Articles
Recent advances in genomic resources for hazelnut breeding: building blocks for understanding complex traits in Corylus
Article number
1379_16
Pages
105 – 112
Language
English
Abstract
The hazelnut breeding program at Oregon State University (OSU) is using a diverse Corylus collection to develop new cultivars and pollinizers for the Oregon hazelnut industry.
Previously, the program generated a genetic linkage map and continues to add markers to it with a focus on eastern filbert blight (EFB) resistance regions and the S-locus that controls pollen-stigma incompatibility.
The breeding program has invested in DNA sequencing to complement marker development and genetic mapping efforts.
Hazelnut cultivars are highly heterozygous, self-incompatible, and clonally propagated.
As a result, it has been challenging to assemble an accurate, phased, and contiguous genome.
Improved high-fidelity long-read sequencing, advances in assembly algorithms, and Hi-C proximity ligation, have overcome many of these challenges.
Researchers in other countries have produced high-quality genome assemblies with chromosome-level scaffolds.
Genes have been predicted and their functions annotated.
At OSU, Jefferson version 4 (V4) serves as the reference genome.
The genomes of 16 additional cultivars and selections have been sequenced using Pacific Biosciences (PacBio) technology.
These include three genome sequence trios, each consisting of a selection and its parents, to facilitate dual haploid assembly.
Additionally, the genomes of a diversity panel of 70 C. avellana and 30 C. americana accessions were sequenced using Illumina technology.
With collaborators, we are identifying single nucleotide polymorphism (SNP) markers for inclusion in a multi-species SNP array for temperate tree nuts.
The linkage maps, genome sequences and SNP array will allow us to explore complex traits including quantitative EFB resistance and adaptation to a changing climate.
Previously, the program generated a genetic linkage map and continues to add markers to it with a focus on eastern filbert blight (EFB) resistance regions and the S-locus that controls pollen-stigma incompatibility.
The breeding program has invested in DNA sequencing to complement marker development and genetic mapping efforts.
Hazelnut cultivars are highly heterozygous, self-incompatible, and clonally propagated.
As a result, it has been challenging to assemble an accurate, phased, and contiguous genome.
Improved high-fidelity long-read sequencing, advances in assembly algorithms, and Hi-C proximity ligation, have overcome many of these challenges.
Researchers in other countries have produced high-quality genome assemblies with chromosome-level scaffolds.
Genes have been predicted and their functions annotated.
At OSU, Jefferson version 4 (V4) serves as the reference genome.
The genomes of 16 additional cultivars and selections have been sequenced using Pacific Biosciences (PacBio) technology.
These include three genome sequence trios, each consisting of a selection and its parents, to facilitate dual haploid assembly.
Additionally, the genomes of a diversity panel of 70 C. avellana and 30 C. americana accessions were sequenced using Illumina technology.
With collaborators, we are identifying single nucleotide polymorphism (SNP) markers for inclusion in a multi-species SNP array for temperate tree nuts.
The linkage maps, genome sequences and SNP array will allow us to explore complex traits including quantitative EFB resistance and adaptation to a changing climate.
Publication
Authors
J.W. Snelling, S. Talbot, K.J. Vining, S.A. Mehlenbacher
Keywords
Corylus avellana, filbert, linkage, marker-assisted selection
Groups involved
Online Articles (78)