Selected article for: "amino acid and phylogenetic reference"
Author: Sara Cleemput; Wim Dumon; Vagner Fonseca; Wasim Abdool Karim; Marta Giovanetti; Luiz Carlos Alcantara; Koen Deforche; Tulio de Oliveira
Title: Genome Detective Coronavirus Typing Tool for rapid identification and characterization of novel coronavirus genomes
  • Document date: 2020_2_2
    • ID: gxstlzuk_6
    Snippet: Our Coronavirus Typing Tool also allows a query sequence to be analysed against a sequence in the phylogenetic reference dataset. For example, the WH_Human1_China_2019Dec (GenBank: MN908947) the identity was 87.5% to the Bat sequence bat_SL_CoVZXC21 (Genbank: MG772934). This was one of the Bat-CoV sequences that were most related to n2019-CoV . The Envelop Small Membrane Protein (protein E) was 100% identical (Supplementary Table 4B ). When the.....
    Document: Our Coronavirus Typing Tool also allows a query sequence to be analysed against a sequence in the phylogenetic reference dataset. For example, the WH_Human1_China_2019Dec (GenBank: MN908947) the identity was 87.5% to the Bat sequence bat_SL_CoVZXC21 (Genbank: MG772934). This was one of the Bat-CoV sequences that were most related to n2019-CoV . The Envelop Small Membrane Protein (protein E) was 100% identical (Supplementary Table 4B ). When the 2019-nCoV isolated from France (BetaCoV/France/IDF0373/2020) was analysed with our tool and compared with the 2019-nCOv WH_Human1_China_2019Dec strain (Accession: MN908947), this sequence was 99.9% identical and had only two NT mutations (Supplementary Table 4C ). These two differences were located on positions: 22551G>T & 26016G>T), which caused three amino acid mutations (E2 glycoprotein Protein mutation: V354F (22551G>T) , sars3a protein mutations: G250V (26016G>T) and sars3b protein mutations: V110F (26016G>T)) (Detailed in Supplementary Table 4C -II). The analysis of a WGS in FASTA format takes approximately 60 seconds.

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