Natural variation in crops: realized understanding, continuing promise

Y Liang, HJ Liu, J Yan, F Tian - Annual review of plant biology, 2021 - annualreviews.org
Crops feed the world's population and shape human civilization. The improvement of crop
productivity has been ongoing for almost 10,000 years and has evolved from an experience …

[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 …

[HTML][HTML] LightGBM: accelerated genomically designed crop breeding through ensemble learning

J Yan, Y Xu, Q Cheng, S Jiang, Q Wang, Y Xiao, C Ma… - Genome biology, 2021 - Springer
LightGBM is an ensemble model of decision trees for classification and regression
prediction. We demonstrate its utility in genomic selection-assisted breeding with a large …

[HTML][HTML] The genetic mechanism of heterosis utilization in maize improvement

Y Xiao, S Jiang, Q Cheng, X Wang, J Yan, R Zhang… - Genome Biology, 2021 - Springer
Background In maize hybrid breeding, complementary pools of parental lines with reshuffled
genetic variants are established for superior hybrid performance. To comprehensively …

High-throughput CRISPR/Cas9 mutagenesis streamlines trait gene identification in maize

HJ Liu, L Jian, J Xu, Q Zhang, M Zhang, M Jin… - The Plant …, 2020 - academic.oup.com
Maize (Zea mays) is one of the most important crops in the world. However, few
agronomically important maize genes have been cloned and used for trait improvement, due …

[HTML][HTML] A pan-Zea genome map for enhancing maize improvement

S Gui, W Wei, C Jiang, J Luo, L Chen, S Wu, W Li… - Genome biology, 2022 - Springer
Abstract Background Maize (Zea mays L.) is at the vanguard facing the upcoming breeding
challenges. However, both a super pan-genome for the Zea genus and a comprehensive …

[PDF][PDF] DNNGP, a deep neural network-based method for genomic prediction using multi-omics data in plants

K Wang, MA Abid, A Rasheed, J Crossa, S Hearne… - Molecular Plant, 2023 - cell.com
Genomic prediction is an effective way to accelerate the rate of agronomic trait improvement
in plants. Traditional methods typically use linear regression models with clear assumptions; …

[HTML][HTML] Natural uORF variation in plants

J Wang, J Liu, Z Guo - Trends in Plant Science, 2023 - cell.com
Taking advantage of natural variation promotes our understanding of phenotypic diversity
and trait evolution, ultimately accelerating plant breeding, in which the identification of …

The genetic architecture of the dynamic changes in grain moisture in maize

W Li, Y Yu, L Wang, Y Luo, Y Peng, Y Xu… - Plant biotechnology …, 2021 - Wiley Online Library
Low grain moisture at harvest is crucial for safe production, transport and storage, but the
genetic architecture of this trait in maize (Zea mays) remains elusive. Here, we measured the …

[HTML][HTML] Target-oriented prioritization: targeted selection strategy by integrating organismal and molecular traits through predictive analytics in breeding

W Yang, T Guo, J Luo, R Zhang, J Zhao, ML Warburton… - Genome Biology, 2022 - Springer
Genomic prediction in crop breeding is hindered by modeling on limited phenotypic traits.
We propose an integrative multi-trait breeding strategy via machine learning algorithm …