HaGiS

HaGiS analyzes pathotype complexities, distributions, and diversity in gene-for-gene plant pathogens, with emphasis on Phytophthora sojae.

Key Features:

• Pathotype Analysis: Calculates distribution of susceptibilities, pathotype complexity, pathotype frequency distribution, and diversity indices for pathotypes.
• R implementation: Implemented as an R package to enable scripted analyses and reproducible computation of pathotype statistics.
• Adaptability for gene-for-gene pathosystems: Applicable to analyses of other gene-for-gene host–pathogen systems beyond Phytophthora sojae.

Scientific Applications:

• Resistance gene monitoring: Supports monitoring of resistance gene effectiveness in soybean against Phytophthora sojae by quantifying pathotype changes.
• Breeding and resistance management: Provides statistical outputs to inform breeding decisions and resistance management strategies based on pathotype distributions and diversity.

Methodology:

Functionality from the original Habgood-Gilmour Spreadsheet was converted into an R package that replicates the spreadsheet outputs for pathotype analysis.