Computational protocol: First report, morphological and molecular characterization of Xiphinemaelongatum and X.pachtaicum (Nematoda, Longidoridae) from Ethiopia

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Protocol publication

[…] For phylogenetic analysis, the sequences were aligned with related sequences from GenBank, using ClustalW () provided by BioEdit sequence alignment editor (). Phylogenetic analyses were performed by Bayesian inference (BI) method with MrBayes v3.1.2 (). A general time-reversible model with rate variation across sites and a proportion of invariable sites (GTR + I + G) was used. Analyses were run for 3 × 106 generations and trees were generated using the last 1,000,000 generations well beyond the burn-in value. Also other methods (maximum parsimony, neighbor joining, maximum likelihood) using PAUP* (Phylogenetic Analysis Using Parsimony) () provided the same tree topologies but are not further discussed herein. […]

Pipeline specifications

Software tools Clustal W, BioEdit, MrBayes, PAUP*
Application Phylogenetics
Organisms Caenorhabditis elegans
Chemicals Nucleotides