Computational protocol: Characterization and Comparison of Serratia Marcescens Isolated from Edible Cactus and from Silkworm for Virulence Potential and Chitosan Susceptibility

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Protocol publication

[…] The 16S rRNA and groE gene of the bacterial strains were amplified and sequenced as described by Li et al. () and Harada and Ishikawa (), respectively. Phylogenetic analysis was performed after including the consensus sequence in an alignment of small ribosomal subunit sequences collected from the international nucleotide sequence library GenBank. Nucleotides of the 16S rRNA and groE gene were aligned using CLUSTAL W. Phylogenetic and molecular evolutionary analyses were conducted using the genetic distance-based neighbor-joining algorithms within MEGA version 4.0 ( Bootstrap analysis for 1000 replicates was performed to estimate the confidence of tree topology. […]

Pipeline specifications

Software tools Clustal W, MEGA
Application Phylogenetics
Organisms Serratia marcescens, Bombyx mori, Homo sapiens