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Sinauer Associates Inc paup v.4.0
Paup V.4.0, supplied by Sinauer Associates Inc, 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/product/paup+4%2E0/paup++4+0b10/pmc12073612-249-16-18
Average 90 stars, based on 1 article reviews
paup v.4.0 - by Bioz Stars, 2026-09
90/100 stars

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Article Title: Predicting the Geographic Distribution of the Bacillus anthracis A1.a/Western North American Sub-Lineage for the Continental United States: New Outbreaks, New Genotypes, and New Climate Data
Article Snippet: Matrix distances were calculated in PAUP 4.0 (Sinauer Associates, Inc., Sunderland, MA) and imported into MEGA 5 42 to build phylogenetic trees based on MLVA-25.

Article Title: The necrophagous fly anthrax transmission pathway: empirical and genetic evidence from wildlife epizootics.
Article Snippet: Early studies confirmed Bacillus anthracis in emesis and feces of flies under laboratory conditions, but there is little empirical field evidence supporting the roles of flies in anthrax transmission.. We collected samples during outbreaks of anthrax affecting livestock and native and exotic wildlife on two ranches in West Texas (2009– 2010).. Sampling included animal carcasses, maggots, adult flies feeding on or within several meters of carcasses, and leaves from surrounding vegetation.

Article Title: Evaluation of infectivity of a canine lineage H3N8 influenza A virus in ponies and in primary equine respiratory epithelial cells.
Article Snippet: 1071 I with EIV have remained a serious health and economic problem in horses throughout the world.. The immune response induced by infection with an influenza virus protects against reinfection with the same or an antigenically similar virus strain.. However, influenza viruses undergo frequent antigenic changes (antigenic drift); thus, protection provided by the host’s immunity may be reduced as the virus becomes more antigenically distinct.

Article Title: Genetic variation among Flavobacterium psychrophilum isolates from wild and farmed salmonids in Norway and Chile.
Article Snippet: The data matrix was exported as a nexus file into PAUP 4.0 (Swofford, D. L. 2003, PAUP* (Phylogenetic Analysis Using Parsimony* and Other Methods), version 4; Sinauer Associates, Sunderland, Massachusetts) where a dendrogram was constructed using the neighbour-joining (NJ) distance method.

Article Title: Spatio-temporal patterns of an anthrax outbreak in white-tailed deer, Odocoileus virginanus, and associated genetic diversity of Bacillus anthracis
Article Snippet: Matrix distances were calculated in PAUP 4.0 (Sinauer Associates, Inc., Sunderland, MA, USA) and imported into MEGA 5 [ ] in order to build phylogenetic trees based on MLVA-25.

Article Title: Fatal Cases of Influenza A(H3N2) in Children: Insights from Whole Genome Sequence Analysis
Article Snippet: Maximum Likelihood (ML) phylogenetic trees of each gene segment were inferred using the PAUP 4.0 package (Swofford DL; Sinauer Associates).

Article Title: Regulation of anthocyanin and proanthocyanidin biosynthesis by Medicago truncatula bHLH transcription factor MtTT8.
Article Snippet: The MYBbasic helix–loop–helix (bHLH)-WD40 complexes regulating anthocyanin and proanthocyanidin (PA) biosynthesis in plants are not fully understood.. Here Medicago truncatula bHLH MtTT8 was characterized as a central component of these ternary complexes that control anthocyanin and PA biosynthesis.. Mttt8 mutant seeds have a transparent testa phenotype with reduced PAs and anthocyanins.

Article Title: Phylogeography of the Arctic-Alpine Saxifraga oppositifolia (Saxifragaceae) and some related taxa based on cpDNA and ITS sequence variation.
Article Snippet: Saxifraga oppositifolia (Saxifragaceae) is an important model system for the evolution of Arctic-Alpine plant species.. Sequences of the psbA–trnH intergenic spacer of chloroplast DNA and of the internal transcribed spacer region, ITS1–5.8S–ITS2, of the nuclear ribosomal DNA were used to investigate the intraspecific evolution and phylogeography of this species.. Samples from nearly the species’ entire circumpolar distribution were included in the analysis as well as samples from the closely related taxa S. smalliana from Alaska and S. blepharophylla and S. biflora from the Alps (S. aizoides served as outgroup).



