Data and code from: Distribution of <i>Pseudomonas amygdali</i> pv. <i>loropetali</i> in the twig phylloplane of <i>Loropetalum chinense</i> shrubs in ornamental plant nurseries

<p dir="ltr">This dataset contains all raw data and R statistical software code needed to reproduce the data processing, statistical model fitting, and data/model visualizations presented in the associated manuscript, titled “Distribution of <i>Pseudomonas amygdali</i> pv. <i>loropetali</i> in the twig phylloplane of <i>Loropetalum chinense</i> shrubs in ornamental plant nurseries.”</p><p dir="ltr">The manuscript describes a survey done across six ornamental plant nurseries to assess the prevalence of galling symptoms in loropetalum plants caused by the bacterium <i>Pseudomonas amygdali </i>pv. <i>loropetali </i>(PAL), and the abundance of the PAL bacterium. The presence of symptoms was assessed, and the abundance of PAL estimated with a PAL-specific qPCR method, on twigs at three height strata on each plant. In the associated analysis notebook, we present a spatial analysis of the symptom prevalence (Moran’s <i>I </i>and logistic regression), and a Gamma generalized linear mixed model comparing PAL abundance across nurseries, height strata, and galled versus gall-free plants. Significant differences in PAL number were found between nurseries, between strata, and between galled and gall-free plants. The raw data are provided here in .csv format, and the R statistical software code in an RMarkdown notebook, with .Rmd source code and rendered .html output.</p><h2>Included files</h2><ul><li><b>PALqantitData.csv</b>: Copy numbers obtained from the PAL qPCR.</li><li><b>PALplantData_withcoords.csv</b>: Spatial locations (row and column coordinates) of surveyed plants.</li><li><b>SymptSpatial.csv</b>: Row and column coordinates and field symptom rating of surveyed plants.</li><li><b>Loropetalum_PAL_qPCR_analysis.Rmd</b>: RMarkdown notebook containing all R statistical software code to import and process data, fit statistical models, create maps, and create graphs and tables of raw data and model output.</li><li><b>Loropetalum_PAL_qPCR_analysis.html</b>: Rendered output of .Rmd notebook</li><li><b>column_metadata.pdf</b>: Description of columns in .csv files.</li></ul><p><br></p>