Computational protocol: A broad-range survey of ticks from livestock in Northern Xinjiang: changes in tick distribution and the isolation of Borrelia burgdorferi sensu stricto

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Protocol publication

[…] Data comparisons were performed using those tick species that had more than 10 available specimens. Sequence alignments to determine the nucleotide percentage from each species were performed using Clustal X 2.0 [], and the phylogenic relationships among the representative tick specimens were inferred using MEGA5 []. A phylogenic tree was then constructed using the neighbor-joining method [].A total of 67 reference sequences, including sequences from the Dermanyssus gallinae (L34326.1) and Spinturnix myoti (FJ225960) outgroups, were used for the phylogenetic analysis, and 23 nucleotide sequences from our study have been deposited in the GenBank database (16S rDNA: KF547980, KF547981, KF547982, KF547983, KF547984, KF547985, KF547986, KF547987, KF547988, KF547989, KF547990, KF547991, KF547992, KF547993, KF547994, and KF547995; 5S-23S rDNA intergenic spacer of Borrelia: KF547996, KF547997, KF547998, KJ459337, KJ459338, KJ459339 and KJ459340). […]

Pipeline specifications

Software tools Clustal W, MEGA
Application Phylogenetics
Organisms Borreliella burgdorferi, Bos taurus, Ovis aries, Equus caballus, Camelus dromedarius, Hoplunnis punctata, Dermacentor nuttalli
Diseases Borrelia Infections, Lyme Disease