Filovirus RefSeq Entries: Evaluation and Selection of Filovirus Type Variants, Type Sequences, and Names

Jens H. Kuhn; Kristian G. Andersen; Yiming Bao; Sina Bavari; Stephan Becker; Richard S. Bennett; Nicholas H. Bergman; Olga Blinkova; Steven Bradfute; J. Rodney Brister; Alexander Bukreyev; Kartik Chandran; Alexander A. Chepurnov; Robert A. Davey; Ralf G. Dietzgen; Norman A. Doggett; Olga Dolnik; John M. Dye; Sven Enterlein; Paul W. Fenimore; Pierre Formenty; Alexander N. Freiberg; Robert F. Garry; Nicole L. Garza; Stephen K. Gire; Jean-Paul Gonzalez; Anthony Griffiths; Christian T. Happi; Lisa E. Hensley; Andrew S. Herbert; Michael C. Hevey; Thomas Hoenen; Anna N. Honko; Georgy M. Ignatyev; Peter B. Jahrling; Joshua C. Johnson; Karl M. Johnson; Jason Kindrachuk; Hans-Dieter Klenk; Gary Kobinger; Tadeusz J. Kochel; Matthew G. Lackemeyer; Daniel F. Lackner; Eric M. Leroy; Mark S. Lever; Elke Muehlberger; Sergey V. Netesov; Gene G. Olinger; Sunday A. Omilabu; Gustavo Palacios; Rekha G. Panchal; Daniel J. Park; Jean L. Patterson; Janusz T. Paweska; Clarence J. Peters; James Pettitt; Louise Pitt; Sheli R. Radoshitzky; Elena I. Ryabchikova; Erica Ollmann Saphire; Pardis C. Sabeti; Rachel Sealfon; Aleksandr M. Shestopalov; Sophie J. Smither; Nancy J. Sullivan; Robert Swanepoel; Ayato Takada; Jonathan S. Towner; Guido van der Groen; Viktor E. Volchkov; Valentina A. Volchkova; Victoria Wahl-Jensen; Travis K. Warren; Kelly L. Warfield; Manfred Weidmann; Stuart T. Nichol; Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)

doi:10.3390/v6093663

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Filovirus RefSeq Entries: Evaluation and Selection of Filovirus Type Variants, Type Sequences, and Names

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Filovirus RefSeq Entries: Evaluation and Selection of Filovirus Type Variants, Type Sequences, and Names

Jens H. Kuhn, Kristian G. Andersen, Yiming Bao, Sina Bavari, Stephan Becker, Richard S. Bennett, Nicholas H. Bergman, Olga Blinkova, Steven Bradfute, J. Rodney Brister, …

Viruses, Vol.6(9), pp.3663-3682

26/09/2014

DOI: https://doi.org/10.3390/v6093663

PMID: 25256396

Résumé

Life Sciences & Biomedicine

Science & Technology

Virology

Sequence determination of complete or coding-complete genomes of viruses is becoming common practice for supporting the work of epidemiologists, ecologists, virologists, and taxonomists. Sequencing duration and costs are rapidly decreasing, sequencing hardware is under modification for use by non-experts, and software is constantly being improved to simplify sequence data management and analysis. Thus, analysis of virus disease outbreaks on the molecular level is now feasible, including characterization of the evolution of individual virus populations in single patients over time. The increasing accumulation of sequencing data creates a management problem for the curators of commonly used sequence databases and an entry retrieval problem for end users. Therefore, utilizing the data to their fullest potential will require setting nomenclature and annotation standards for virus isolates and associated genomic sequences. The National Center for Biotechnology Information's (NCBI's) RefSeq is a non-redundant, curated database for reference (or type) nucleotide sequence records that supplies source data to numerous other databases. Building on recently proposed templates for filovirus variant naming [<virus name> ()/<isolation host-suffix>/<country of sampling>/<year of sampling>/<genetic variant designation>-<isolate designation>], we report consensus decisions from a majority of past and currently active filovirus experts on the eight filovirus type variants and isolates to be represented in RefSeq, their final designations, and their associated sequences.

