Computational protocol: Canine vector-borne pathogens in semi-domesticated dogs residing in northern Cambodia

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Protocol publication

[…] DNA sequences of the partial gltA gene of samples positive for R. felis were viewed using Finch TV 1.4.0 (Geospiza, Inc.) and aligned using BioEdit version 7.2.0 [] together with the gltA gene of the following rickettsiae species: R. felis-like species RF2125, R. felis Cal 2 strain, R. australis, R. typhi, R. prowazekii, R. asiatica, R. conorii, R. rickettsia, R. honei, R. marmionii (GenBank accession nos. AF516333, CP000053, U59718, U59714, M17149, AB297812, HM050292, DQ150689, AF018074, and AY737684, respectively). Neighbor-joining analyses were conducted with Tamura-Nei parameter distance estimates, and trees were constructed using Mega 6 software (www.megasoftware.net). Bootstrap analyses were conducted using 1000 replicates. […]

Pipeline specifications

Software tools BioEdit, MEGA
Application Phylogenetics
Organisms Dirofilaria immitis, Ehrlichia canis, Canis lupus familiaris, Rickettsia felis, Homo sapiens
Diseases Babesiosis, Mycoplasma Infections, Coinfection