There are four Ebolaviruses which cause the most severe disease in humans: Ebola virus (EBOV), Bundibugyo virus (BDBV), Sudan virus (SUDV) and Taï Forest virus (TAFV). The average case fatality rate is around 50% and has been reported to be as high as 90%. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.Ĭompeting interests: The authors have declared that no competing interests exist.įiloviruses are emerging pathogens that cause acute fever with high fatality rate and present a public health threat that impacts far outside the immediate area of an outbreak. threats/medical-countermeasures-initiative-mcmi. Funding for this research was partially provided by the FDA Medical Countermeasures Initiative (MCMi). The raw reads and the assembled consensus sequence are also available at ArrayExpress under the accession number E-MTAB-10157.įunding: Irina Tiper and Moussa Kourout were supported in part by an appointment to the Oak Ridge Institute for Science and Education (ORISE) Research Fellowship Program at the Center for Biologics Evaluation and Research administered by the ORISE through an interagency agreement between the U.S. The Round 3 RNA sample was also submitted to Illumina HiSeq NGS and the EBOV glycoprotein assembled for comparison with the RMA result. The raw reads and the assembled consensus sequence are available at ArrayExpress ( ) with the accession number E-MTAB-10157. The initial stock RNA was also subject to Illumina next generation sequencing for comparison to the Ebolavirus-RMA consensus sequence. The details of microarray results including the image file (CEL files), base-calling file (CHP) and the final called base sequence (txt files) of each microarray are available at ArrayExpress ( ) under the accession number E-MTAB-10008 for the resequencing of the Ebola glycoprotein gene inserted into Vesicular Stomatitis Virus. The raw Illumina NGS reads and the assembled consensus sequence are available at ArrayExpress ( ) with the accession number E-MTAB-10102. The details of microarray results including the image file (CEL files), base-calling file (CHP) and the final called base sequence (txt files) of each microarray are available at ArrayExpress ( ) under the accession number E-MTAB-10007 for the Ebola genome resequencing. The work is made available under the Creative Commons CC0 public domain dedication.ĭata Availability: The complete description of the microarray is available at ArrayExpress ( ) with the accession number A-MTAB-670. This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. Received: JAccepted: JanuPublished: February 10, 2022 PLoS ONE 17(2):Įditor: Jishnu Das, University of Pittsburgh, UNITED STATES (2022) Tracking ebolavirus genomic drift with a resequencing microarray. Comparison of the Ebolavirus-RMA results to the Genbank database sequence file with the accession number given for the source RNA and Ebolavirus-RMA results compared to Next Generation Sequence results of the same RNA samples showed up to 99% agreement.Ĭitation: Tiper I, Kourout M, Fisher C, Konduru K, Purkayastha A, Kaplan G, et al. The ability of the system to identify genetic drift in a replicating virus was achieved by sequencing the ebolavirus glycoprotein gene in a recombinant virus cultured under pressure from a neutralizing antibody. The design of the Ebolavirus-RMA system is described and evaluated by sequencing repository samples of three Ebolaviruses and two EBOV variants. This study presents the design and initial evaluation of an ebolavirus resequencing microarray (Ebolavirus-RMA) system for sequencing the major genomic regions of four Ebolaviruses that cause disease in humans. Resequencing microarrays (RMA) are a targeted method to obtain genomic sequence on clinical specimens rapidly, and sensitively, overcoming the need for extensive bioinformatic analysis. However, field-deployable sequencing methods are needed to enable a rapid public health response. In 2018, early sequence identification of the Ebolavirus as EBOV in the Democratic Republic of the Congo supported the use of an Ebola virus vaccine. During the 2013–2016 Ebola virus outbreak, genome sequencing allowed the study of virus evolution, mutations affecting pathogenicity and infectivity, and tracing the viral spread. Filoviruses are emerging pathogens that cause acute fever with high fatality rate and present a global public health threat.
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