U.S. flag

An official website of the United States government

Ag Data Commons migration begins October 18, 2023

The Ag Data Commons is migrating to a new platform – an institutional portal on Figshare. Starting October 18 the current system will be available for search and download only. Submissions will resume after the launch of our portal on Figshare in November. Stay tuned for details!

Other Access

The information on this page (the dataset metadata) is also available in these formats:


via the DKAN API

Data Extent

Data and code from: Cover crop and crop rotation effects on tissue and soil population dynamics of Macrophomina phaseolina and yield in no-till system - V2

[Note 2023-08-14 - Supersedes version 1, https://doi.org/10.15482/USDA.ADC/1528086 ]

This dataset contains all code and data necessary to reproduce the analyses in the manuscript:

Mengistu, A., Read, Q. D., Sykes, V. R., Kelly, H. M., Kharel, T., & Bellaloui, N. (2023). Cover crop and crop rotation effects on tissue and soil population dynamics of Macrophomina phaseolina and yield under no-till system. Plant Disease. https://doi.org/10.1094/pdis-03-23-0443-re

The .zip archive cropping-systems-1.0.zip contains data and code files.


  • stem_soil_CFU_by_plant.csv: Soil disease load (SoilCFUg) and stem tissue disease load (StemCFUg) for individual plants in CFU per gram, with columns indicating year, plot ID, replicate, row, plant ID, previous crop treatment, cover crop treatment, and comments. Missing data are indicated with .
  • yield_CFU_by_plot.csv: Yield data (YldKgHa) at the plot level in units of kg/ha, with columns indicating year, plot ID, replicate, and treatments, as well as means of soil and stem disease load at the plot level.


  • cropping_system_analysis_v3.0.Rmd: RMarkdown notebook with all data processing, analysis, and visualization code
  • equations.Rmd: RMarkdown notebook with formatted equations
  • formatted_figs_revision.R: R script to produce figures formatted exactly as they appear in the manuscript

The Rproject file cropping-systems.Rproj is used to organize the RStudio project. Scripts and notebooks used in older versions of the analysis are found in the testing/ subdirectory. Excel spreadsheets containing raw data from which the cleaned CSV files were created are found in the raw_data subdirectory.

Release Date
Spatial / Geographical Coverage Area
POINT (-88.72719 35.93451)
Ag Data Commons
Spatial / Geographical Coverage Location
Milan Research and Education Center, Milan, Tennessee, USA
Temporal Coverage
January 1, 2011 to December 31, 2015
Contact Name
Read, Quentin
Contact Email
Public Access Level
Program Code
005:040 - Department of Agriculture - National Research
Bureau Code
005:18 - Agricultural Research Service