[HTML][HTML] Accurate prediction of quantitative traits with failed SNP calls in canola and maize

SE Weber, HS Chawla, L Ehrig, LT Hickey… - Frontiers in Plant …, 2023 - frontiersin.org
In modern plant breeding, genomic selection is becoming the gold standard to select
superior genotypes in large breeding populations that are only partially phenotyped. Many …

Genomic Prediction of Testcross Performance in Canola (Brassica napus)

HU Jan, A Abbadi, S Lücke, RA Nichols, RJ Snowdon - PLoS One, 2016 - journals.plos.org
Genomic selection (GS) is a modern breeding approach where genome-wide single-
nucleotide polymorphism (SNP) marker profiles are simultaneously used to estimate …

[HTML][HTML] 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 …

Genomic prediction in Brassica napus: evaluating the benefit of imputed whole-genome sequencing data

SE Weber, L Roscher-Ehrig, T Kox, A Abbadi… - …, 2024 - cdnsciencepub.com
Advances in sequencing technology allow whole plant genomes to be sequenced with high
quality. Combining genotypic and phenotypic data in genomic prediction helps breeders to …

[HTML][HTML] Development of highly polymorphic SNP markers from the complexity reduced portion of maize [Zea mays L.] genome for use in marker-assisted breeding

JA Mammadov, W Chen, R Ren, R Pai… - Theoretical and applied …, 2010 - Springer
The duplicated and the highly repetitive nature of the maize genome has historically
impeded the development of true single nucleotide polymorphism (SNP) markers in this …

Effective genomic selection in a narrow‐genepool crop with low‐density markers: Asian rapeseed as an example

CR Werner, KP Voss‐Fels, CN Miller, W Qian… - The plant …, 2018 - Wiley Online Library
Genomic selection (GS) has revolutionized breeding for quantitative traits in plants, offering
potential to optimize resource allocation in breeding programs and increase genetic gain …

Multi-omics-based prediction of hybrid performance in canola

D Knoch, CR Werner, RC Meyer, D Riewe… - Theoretical and Applied …, 2021 - Springer
Key message Complementing or replacing genetic markers with transcriptomic data and use
of reproducing kernel Hilbert space regression based on Gaussian kernels increases hybrid …

MultiBLUP: improved SNP-based prediction for complex traits

D Speed, DJ Balding - Genome research, 2014 - genome.cshlp.org
BLUP (b est l inear u nbiased p rediction) is widely used to predict complex traits in plant
and animal breeding, and increasingly in human genetics. The BLUP mathematical model …

Leveraging functional genomic annotations and genome coverage to improve polygenic prediction of complex traits within and between ancestries

Z Zheng, S Liu, J Sidorenko, Y Wang, T Lin, L Yengo… - Nature Genetics, 2024 - nature.com
We develop a method, SBayesRC, that integrates genome-wide association study (GWAS)
summary statistics with functional genomic annotations to improve polygenic prediction of …

Deciphering the genetic diversity of landraces with high-throughput SNP genotyping of DNA bulks: methodology and application to the maize 50k array

M Arca, T Mary-Huard, B Gouesnard… - Frontiers in Plant …, 2021 - frontiersin.org
Genebanks harbor original landraces carrying many original favorable alleles for mitigating
biotic and abiotic stresses. Their genetic diversity remains, however, poorly characterized …