] Univ Hosp Basel, Lab Med, Clin Virol, Basel, Switzerland

[30] Univ Basel, Dept Biomed, Transplantat & Clin Virol, Basel, Switzerland

[31] Univ Oxford, Nuffield Dept Med, Oxford, England

[32] Friedrich Loeffler Inst, Fed Res Inst Anim Hlth, Greifswald, Insel Riems, Germany

[33] Leiden Univ, Dept Med Microbiol, Med Ctr, Leiden, Netherlands

[34] Univ Valencia, Fac Med, Dept Microbiol & Ecol, Valencia, Spain

[35] Rega Inst, Lab Klin Epidemiol Virol, Leuven, Belgium

[36] Med Univ Vienna, Ctr Virol, Vienna, Austria

来源：

JOURNAL OF CLINICAL VIROLOGY | 2021年 / 134卷

关键词：

Viral metagenomics; High-throughput sequencing; Next-generation sequencing; Wet lab; Recommendations; INFLUENZA-A VIRUS; EFFICIENT TRANSLATION; PATHOGEN DETECTION; MESSENGER-RNA; DNA; VALIDATION; DIAGNOSIS; DEPLETION;

D O I：

10.1016/j.jcv.2020.104691

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

Metagenomic high-throughput sequencing (mHTS) is a hypothesis-free, universal pathogen detection technique for determination of the DNA/RNA sequences in a variety of sample types and infectious syndromes. mHTS is still in its early stages of translating into clinical application. To support the development, implementation and standardization of mHTS procedures for virus diagnostics, the European Society for Clinical Virology (ESCV) Network on Next-Generation Sequencing (ENNGS) has been established. The aim of ENNGS is to bring together professionals involved in mHTS for viral diagnostics to share methodologies and experiences, and to develop application recommendations. This manuscript aims to provide practical recommendations for the wet lab procedures necessary for implementation of mHTS for virus diagnostics and to give recommendations for development and validation of laboratory methods, including mHTS quality assurance, control and quality assessment protocols.

引用

页数：8

共 39 条

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