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Détails

Titre: Filovirus RefSeq Entries: Evaluation and Selection of Filovirus Type Variants, Type Sequences, and Names
Créateurs - sans rôle: Jens H. Kuhn - NIAID, Integrated Res Facil Ft Detrick, NIH, Frederick, MD 21702 USA
Kristian G. Andersen - Harvard University
Yiming Bao - Natl Lib Med, Informat Engn Branch, Natl Ctr Biotechnol Informat, NIH, Bethesda, MD 20894 USA
Sina Bavari - College Station Medical Center
Stephan Becker - Univ Marburg, Inst Virol, D-35043 Marburg, Germany
Richard S. Bennett - Natl Biodef Anal & Countermeasures Ctr, Frederick, MD 21702 USA
Nicholas H. Bergman - Natl Biodef Anal & Countermeasures Ctr, Frederick, MD 21702 USA
Olga Blinkova - Natl Lib Med, Informat Engn Branch, Natl Ctr Biotechnol Informat, NIH, Bethesda, MD 20894 USA
Steven Bradfute - University of New Mexico
J. Rodney Brister - College Station Medical Center
Alexander Bukreyev - College Station Medical Center
Kartik Chandran - Albert Einstein College of Medicine
Alexander A. Chepurnov - Russian Acad Sci, Siberian Branch, Inst Clin Immunol, Novosibirsk 630091, Novosibirsk Obl, Russia
Robert A. Davey - Texas Biomed Res Inst, Dept Virol & Immunol, San Antonio, TX 78227 USA
Ralf G. Dietzgen - The University of Queensland
Norman A. Doggett - Los Alamos Natl Lab, Los Alamos, NM 87545 USA
Olga Dolnik - Univ Marburg, Inst Virol, D-35043 Marburg, Germany
John M. Dye - US Army, Med Res Inst Infect Dis, Frederick, MD 21702 USA
Sven Enterlein - Integrated BioTherapeut Inc, Gaithersburg, MD 20878 USA
Paul W. Fenimore - Los Alamos Natl Lab, Los Alamos, NM 87545 USA
Pierre Formenty - WHO, CH-1211 Geneva, Switzerland
Alexander N. Freiberg - Univ Texas Med Branch, Dept Pathol, Galveston, TX 77555 USA
Robert F. Garry - Tulane Univ, Sch Med, Dept Microbiol & Immunol, New Orleans, LA 70112 USA
Nicole L. Garza - US Army, Med Res Inst Infect Dis, Frederick, MD 21702 USA
Stephen K. Gire - Harvard Univ, FAS Ctr Syst Biol, Cambridge, MA 02138 USA
Jean-Paul Gonzalez - Metabiota Inc, San Francisco, CA 94104 USA
Anthony Griffiths - Texas Biomedical Research Institute
Christian T. Happi - Redeemers Univ, Dept Biol Sci, Coll Nat Sci, Lagos, Ogun State, Nigeria
Lisa E. Hensley - NIAID, Integrated Res Facil Ft Detrick, NIH, Frederick, MD 21702 USA
Andrew S. Herbert - US Army, Med Res Inst Infect Dis, Frederick, MD 21702 USA
Michael C. Hevey - Natl Biodef Anal & Countermeasures Ctr, Frederick, MD 21702 USA
Thomas Hoenen - NIAID, Virol Lab, Div Intramural Res, NIH, Hamilton, MT 59840 USA
Anna N. Honko - NIAID, Integrated Res Facil Ft Detrick, NIH, Frederick, MD 21702 USA
Georgy M. Ignatyev - Minist Hlth Russian Federat, Microgen Sci Ind Co Immunobiol Med, Fed State Unitary Co, Moscow 115088, Russia
Peter B. Jahrling - NIAID, Integrated Res Facil Ft Detrick, NIH, Frederick, MD 21702 USA
Joshua C. Johnson - NIAID, Integrated Res Facil Ft Detrick, NIH, Frederick, MD 21702 USA
Karl M. Johnson
Jason Kindrachuk - NIAID, Integrated Res Facil Ft Detrick, NIH, Frederick, MD 21702 USA
Hans-Dieter Klenk - Univ Marburg, Inst Virol, D-35043 Marburg, Germany
Gary Kobinger - Publ Hlth Agcy Canada, Natl Microbiol Lab, Special Pathogens Program, Winnipeg, MB R3E 3R2, Canada
Tadeusz J. Kochel - Natl Biodef Anal & Countermeasures Ctr, Frederick, MD 21702 USA
Matthew G. Lackemeyer - NIAID, Integrated Res Facil Ft Detrick, NIH, Frederick, MD 21702 USA
Daniel F. Lackner - Natl Biodef Anal & Countermeasures Ctr, Frederick, MD 21702 USA
