Hass

Hass performs genome-wide single nucleotide polymorphism (SNP) discovery and genomic characterization in Persea americana Mill. (Hass) to support analysis of population structure and genetic diversity.

Key Features:

• Draft Assembly Development: Utilizes an avocado 'Hass' draft assembly as a reference genome for genomic analyses.
• Genomic Data Analysis: Processes genotyping-by-sequencing (GBS) data using R packages for handling and analysis of large-scale genomic datasets.
• SNP Marker Production: Generates an average of 5.72 million reads per individual and identifies 7,108 SNP markers across 71 avocado accessions.
• Population Structure Analysis: Employs identified molecular markers to categorize accessions into four groups: Mexican, Guatemalan, West Indian, and a Guatemalan × Mexican hybrid group.

Scientific Applications:

• Breeding Program Support: Provides SNP markers and population structure data to address gaps in molecular tools for avocado breeding programs.
• Genetic Diversity Studies: Enables characterization of genetic diversity across accessions representing Mexican, Guatemalan, and West Indian horticultural races and hybrids.
• Population Structure Insights: Supports differentiation of botanical races and identification of hybrid groups for targeted cultivar development.

Methodology:

Uses a Hass draft genome assembly as reference and processes genotyping-by-sequencing (GBS) data using R packages to identify SNP markers.