Harnessing genomics to fast-track genetic improvement in aquaculture

RD Houston, TP Bean, DJ Macqueen… - Nature Reviews …, 2020 - nature.com
Aquaculture is the fastest-growing farmed food sector and will soon become the primary
source of fish and shellfish for human diets. In contrast to crop and livestock production …

Genomic selection: genome-wide prediction in plant improvement

ZA Desta, R Ortiz - Trends in plant science, 2014 - cell.com
Association analysis is used to measure relations between markers and quantitative trait loci
(QTL). Their estimation ignores genes with small effects that trigger underpinning …

Overfitting, model tuning, and evaluation of prediction performance

OA Montesinos López, A Montesinos López… - … learning methods for …, 2022 - Springer
The overfitting phenomenon happens when a statistical machine learning model learns very
well about the noise as well as the signal that is present in the training data. On the other …

Pitfalls of predicting complex traits from SNPs

NR Wray, J Yang, BJ Hayes, AL Price… - Nature Reviews …, 2013 - nature.com
The success of genome-wide association studies (GWASs) has led to increasing interest in
making predictions of complex trait phenotypes, including disease, from genotype data …

Whole-genome regression and prediction methods applied to plant and animal breeding

G de Los Campos, JM Hickey, R Pong-Wong… - Genetics, 2013 - academic.oup.com
Genomic-enabled prediction is becoming increasingly important in animal and plant
breeding and is also receiving attention in human genetics. Deriving accurate predictions of …

[HTML][HTML] Physiological breeding

M Reynolds, P Langridge - Current opinion in plant biology, 2016 - Elsevier
Highlights•New crop designs capitalize on over half a century of physiological
research.•Remote sensing permits evaluation of genetic resources for complex trait …

Genome-wide prediction models that incorporate de novo GWAS are a powerful new tool for tropical rice improvement

JE Spindel, H Begum, D Akdemir, B Collard, E Redoña… - Heredity, 2016 - nature.com
To address the multiple challenges to food security posed by global climate change,
population growth and rising incomes, plant breeders are developing new crop varieties that …

Breeding beyond monoculture: putting the “intercrop” into crops

PM Bourke, JB Evers, P Bijma… - Frontiers in Plant …, 2021 - frontiersin.org
Intercropping is both a well-established and yet novel agricultural practice, depending on
one's perspective. Such perspectives are principally governed by geographic location and …

[PDF][PDF] Enhancing genetic gain through genomic selection: from livestock to plants

Y Xu, X Liu, J Fu, H Wang, J Wang, C Huang… - Plant …, 2020 - cell.com
Although long-term genetic gain has been achieved through increasing use of modern
breeding methods and technologies, the rate of genetic gain needs to be accelerated to …

[HTML][HTML] Integrating multi-omics data for crop improvement

F Scossa, S Alseekh, AR Fernie - Journal of plant physiology, 2021 - Elsevier
Our agricultural systems are now in urgent need to secure food for a growing world
population. To meet this challenge, we need a better characterization of plant genetic and …