Computational protocol: Entomologic investigation of Plasmodium knowlesi vectors in Kuala Lipis, Pahang, Malaysia

Similar protocols

Protocol publication

[…] The csp genes of isolates were successfully amplified, cloned and sequenced. The analysis of csp was performed as previously described by []. For the csp gene, sequences of the 456 nucleotides that encodes non-repetitive N-terminal (first 195 nucleotides of coding sequence) and C-terminal (the last 261 nucleotides of the csp gene coding sequence) region of the protein were aligned. The nucleotide sequences of the csp genes were aligned by CLUSTAL W using Megalign (Lasergene, DNASTAR, USA). The sequences were compared to those obtained from the GenBank data base P. knowlesi from peninsular Malaysia (EU821335, EU821336, EU708437, EU687467, EU687468, EU687470), Sarawak Malaysian Borneo (AY327570, GU0025505), Thailand (JF923566); P. coatneyi (AY135360), P. cynomolgi (M15104), P. simiovale (U09765), P. simium (L05068), P. inui (GU002523), P. fieldi (GU002521), P. vivax (M34697), P. malariae (U09766), P. falciparum (K02194) and P. vinckei lentum (AF162331)]. Phylogenetic trees were performed by the neighbour-joining (NJ) method and was analysed using the Maximum Composite Likelihood method with 1,000 bootstrap replicates and was carried out using the MEGA version 4.0 software []. […]

Pipeline specifications

Software tools Clustal W, MEGA
Application Phylogenetics
Organisms Plasmodium knowlesi, Homo sapiens, Anopheles cracens
Diseases Malaria