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ultrafast bootstrap ufboot approximation  (Hasegawa Co Ltd)

 
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    Hasegawa Co Ltd ultrafast bootstrap ufboot approximation
    Ultrafast Bootstrap Ufboot Approximation, supplied by Hasegawa Co Ltd, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/bootstrap/bootstrap+ultrafast/pm41820868-70-17-6
    Average 86 stars, based on 1 article reviews
    ultrafast bootstrap ufboot approximation - by Bioz Stars, 2026-09
    86/100 stars

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    Article Title: Isolation of rhizobia from Ontario soils that are effective at fixing nitrogen with common bean ( Phaseolus vulgaris )
    Article Snippet: Branch support was assessed using the Shimodaira–Hasegawa-like approximate likelihood ratio test (SH-aLRT) and ultrafast bootstrap analysis, with both metrics calculated from 1,000 replicates.

    Article Title: The Florida Peninsula as an Engine of Estuarine Evolution: Insights From <i>Gammarus daiberi</i> Bousfield, 1969 (Crustacea: Amphipoda)
    Article Snippet: Statistical support was estimated using 1000 ultrafast bootstrap replicates (Minh et al. 2013) and the Shimodaira–Hasegawa approximate likelihood ratio test (Shimodaira and Hasegawa 1999; Guindon et al. 2010).

    Article Title: Intra-Host Evolution of SARS-CoV-2 During Persistent Infection of Pediatric COVID-19 Patients.
    Article Snippet: We assessed the support of the clusters formed by the different lineages both with the Shimodaira–Hasegawa approximate likelihood-ratio test (SH-aLRT) and with ultrafast bootstrap (UFboot) with 1000 replicates each.

    Article Title: Petrodesmum, a new genus of the legume tribe Desmodieae from Laos.
    Article Snippet: Branch support was assessed using the Shimodaira–Hasegawa approximate likelihood ratio test (SH-aLRT) with 1,000 replicates and the ultrafast bootstrap (UFboot) approximation with 1,000 replicates, with parameters set at “-alrt 1000 -bb 1000.” Clades with SH-aLRT ≥ 80% and UFboot ≥ 95% were considered well-supported.

    Article Title: Redescriptions have consequences: biogeographic and conservation insights from the redescription of a widespread freshwater amphipod (Amphipoda, Gammaridae)
    Article Snippet: Statistical support was estimated using 1,000 ultrafast bootstrap replicates (Minh et al. 2013) and the Shimodaira–Hasegawa approximate likelihood ratio test (Shimodaira and Hasegawa 1999; Guindon et al. 2010).

    Article Title: A taxonomic sudoku: Resolving the long-standing puzzle of Japanese Dictyoteae (Dictyotales, Phaeophyceae) with new records and biogeographic insights.
    Article Snippet: Branch support was assessed using the Shimodaira–Hasegawa approximate likelihood ratio test (SH- aLRT) and ultrafast bootstrap with 1000 replicates (Hoang et al., 2018).

    Article Title: Morphological and molecular evidence support the inclusion of Mycetia hainanensis in Mouretia ( Rubiaceae )
    Article Snippet: Branch support was assessed using the Shimodaira–Hasegawa approximate likelihood ratio test ( SH-aLRT ) and ultrafast bootstrap ( UFBoot ), each with 1,000 replicates.

    Article Title: Intra-Host Evolution of SARS-CoV-2 During Persistent Infection of Pediatric COVID-19 Patients
    Article Snippet: We assessed the support of the clusters formed by the different lineages both with the Shimodaira–Hasegawa approximate likelihood-ratio test (SH-aLRT) and with ultrafast bootstrap (UFboot) with 1000 replicates each.



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    Phylogenetic analysis of Hepacivirus bovis (BovHepV). The complete BovHepV genome sequences were aligned using MAFFT. Subsequently, a maximum likelihood analysis was performed using the maximum likelihood method and <t>the</t> <t>Tamura–Nei</t> model, including <t>1000</t> bootstrap replicates (Geneious v.11.1.5 software package (Biomatters, New Zealand)). The scale indicates the nucleotide substitutions per site. The BovHepV strains analyzed in this study are marked with a black square. The viruses are labeled with their accession number, virus ID, and country of origin. The genome of the hepatitis GB virus was used as an outgroup. The corresponding genotypes and subtypes were defined on the basis of a previous publication .
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    Phylogenetic analysis of Hepacivirus bovis (BovHepV). The complete BovHepV genome sequences were aligned using MAFFT. Subsequently, a maximum likelihood analysis was performed using the maximum likelihood method and the Tamura–Nei model, including 1000 bootstrap replicates (Geneious v.11.1.5 software package (Biomatters, New Zealand)). The scale indicates the nucleotide substitutions per site. The BovHepV strains analyzed in this study are marked with a black square. The viruses are labeled with their accession number, virus ID, and country of origin. The genome of the hepatitis GB virus was used as an outgroup. The corresponding genotypes and subtypes were defined on the basis of a previous publication .

