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bootscan program  (Simplot Science)

 
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    Simplot Science bootscan program
    Recombination and phylogenetic analysis of megriviruses from bar-headed geese. (A) <t>BOOTSCAN</t> evidence for the recombination origin on the basis of pairwise distance, modeled with a window size 200, step size 20, and 100 Bootstrap replicates. (B) Neighbor-joining tree constructed using the region of 1–5,133 nt and 8,105–10,644 nt. (C) Neighbor-joining tree constructed using the region of 5,134–8,104 nt. Neighbor-joining method based on 1,000 replicates using MEGA-X software.
    Bootscan Program, supplied by Simplot Science, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/bootscan program/product/Simplot Science
    Average 90 stars, based on 1 article reviews
    bootscan program - by Bioz Stars, 2026-03
    90/100 stars

    Images

    1) Product Images from "Identification and characterization of multiple novel picornaviruses in fecal samples of bar-headed goose"

    Article Title: Identification and characterization of multiple novel picornaviruses in fecal samples of bar-headed goose

    Journal: Frontiers in Microbiology

    doi: 10.3389/fmicb.2024.1440801

    Recombination and phylogenetic analysis of megriviruses from bar-headed geese. (A) BOOTSCAN evidence for the recombination origin on the basis of pairwise distance, modeled with a window size 200, step size 20, and 100 Bootstrap replicates. (B) Neighbor-joining tree constructed using the region of 1–5,133 nt and 8,105–10,644 nt. (C) Neighbor-joining tree constructed using the region of 5,134–8,104 nt. Neighbor-joining method based on 1,000 replicates using MEGA-X software.
    Figure Legend Snippet: Recombination and phylogenetic analysis of megriviruses from bar-headed geese. (A) BOOTSCAN evidence for the recombination origin on the basis of pairwise distance, modeled with a window size 200, step size 20, and 100 Bootstrap replicates. (B) Neighbor-joining tree constructed using the region of 1–5,133 nt and 8,105–10,644 nt. (C) Neighbor-joining tree constructed using the region of 5,134–8,104 nt. Neighbor-joining method based on 1,000 replicates using MEGA-X software.

    Techniques Used: Construct, Software



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    Recombination and phylogenetic analysis of megriviruses from bar-headed geese. (A) <t>BOOTSCAN</t> evidence for the recombination origin on the basis of pairwise distance, modeled with a window size 200, step size 20, and 100 Bootstrap replicates. (B) Neighbor-joining tree constructed using the region of 1–5,133 nt and 8,105–10,644 nt. (C) Neighbor-joining tree constructed using the region of 5,134–8,104 nt. Neighbor-joining method based on 1,000 replicates using MEGA-X software.
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    <t>Bootscan</t> analysis of recombinant CAstV sequences for confirming recombination was performed using Simplot program v3.5.1. Each analysis considers different parent sequences (different colors) plotted in a graph considering in the vertical-axis Percentage of permuted trees, and on the horizontal axis, position on the genome of the query sequence. Recombinant CAstV query sequences are 19-0981/CA-SK/19 ; Biii-ANAND/IN/2016 ; Bi-GDYHTJ718-6/CN/2018 ; 18-0942/CA-SK/18 ; 19-0935/CA-SK/19 ; CC_CkAstV/US/2014 ; and Bii-GA2011/US/2011 .
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    Image Search Results


    Recombination and phylogenetic analysis of megriviruses from bar-headed geese. (A) BOOTSCAN evidence for the recombination origin on the basis of pairwise distance, modeled with a window size 200, step size 20, and 100 Bootstrap replicates. (B) Neighbor-joining tree constructed using the region of 1–5,133 nt and 8,105–10,644 nt. (C) Neighbor-joining tree constructed using the region of 5,134–8,104 nt. Neighbor-joining method based on 1,000 replicates using MEGA-X software.

    Journal: Frontiers in Microbiology

    Article Title: Identification and characterization of multiple novel picornaviruses in fecal samples of bar-headed goose

    doi: 10.3389/fmicb.2024.1440801

    Figure Lengend Snippet: Recombination and phylogenetic analysis of megriviruses from bar-headed geese. (A) BOOTSCAN evidence for the recombination origin on the basis of pairwise distance, modeled with a window size 200, step size 20, and 100 Bootstrap replicates. (B) Neighbor-joining tree constructed using the region of 1–5,133 nt and 8,105–10,644 nt. (C) Neighbor-joining tree constructed using the region of 5,134–8,104 nt. Neighbor-joining method based on 1,000 replicates using MEGA-X software.

    Article Snippet: Further recombinant analysis is performed using the BootScan program in the SimPlot software v3.5.1.

    Techniques: Construct, Software

    Bootscan analysis of recombinant CAstV sequences for confirming recombination was performed using Simplot program v3.5.1. Each analysis considers different parent sequences (different colors) plotted in a graph considering in the vertical-axis Percentage of permuted trees, and on the horizontal axis, position on the genome of the query sequence. Recombinant CAstV query sequences are 19-0981/CA-SK/19 ; Biii-ANAND/IN/2016 ; Bi-GDYHTJ718-6/CN/2018 ; 18-0942/CA-SK/18 ; 19-0935/CA-SK/19 ; CC_CkAstV/US/2014 ; and Bii-GA2011/US/2011 .

    Journal: Viruses

    Article Title: Chicken Astrovirus (CAstV) Molecular Studies Reveal Evidence of Multiple Past Recombination Events in Sequences Originated from Clinical Samples of White Chick Syndrome (WCS) in Western Canada

    doi: 10.3390/v12101096

    Figure Lengend Snippet: Bootscan analysis of recombinant CAstV sequences for confirming recombination was performed using Simplot program v3.5.1. Each analysis considers different parent sequences (different colors) plotted in a graph considering in the vertical-axis Percentage of permuted trees, and on the horizontal axis, position on the genome of the query sequence. Recombinant CAstV query sequences are 19-0981/CA-SK/19 ; Biii-ANAND/IN/2016 ; Bi-GDYHTJ718-6/CN/2018 ; 18-0942/CA-SK/18 ; 19-0935/CA-SK/19 ; CC_CkAstV/US/2014 ; and Bii-GA2011/US/2011 .

    Article Snippet: Putative recombination sequences were further investigated by using Bootscan analysis within the Simplot program version 3.5.1 [ ], using the following parameters: window size = 400 bp; step size = 40 bp; GapStrip = On; Repetitions = 100; Kimura 2-parameter substitution model; T/t = 2; and using the neighbor-joining method [ , , ].

    Techniques: Recombinant, Sequencing

    CAstV recombinant sequences and parents/parent-like sequences detected by 6 recombination methods in RDP5, ML phylogenetic trees, and Bootscan analysis in SimPlot software.

    Journal: Viruses

    Article Title: Chicken Astrovirus (CAstV) Molecular Studies Reveal Evidence of Multiple Past Recombination Events in Sequences Originated from Clinical Samples of White Chick Syndrome (WCS) in Western Canada

    doi: 10.3390/v12101096

    Figure Lengend Snippet: CAstV recombinant sequences and parents/parent-like sequences detected by 6 recombination methods in RDP5, ML phylogenetic trees, and Bootscan analysis in SimPlot software.

    Article Snippet: Putative recombination sequences were further investigated by using Bootscan analysis within the Simplot program version 3.5.1 [ ], using the following parameters: window size = 400 bp; step size = 40 bp; GapStrip = On; Repetitions = 100; Kimura 2-parameter substitution model; T/t = 2; and using the neighbor-joining method [ , , ].

    Techniques: Recombinant, Software, Sequencing