Hordeum I genome unlocks adaptive evolution and genetic potential for crop improvement DOI Creative Commons
Hao Feng,

Qingwei Du,

Ying Jiang

et al.

Nature Plants, Journal Year: 2025, Volume and Issue: unknown

Published: March 14, 2025

Crop wild relatives (CWRs) are invaluable for crop improvement. Among these, Hordeum I-genome species exhibit exceptional tolerance to alkali and salt stresses. Here we present a chromosome-scale genome assembly of brevisubulatum (II, 2n = 2x =14) resequencing 38 diploid germplasms spanning 7 species. We reveal that the adaptive evolution H. is shaped by structural variations, some which may contribute its adaptation high environments. Evolutionary duplication stress sensor-responder module CaBP-NRT2 horizontally transferred fungal gene Fhb7 were identified as novel alkaline–saline mechanisms. also demonstrate potential I in breeding through newly synthesized hexaploid Tritordeum (AABBII) with enhanced tolerance. Our study fills critical gaps genomics CWR research, advancing introgression resources into current crops sustainable agriculture. The authors reference This work unravels genomic features drive environments could aid improving resilience.

Language: Английский

Understanding the Salinity Resilience and Productivity of Halophytes in Saline Environments DOI
Jiahong Chen, Yuan Wang

Plant Science, Journal Year: 2024, Volume and Issue: 346, P. 112171 - 112171

Published: July 3, 2024

Language: Английский

Citations

6
Fast‐forwarding plant breeding with deep learning‐based genomic prediction DOI Creative Commons
Shang Gao, Tingxi Yu, Awais Rasheed

et al.

Journal of Integrative Plant Biology, Journal Year: 2025, Volume and Issue: unknown

Published: April 14, 2025

ABSTRACT Deep learning‐based genomic prediction (DL‐based GP) has shown promising performance compared to traditional GP methods in plant breeding, particularly handling large, complex multi‐omics data sets. However, the effective development and widespread adoption of DL‐based still face substantial challenges, including need for high‐quality sets, inconsistencies benchmarking, integration environmental factors. Here, we summarize key obstacles impeding models propose future developing directions, such as modular approaches, augmentation, advanced attention mechanisms.

Language: Английский

Citations

0
Unveiling Salt Tolerance Mechanisms in Plants: Integrating the KANMB Machine Learning Model With Metabolomic and Transcriptomic Analysis DOI Creative Commons
Shoukun Chen, Hao Zhang,

Shuqiang Gao

et al.

Advanced Science, Journal Year: 2025, Volume and Issue: unknown

Published: April 26, 2025

Abstract Salt stress presents a substantial threat to cereal crop productivity, especially in coastal agricultural regions where salinity levels are high. Addressing this challenge requires innovative approaches uncover genetic resources that support molecular breeding of salt‐tolerant crops. In study, novel machine learning model, KANMB is introduced, designed analyze integrated multi‐omics data from the natural halophyte Spartina alterniflora under various NaCl concentrations. Using KANMB, 226 metabolic biomarkers significantly linked salt responses, grounded metabolomic and transcriptomic profiles identified. These correlate with pathways associated tolerance, providing insight into underlying biochemical mechanisms. A co‐expression analysis further highlights MYB gene SaMYB35 as pivotal regulator flavonoid biosynthesis pathway stress. When overexpressed rice (ZH11) grown high salinity, it triggers upregulation key biosynthetic genes, elevates content, enhances tolerance compared wild‐type plants. The findings study offer valuable toolkit for varieties demonstrate power accelerating biomarker discovery resilience non‐model plant species.

Language: Английский

Citations

0
De novo, high-quality assembly and annotation of the halophyte grass Aeluropus littoralis draft genome and identification of A20/AN1 zinc finger protein family DOI Creative Commons
Walid Ben Romdhane, Rania Ben Saad, Emmanuel Guiderdoni

et al.

BMC Plant Biology, Journal Year: 2025, Volume and Issue: 25(1)

Published: April 29, 2025

Language: Английский

Citations

0
Hordeum I genome unlocks adaptive evolution and genetic potential for crop improvement DOI Creative Commons
Hao Feng,

Qingwei Du,

Ying Jiang

et al.

Nature Plants, Journal Year: 2025, Volume and Issue: unknown

Published: March 14, 2025

Crop wild relatives (CWRs) are invaluable for crop improvement. Among these, Hordeum I-genome species exhibit exceptional tolerance to alkali and salt stresses. Here we present a chromosome-scale genome assembly of brevisubulatum (II, 2n = 2x =14) resequencing 38 diploid germplasms spanning 7 species. We reveal that the adaptive evolution H. is shaped by structural variations, some which may contribute its adaptation high environments. Evolutionary duplication stress sensor-responder module CaBP-NRT2 horizontally transferred fungal gene Fhb7 were identified as novel alkaline–saline mechanisms. also demonstrate potential I in breeding through newly synthesized hexaploid Tritordeum (AABBII) with enhanced tolerance. Our study fills critical gaps genomics CWR research, advancing introgression resources into current crops sustainable agriculture. The authors reference This work unravels genomic features drive environments could aid improving resilience.

Language: Английский

Citations

0