Tools for genetic studies in experimental populations of polyploids

PM Bourke, RE Voorrips, RGF Visser… - Frontiers in plant …, 2018 - frontiersin.org
Polyploid organisms carry more than two copies of each chromosome, a condition rarely
tolerated in animals but which occurs relatively frequently in the plant kingdom. One of the …

Connecting genome structural variation with complex traits in crop plants

I Gabur, HS Chawla, RJ Snowdon… - Theoretical and applied …, 2019 - Springer
Key message Structural genome variation is a major determinant of useful trait diversity. We
describe how genome analysis methods are enabling discovery of trait-associated structural …

Development and evaluation of a barley 50k iSelect SNP array

MM Bayer, P Rapazote-Flores, M Ganal… - Frontiers in plant …, 2017 - frontiersin.org
High-throughput genotyping arrays continue to be an attractive, cost-effective alternative to
sequencing based approaches. We have developed a new 50k Illumina Infinium iSelect …

Development and applications of a high throughput genotyping tool for polyploid crops: single nucleotide polymorphism (SNP) array

Q You, X Yang, Z Peng, L Xu, J Wang - Frontiers in Plant Science, 2018 - frontiersin.org
Polypoid species play significant roles in agriculture and food production. Many crop
species are polyploid, such as potato, wheat, strawberry, and sugarcane. Genotyping has …

Plant genotype to phenotype prediction using machine learning

MF Danilevicz, M Gill, R Anderson, J Batley… - Frontiers in …, 2022 - frontiersin.org
Genomic prediction tools support crop breeding based on statistical methods, such as the
genomic best linear unbiased prediction (GBLUP). However, these tools are not designed to …

Haplotype blocks for genomic prediction: a comparative evaluation in multiple crop datasets

SE Weber, M Frisch, RJ Snowdon… - Frontiers in Plant …, 2023 - frontiersin.org
In modern plant breeding, genomic selection is becoming the gold standard for selection of
superior genotypes. The basis for genomic prediction models is a set of phenotyped lines …

How population structure impacts genomic selection accuracy in cross-validation: implications for practical breeding

CR Werner, RC Gaynor, G Gorjanc, JM Hickey… - Frontiers in plant …, 2020 - frontiersin.org
Over the last two decades, the application of genomic selection has been extensively
studied in various crop species, and it has become a common practice to report prediction …

Mapping of homoeologous chromosome exchanges influencing quantitative trait variation in Brassica napus

A Stein, O Coriton, M Rousseau‐Gueutin… - Plant biotechnology …, 2017 - Wiley Online Library
Genomic rearrangements arising during polyploidization are an important source of genetic
and phenotypic variation in the recent allopolyploid crop Brassica napus. Exchanges among …

Breeding Canola (Brassica napus L.) for Protein in Feed and Food

KKY So, RW Duncan - Plants, 2021 - mdpi.com
Interest in canola (Brassica napus L.). In response to this interest, scientists have been
tasked with altering and optimizing the protein production chain to ensure canola proteins …

Gene presence-absence variation associates with quantitative Verticillium longisporum disease resistance in Brassica napus

I Gabur, HS Chawla, DT Lopisso, A von Tiedemann… - Scientific Reports, 2020 - nature.com
Although copy number variation (CNV) and presence-absence variation (PAV) have been
discovered in selected gene families in most crop species, the global prevalence of these …