    Journal: Viruses

    Article Title: Identification and Long-Term Detection of Hepacivirus bovis Genotype 1 and 2 on a Cattle Farm in Germany

    doi: 10.3390/v18010078

    Figure Lengend Snippet: Phylogenetic analysis of Hepacivirus bovis (BovHepV). The complete BovHepV genome sequences were aligned using MAFFT. Subsequently, a maximum likelihood analysis was performed using the maximum likelihood method and the Tamura–Nei model, including 1000 bootstrap replicates (Geneious v.11.1.5 software package (Biomatters, New Zealand)). The scale indicates the nucleotide substitutions per site. The BovHepV strains analyzed in this study are marked with a black square. The viruses are labeled with their accession number, virus ID, and country of origin. The genome of the hepatitis GB virus was used as an outgroup. The corresponding genotypes and subtypes were defined on the basis of a previous publication .

    Article Snippet: A maximum likelihood analysis was subsequently performed using the maximum likelihood method and the Tamura–Nei model, including 1000 bootstrap replicates (Geneious v.11.1.5 software package (Biomatters, New Zealand)).

    Techniques: Software, Labeling, Virus

    Phylogenetic analysis of 55 partial BovHepV-1 sequences of the NS3 gene from the years 2020–2022. The partial BovHepV genome sequences were aligned using MAFFT. Subsequently, a maximum likelihood analysis was performed using the maximum likelihood method and the Tamura–Nei model, including 1000 bootstrap replicates. The scale indicates the nucleotide substitutions per site. The viruses are labeled with their accession number, cattle ID, sampling date, and sample ID. The table on the right summarizes several key observations: (I) different cattle carry genetically identical virus, (II) identical viruses persist for months or years in the same animal, (III) reinfections with novel BovHepV variants, either with alternative subtypes or genetically distinct strains within the same subtype, are possible. The letter–number combination continuously identifies the corresponding animals/samples in a subgroup. Examples of how to interpret the table in the figure are as follows: Column I: The four cattle in subgroup A (A1, A2, A3, and A4) all carry a virus with the identical NS3 gene sequence. Column II: In cattle R885, the identical virus sequence was found in four samples taken between October 2020 and 22 October (M1 to M4 in column II). The accession numbers and sample IDs are also summarized in .

    Journal: Viruses

    Article Title: Identification and Long-Term Detection of Hepacivirus bovis Genotype 1 and 2 on a Cattle Farm in Germany

    doi: 10.3390/v18010078

    Figure Lengend Snippet: Phylogenetic analysis of 55 partial BovHepV-1 sequences of the NS3 gene from the years 2020–2022. The partial BovHepV genome sequences were aligned using MAFFT. Subsequently, a maximum likelihood analysis was performed using the maximum likelihood method and the Tamura–Nei model, including 1000 bootstrap replicates. The scale indicates the nucleotide substitutions per site. The viruses are labeled with their accession number, cattle ID, sampling date, and sample ID. The table on the right summarizes several key observations: (I) different cattle carry genetically identical virus, (II) identical viruses persist for months or years in the same animal, (III) reinfections with novel BovHepV variants, either with alternative subtypes or genetically distinct strains within the same subtype, are possible. The letter–number combination continuously identifies the corresponding animals/samples in a subgroup. Examples of how to interpret the table in the figure are as follows: Column I: The four cattle in subgroup A (A1, A2, A3, and A4) all carry a virus with the identical NS3 gene sequence. Column II: In cattle R885, the identical virus sequence was found in four samples taken between October 2020 and 22 October (M1 to M4 in column II). The accession numbers and sample IDs are also summarized in .

    Article Snippet: A maximum likelihood analysis was subsequently performed using the maximum likelihood method and the Tamura–Nei model, including 1000 bootstrap replicates (Geneious v.11.1.5 software package (Biomatters, New Zealand)).

    Techniques: Labeling, Sampling, Virus, Sequencing