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Phylogenetic relationship of Sudan-Lagawa strains of CCHFV . Partial S segment sequences of the virus strains were aligned with other CCHFV strains from Sudan, different African regions, the Middle and Far East, Asia, and Eastern Europe. Sequeces were analyzed with the Lasergene 3.57 software package (DNASTAR, Madison, WI, USA). Phylogenetic tree was constructed using PAUP version 4.0 (Sinauer Associates, Inc., Sunderland, MA, USA). Bootstrap values were calculated from analysis of 500 replicates of the data set, and values greater than 50% are indicated at the appropriate nodes. Each CCHFV sequence is designated by the name of the strain, country of origin. The GenBank accession numbers are given for each CCHFV isolate. The two Lagawa strains from Sudan (Sudan Lagawa1 and 2-2010) are highlighted in red color for clarity (GenBank accession number ( HG829854 ). Brace indicates group III virus genetic lineage (16).
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Sinauer Associates Inc paup version 4.0 software package
Phylogenetic relationship of Sudan-Lagawa strains of CCHFV . Partial S segment sequences of the virus strains were aligned with other CCHFV strains from Sudan, different African regions, the Middle and Far East, Asia, and Eastern Europe. Sequeces were analyzed with the Lasergene 3.57 software package (DNASTAR, Madison, WI, USA). Phylogenetic tree was constructed using PAUP version 4.0 (Sinauer Associates, Inc., Sunderland, MA, USA). Bootstrap values were calculated from analysis of 500 replicates of the data set, and values greater than 50% are indicated at the appropriate nodes. Each CCHFV sequence is designated by the name of the strain, country of origin. The GenBank accession numbers are given for each CCHFV isolate. The two Lagawa strains from Sudan (Sudan Lagawa1 and 2-2010) are highlighted in red color for clarity (GenBank accession number ( HG829854 ). Brace indicates group III virus genetic lineage (16).
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Phylogenetic relationship of Sudan-Lagawa strains of CCHFV . Partial S segment sequences of the virus strains were aligned with other CCHFV strains from Sudan, different African regions, the Middle and Far East, Asia, and Eastern Europe. Sequeces were analyzed with the Lasergene 3.57 software package (DNASTAR, Madison, WI, USA). Phylogenetic tree was constructed using PAUP version 4.0 (Sinauer Associates, Inc., Sunderland, MA, USA). Bootstrap values were calculated from analysis of 500 replicates of the data set, and values greater than 50% are indicated at the appropriate nodes. Each CCHFV sequence is designated by the name of the strain, country of origin. The GenBank accession numbers are given for each CCHFV isolate. The two Lagawa strains from Sudan (Sudan Lagawa1 and 2-2010) are highlighted in red color for clarity (GenBank accession number ( HG829854 ). Brace indicates group III virus genetic lineage (16).

Journal: Virology Journal

Article Title: A nosocomial transmission of crimean-congo hemorrhagic fever to an attending physician in north kordufan, Sudan

doi: 10.1186/1743-422X-8-303

Figure Lengend Snippet: Phylogenetic relationship of Sudan-Lagawa strains of CCHFV . Partial S segment sequences of the virus strains were aligned with other CCHFV strains from Sudan, different African regions, the Middle and Far East, Asia, and Eastern Europe. Sequeces were analyzed with the Lasergene 3.57 software package (DNASTAR, Madison, WI, USA). Phylogenetic tree was constructed using PAUP version 4.0 (Sinauer Associates, Inc., Sunderland, MA, USA). Bootstrap values were calculated from analysis of 500 replicates of the data set, and values greater than 50% are indicated at the appropriate nodes. Each CCHFV sequence is designated by the name of the strain, country of origin. The GenBank accession numbers are given for each CCHFV isolate. The two Lagawa strains from Sudan (Sudan Lagawa1 and 2-2010) are highlighted in red color for clarity (GenBank accession number ( HG829854 ). Brace indicates group III virus genetic lineage (16).

Article Snippet: Phylogenetic tree was constructed using PAUP version 4.0 software (Sinauer Associates, Inc., Sunderland, MA, USA) to investigate the relationship between Lagawa CCHFV strain and other known CCHFV strains identified globally.

Techniques: Software, Construct, Sequencing

Phylogenetic relationship of Sudan-Lagawa strains of CCHFV . Partial S segment sequences of the virus strains were aligned with other CCHFV strains from Sudan, different African regions, the Middle and Far East, Asia, and Eastern Europe. Sequeces were analyzed with the Lasergene 3.57 software package (DNASTAR, Madison, WI, USA). Phylogenetic tree was constructed using PAUP version 4.0 (Sinauer Associates, Inc., Sunderland, MA, USA). Bootstrap values were calculated from analysis of 500 replicates of the data set, and values greater than 50% are indicated at the appropriate nodes. Each CCHFV sequence is designated by the name of the strain, country of origin. The GenBank accession numbers are given for each CCHFV isolate. The two Lagawa strains from Sudan (Sudan Lagawa1 and 2-2010) are highlighted in red color for clarity (GenBank accession number ( HG829854 ). Brace indicates group III virus genetic lineage (16).

Journal: Virology Journal

Article Title: A nosocomial transmission of crimean-congo hemorrhagic fever to an attending physician in north kordufan, Sudan

doi: 10.1186/1743-422X-8-303

Figure Lengend Snippet: Phylogenetic relationship of Sudan-Lagawa strains of CCHFV . Partial S segment sequences of the virus strains were aligned with other CCHFV strains from Sudan, different African regions, the Middle and Far East, Asia, and Eastern Europe. Sequeces were analyzed with the Lasergene 3.57 software package (DNASTAR, Madison, WI, USA). Phylogenetic tree was constructed using PAUP version 4.0 (Sinauer Associates, Inc., Sunderland, MA, USA). Bootstrap values were calculated from analysis of 500 replicates of the data set, and values greater than 50% are indicated at the appropriate nodes. Each CCHFV sequence is designated by the name of the strain, country of origin. The GenBank accession numbers are given for each CCHFV isolate. The two Lagawa strains from Sudan (Sudan Lagawa1 and 2-2010) are highlighted in red color for clarity (GenBank accession number ( HG829854 ). Brace indicates group III virus genetic lineage (16).

Article Snippet: Phylogenetic tree was constructed using PAUP version 4.0 software packgae (Sinauer Associates, Inc., Sunderland, MA, USA).

Techniques: Software, Construct, Sequencing