Data from: The phyllosphere microbiome in Tsuga canadensis: Possible relationships with resistance to Adelges tsugae and effects of the pesticide dinotefuran

Eastern hemlock (Tsuga canadensis) is an important forest tree species in North America. It currently faces threats from invasive insects; primarily hemlock woolly adelgid (HWA - Adelges tsugae) and elongate hemlock scale (EHS - Fiorinia externa). Both insect species are native to Asia with Tsuga species in the native range typically resistant to the damage they cause. We conducted a study of the phyllosphere microbiome of two hemlock species native to North America and susceptible to HWA (T. canadensis and T. caroliniana), and two species native to Asia and resistant to HWA (T. chinensis and T. diversifolia). The files for this experiment are labelled "Hemlock Microbiome." Since pesticide application is often used to treat North American hemlock species impacted by HWA and EHS, we also examined how the pesticide dinotefuran affected the microbiome and overall plant physiology of T. canadensis. The files for this experiment are labelled "Hemlock Dinotefuran."

Included here are zOTU tables for fungi and bacteria and the taxonomic matches for each zOTU from both experiments, as well as the codes used in the programs USEARCH and Cutadapt to generate these data tables. (Note that raw sequence reads are publicly available in the Sequence Read Archive under BioProject number PRJNA1052676.)  In addition, R scripts that show 1) how these data were analyzed with PERMANOVA and PERMDISP and visualized with PCoA in the R package vegan, including sequence read normalization in the R package DESeq2, 2) how the relative abundance of the top taxa were graphed in the R package phyloseq, and 3) indicator species analysis in the R package indicspecies are included. Finally, the raw data for plant physiology measurements are also included, along with the R script on how these data were analyzed with ANOVAs.