pheno: Phenotype

In SoyURT: USDA Northern Region Uniform Soybean Tests Dataset

Phenotype

Description

Modeled data set by Krause et al. (2022) from the USDA Northern Region Uniform Soybean Tests. The data contains 4,257 experimental genotypes evaluated at 63 locations and 31 years resulting in 591 location-year combinations (environments) with 39,006 yield values belonging to matirity groups II and III from 1989 to 2019. Annual PDF reports from the Northern Region of the USDA Uniform Soybean Tests were obtained from https://ars.usda.gov/mwa/lafayette/cppcru/ust. The data retrieved from the published PDF files represent averages for seed yield for each genotype evaluated at each trial in location-year combinations. Seed yield was adjusted to 13% moisture and results were reported in bushels per acre (bu/ac). For more information about the trial field plot design and agronomic practices, please refer to the PDF files. The raw data can also be downloaded from Soybase: https://soybase.org/ncsrp/queryportal/.

Usage

pheno

Format

A data frame in tidy format with 39,006 observations on the following 13 variables:

year

years, 31 levels (1989 - 2019)

location

locations, 63 levels (observed locations in the historical series)

latitude

latitude

longitude

longitude

altitude

altitude

trial

name of the trial that originated the phenotypic record

check

indicator variable for variety checks, 2 levels (yes or no)

maturity_group

genotype's maturity group, 2 levels (II or III)

G

genotype, 4,257 levels

eBLUE

empirical best linear unbiased estimate of genotype means

SE

standard error of genotype means on a location level

average_planting_date

average planting date on a location level (MM/DD/YY)

average_maturity_date

average maturity date on a location level in days after planting

Source

Krause, M. D., Dias, K. O. G., Singh, A. K., and Beavis. W. D. (2022). Using large soybean historical data to study genotype by environment variation and identify mega-environments with the integration of genetic and non-genetic factors. bioRxiv, doi: 10.1101/2022.04.11.487885

SoyURT documentation built on June 13, 2022, 9:05 a.m.