Smart breeding driven by big data, artificial intelligence, and integrated genomic-enviromic prediction

Y Xu, X Zhang, H Li, H Zheng, J Zhang, MS Olsen… - Molecular Plant, 2022 - cell.com
The first paradigm of plant breeding involves direct selection-based phenotypic observation,
followed by predictive breeding using statistical models for quantitative traits constructed …

Features and applications of haplotypes in crop breeding

JA Bhat, D Yu, A Bohra, SA Ganie… - Communications …, 2021 - nature.com
Climate change with altered pest-disease dynamics and rising abiotic stresses threatens
resource-constrained agricultural production systems worldwide. Genomics-assisted …

TBtools-II: A “one for all, all for one” bioinformatics platform for biological big-data mining

C Chen, Y Wu, J Li, X Wang, Z Zeng, J Xu, Y Liu… - Molecular plant, 2023 - cell.com
Since the official release of the stand-alone bioinformatics toolkit TBtools in 2020, its
superior functionality in data analysis has been demonstrated by its widespread adoption by …

The complex polyploid genome architecture of sugarcane

AL Healey, O Garsmeur, JT Lovell, S Shengquiang… - Nature, 2024 - nature.com
Sugarcane, the world's most harvested crop by tonnage, has shaped global history, trade
and geopolitics, and is currently responsible for 80% of sugar production worldwide. While …

Harnessing clonal gametes in hybrid crops to engineer polyploid genomes

Y Wang, RR Fuentes, WMJ van Rengs, S Effgen… - Nature Genetics, 2024 - nature.com
Heterosis boosts crop yield; however, harnessing additional progressive heterosis in
polyploids is challenging for breeders. We bioengineered a 'mitosis instead of …

The genome and population genomics of allopolyploid Coffea arabica reveal the diversification history of modern coffee cultivars

J Salojärvi, A Rambani, Z Yu, R Guyot, S Strickler… - Nature …, 2024 - nature.com
Coffea arabica, an allotetraploid hybrid of Coffea eugenioides and Coffea canephora, is the
source of approximately 60% of coffee products worldwide, and its cultivated accessions …

[HTML][HTML] Phylogenomic discovery of deleterious mutations facilitates hybrid potato breeding

Y Wu, D Li, Y Hu, H Li, GP Ramstein, S Zhou, X Zhang… - Cell, 2023 - cell.com
Hybrid potato breeding will transform the crop from a clonally propagated tetraploid to a
seed-reproducing diploid. Historical accumulation of deleterious mutations in potato …

Two haplotype-resolved, gap-free genome assemblies for Actinidia latifolia and Actinidia chinensis shed light on the regulatory mechanisms of vitamin C and sucrose …

X Han, Y Zhang, Q Zhang, N Ma, X Liu, W Tao, Z Lou… - Molecular Plant, 2023 - cell.com
Kiwifruit is a recently domesticated horticultural fruit crop with substantial economic and
nutritional value, especially because of the high content of vitamin C in its fruit. In this study …

Solanum americanum genome-assisted discovery of immune receptors that detect potato late blight pathogen effectors

X Lin, Y Jia, R Heal, M Prokchorchik… - Nature …, 2023 - nature.com
Potato (Solanum tuberosum) and tomato (Solanum lycopersicon) crops suffer severe losses
to late blight caused by the oomycete pathogen Phytophthora infestans. Solanum …

Plant pangenomes for crop improvement, biodiversity and evolution

M Schreiber, M Jayakodi, N Stein… - Nature Reviews Genetics, 2024 - nature.com
Plant genome sequences catalogue genes and the genetic elements that regulate their
expression. Such inventories further research aims as diverse as map** the molecular …