Computational protocol: Epidemiology of the lymphatic-dwelling filarioid nematode Rumenfilaria andersoni in free-ranging moose (Alces alces) and other cervids of North America

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Protocol publication

[…] All 18S and ITS-1 consensus sequence chromatograms were trimmed and edited by hand using Sequencher 5.3 (Gene Codes Corporation, Ann Arbor, MI, USA). Edited sequences were compared against the few known sequences for filarioid nematodes from cervid hosts in the NCBI GenBank database. Genetic data was also compared with sequences obtained from adult reference nematodes (Table ), which had been identified morphologically and subjected to DNA extraction and PCR amplification in our laboratory, as described above. Alignment and construction of neighbor-joining trees of ITS-1 and 18S filarioid worm sequences was performed using MEGA 6.0 []. All consensus sequences were deposited in the GenBank database under accession numbers KT020850, KT031392–KT031393; KT873719–KT873733; KT878970–KT878979l; and KU757075–KU757077 (see Tables  and for details). […]

Pipeline specifications

Software tools Sequencher, MEGA
Application Phylogenetics
Organisms Alces alces, Caenorhabditis elegans, Odocoileus virginianus, Rangifer tarandus
Diseases Parasitic Diseases