Computational protocol: Molecular Detection of Torque Teno Sus Virus and Coinfection with African Swine Fever Virus in Blood Samples of Pigs from Some Slaughterhouses in Nigeria

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Protocol publication

[…] The chromatograms were edited in SeqMan (Lasergene 9, DNASTAR Inc., Madison, USA). The edited sequences were subsequently aligned by ClustalW in BioEdit http://www.mbio.ncsu.edu/bioedit/bioedit.html. The phylogenetic relationship among the TTSuV1a and TTSuV1b sequences from this study was compared to previously published sequences available from GenBank http://www.ncbi.nlm.nih.gov/genbank using Mega 6.0 [] for the construction of a phylogenetic tree using the Maximum-Likelihood algorithm with the Tamura 3-parameter model substitution with a bootstrap value of 1000. […]

Pipeline specifications

Software tools Clustal W, BioEdit, MEGA
Application Phylogenetics
Organisms Torque teno sus virus 1a, Sus scrofa, Sus scrofa domesticus
Diseases African Swine Fever