Computational protocol: Unusual rotavirus genotypes among children with acute diarrhea in Saudi Arabia

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Protocol publication

[…] All isolates sequences were analyzed in comparison to VP4 and VP7 of the international rotavirus sequences available at NCBI sequence database using BALSTn-2 and RotaC 2.0 [] automated genotyping tool for Group A rotaviruses. Molecular phylogenetic analysis was carried out using Maximum Likelihood method based on Tamura-Nei model []. The tree was drawn to scale with branch lengths measured in the number of substitutions per site and was bootstrapped with 1000 replicates. The analysis involved 635 nucleotide sequences. All positions containing gaps and missing data were eliminated. There were a total of 681 positions in the final dataset. Evolutionary analyses were conducted in MEGA6 []. […]

Pipeline specifications

Software tools RotaC, MEGA
Application Phylogenetics
Organisms Homo sapiens
Diseases Rotavirus Infections, Virus Diseases