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ITS rDNA and mitochondrial barcode sequences derived from 21 Phytophthora cactorum genome sequence accessions

Citation

Bourret, Tyler (2022), ITS rDNA and mitochondrial barcode sequences derived from 21 Phytophthora cactorum genome sequence accessions, Dryad, Dataset, https://doi.org/10.25338/B8J33M

Abstract

Bourret et al. (2022) extracted two loci from twenty-one Phytophthora cactorum genome-sequencing projects for use in a phylogenetic analysis. One locus is ITS rDNA and the second is a section of the mitochondrial genome containing portions the "cox2" and "cox1" coding sequences. The sequences are labeled with the BioSample from which they were derived. The 169-isolate, multi-locus alignment used for phylogenetic inference is also included. 

Methods

Sequences were derived by BLASTing a moving window of each locus against data in the sequence read archive corresponding to the listed BioSamples. Alignments are phylip files (.phy) and a nexus file (.nex) used as the input for IQTREE2.