Computational protocol: First isolation and molecular characterization of Suid herpesvirus type 1 from a domestic dog in Argentina

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Protocol publication

[…] The sequence was edited using BioEdit Sequence Alignment Editor. Homology analyses were performed with the BLASTN program (National Center for Biotechnology Information [http://www.ncbi.nlm.nih.gov/BLAST/]).The sequence alignments of the partial gC gene were performed with the ClustalW method, using the MEGA 7.0 program. The phylogenetic analysis was carried out with the same program, using the neighbor-joining (NJ) method with the Kimura two-parameter model, and bootstrap analyses were conducted using 1000 replicates.The dataset included 68 strains from different countries available through GenBank, including the Argentinean SuHV-1 swine strains (). […]

Pipeline specifications

Software tools BioEdit, BLASTN, Clustal W, MEGA
Application Phylogenetics
Organisms Suid alphaherpesvirus 1, Canis lupus familiaris, Sus scrofa
Chemicals Chloroform, Formaldehyde, Phenol