Computational protocol: Identification and Characterization of Porcine Kobuvirus Variant Isolated from Suckling Piglet in Gansu Province, China

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Protocol publication

[…] PCR products were cloned into the pMD-18 T vector (TaKaRa, Otsu, Japan). Competent E. coli DH5a cells (TaKaRa) were transformed with the recombinant plasmid. Three clones were sequenced using the Applied Biosystems (ABI) 3730xl DNA analyzer. Sequences were analyzed using the ClustalX version 2.0 [], DNASTAR, and MegAlign version 5.0 (DNAStar Inc., Madison, WI, USA) software packages. A dendrogram was constructed using the neighbor-joining clustering method in MEGA 5.0 []. Possible recombination events in the coding region were analyzed using Simplot software []. All kobuvirus strains used in the study are listed in . […]

Pipeline specifications

Software tools Clustal W, MEGA, SimPlot
Application Phylogenetics
Organisms Sus scrofa, Porcine kobuvirus