Computational protocol: Distribution and phylogeny of Wolbachia strains in wild mosquito populations in Sri Lanka

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Protocol publication

[…] Nine Wolbachia-positive PCR products were directly sequenced using an automatic DNA sequencer (Applied Biosystems series 3500, USA). Sequence data were compared with the available data in the GenBank database using BLAST search and the sequences were deposited in the GenBank under accession numbers KY523666–KY523674. Wsp sequences obtained from this study, reference wsp sequences obtained from EMBL alignment database [] (accession no. DS32273) and wsp sequences obtained from GenBank [] (KJ140127, AF020058, KF725078, KF725079, KC668277, KC668275, KF725080, KC668284, KC668278, KJ140133, AY462864, GQ469982, KC137171, HM007832, DQ842453, HM007831) were edited and aligned in BioEdit 7.2.5 [] using CustalW alignment algorithm []. Evolutionary history was inferred using the neighbor-joining (NJ) method [] and the evolutionary distances were computed using the Kimura 2-parameter method []. Evolutionary analyses were conducted in MEGA7 []. […]

Pipeline specifications

Software tools BioEdit, MEGA
Application Phylogenetics
Organisms Wolbachia endosymbiont of Armadillidium vulgare str. wVulC, Escherichia coli, Aedes albopictus, Culex quinquefasciatus
Diseases Dengue, Encephalitis, Infection, Malaria, Sprains and Strains