Eric M. Leroy - Ctr Int Rech Med Franceville, Franceville, Gabon
Mark S. Lever - Dstl, Dept Biomed Sci, Salisbury SP4 0JQ, Wilts, England
Elke Muehlberger - Boston Univ, Sch Med, Dept Microbiol, Boston, MA 02118 USA
Sergey V. Netesov - Novosibirsk State Univ, Novosibirsk 630090, Novosibirsk Reg, Russia
Gene G. Olinger - NIAID, Integrated Res Facil Ft Detrick, NIH, Frederick, MD 21702 USA
Sunday A. Omilabu - Univ Lagos, Coll Med, Dept Med Microbiol & Parasitol, Lagos, Nigeria
Gustavo Palacios - US Army, Med Res Inst Infect Dis, Frederick, MD 21702 USA
Rekha G. Panchal - US Army, Med Res Inst Infect Dis, Frederick, MD 21702 USA
Daniel J. Park - Broad Inst, Cambridge, MA 02142 USA
Jean L. Patterson - Texas Biomed Res Inst, Dept Virol & Immunol, San Antonio, TX 78227 USA
Janusz T. Paweska - Natl Hlth Lab Serv, Ctr Emerging & Zoonot Dis, Natl Inst Communicable Dis, ZA-2192 Sandringham Johannesburg, Gauteng, South Africa
Clarence J. Peters - Univ Texas Med Branch, Dept Pathol, Galveston, TX 77555 USA
James Pettitt - NIAID, Integrated Res Facil Ft Detrick, NIH, Frederick, MD 21702 USA
Louise Pitt - US Army, Med Res Inst Infect Dis, Frederick, MD 21702 USA
Sheli R. Radoshitzky - College Station Medical Center
Elena I. Ryabchikova - Russian Acad Sci, Siberian Branch, Inst Chem Biol & Fundamental Med, Novosibirsk 630090, Novosibirsk Reg, Russia
Erica Ollmann Saphire - Scripps Res Inst, Dept Immunol & Microbial Sci, La Jolla, CA 92037 USA
Pardis C. Sabeti - Harvard University
Rachel Sealfon - MIT, Cambridge, MA 02139 USA
Aleksandr M. Shestopalov - Novosibirsk State Univ, Novosibirsk 630090, Novosibirsk Reg, Russia
Sophie J. Smither - Dstl, Dept Biomed Sci, Salisbury SP4 0JQ, Wilts, England
Nancy J. Sullivan - NIAID, Vaccine Res Ctr, NIH, Bethesda, MD 20892 USA
Robert Swanepoel - Univ Pretoria, Zoonoses Res Unit, ZA-0028 Pretoria, South Africa
Ayato Takada - Hokkaido University
Jonathan S. Towner - Ctr Dis Control & Prevent, Viral Special Pathogens Branch, Div High Consequence Pathogens Pathol, Natl Ctr Emerging & Zoonot Infect Dis, Atlanta, GA 30333 USA
Guido van der Groen - Prins Leopold Inst Trop Geneeskunde, B-2000 Antwerp, Belgium
Viktor E. Volchkov - Univ Lyon 1, INSERM, U1111, Lab Mol Basis Viral Pathogen,CIRI,Ecole Normale S, F-69365 Lyon 07, France
Valentina A. Volchkova - Centre International de Recherche en Infectiologie
Victoria Wahl-Jensen - Natl Biodef Anal & Countermeasures Ctr, Frederick, MD 21702 USA
Travis K. Warren - US Army, Med Res Inst Infect Dis, Frederick, MD 21702 USA
Kelly L. Warfield - Unither Virol LLC, Silver Spring, MD 20910 USA
Manfred Weidmann - Univ Stirling, Inst Aquaculture, Stirling FK9 4LA, Scotland
Stuart T. Nichol - Ctr Dis Control & Prevent, Viral Special Pathogens Branch, Div High Consequence Pathogens Pathol, Natl Ctr Emerging & Zoonot Infect Dis, Atlanta, GA 30333 USA
Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)
Détails de publication: Viruses, Vol.6(9), pp.3663-3682
Éditeur: MDPI AG
Nombre de pages: 20
Note de subvention: 25115501 / Grants-in-Aid for Scientific Research; Ministry of Education, Culture, Sports, Science and Technology, Japan (MEXT); Japan Society for the Promotion of Science; Grants-in-Aid for Scientific Research (KAKENHI)
Identifiants: 99147912809311
Unité académique: Maladies Infectieuses et Vecteurs : Ecologie, Génétique, Evolution et Contrôle - MIVEGEC; Recherches translationnelles sur le VIH et les Maladies Infect. Endém. émerg. - TransVIHMI
Langue: English
Type de ressource: Journal article