Partial unidirectional translocation from 5AL to 7BS leads to dense spike in an EMS-induced wheat mutant DOI

Xiaoyu Zhang,

Yongfa Wang, Yongming Chen

et al.

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: Sept. 17, 2024

Abstract Background As the inflorescence of wheat, spike architecture largely determines grain productivity. Dissecting genetic basis for morphology wheat can contribute towards designation ideal to improve production. Results In this study, we characterized an EMS-induced mutant dense spike1 (ds1) from Nongda3753 (ND3753) with a dense and reduced plant height. Using bulked segregant analysis coupled whole-genome sequencing (BSA-Seq) two segregating populations, ds1 was mapped short arm chromosome 7B. Further genotypic phenotypic analyses residual heterozygous lines F3 F6 Yong3002×ds1 revealed that there 0-135Mb deletion in 7B associated phenotype. The reads count bulks BSA-Seq along cytological ds1, ND3753, NIL-ds1 NIL-Y3002 confirmed partial unidirectional translocation 5AL (541-713Mb) 7BS (0-135Mb) ds1. This resulted increase copy number expression Q gene, thereby leading phenotype observed Conclusion We identified which exhibiting research deepens our understanding dosage-dependent effect gene on morphology, provides new materials several structural variations breeding.

Language: Английский

Systematic identification of wheat spike developmental regulators by integrated multi-omics, transcriptional network, GWAS, and genetic analyses DOI Creative Commons
Xuelei Lin, Yongxin Xu, Dongzhi Wang

et al.

Molecular Plant, Journal Year: 2024, Volume and Issue: 17(3), P. 438 - 459

Published: Feb. 2, 2024

Language: Английский

Citations

18
Deciphering the Transcriptional Regulatory Network Governing Starch and Storage Protein Biosynthesis in Wheat for Breeding Improvement DOI Creative Commons
Long Zhao, Jinchao Chen,

Zhaoheng Zhang

et al.

Advanced Science, Journal Year: 2024, Volume and Issue: 11(33)

Published: June 28, 2024

Starch and seed storage protein (SSP) composition profoundly impact wheat grain yield quality. To unveil regulatory mechanisms governing their biosynthesis, transcriptome, epigenome profiling is conducted across key endosperm developmental stages, revealing that chromatin accessibility, H3K27ac, H3K27me3 collectively regulate SSP starch genes with varying impact. Population transcriptome phenotype analyses highlight accessible promoter regions' crucial role as a genetic variation resource, influencing quality in core collection of accessions. Integration time-serial RNA-seq ATAC-seq enables the construction hierarchical transcriptional network identifying 42 high-confidence novel candidates. These candidates exhibit overlap regions associated size traits, functional significance validated through expression-phenotype association analysis among accessions loss-of-function mutants. Functional abscisic acid insensitive 3-A1 (TaABI3-A1) genome editing knock-out lines demonstrates its promoting accumulation while repressing biosynthesis regulation. Excellent TaABI3-A1

Language: Английский

Citations

12
A molecular mechanism for embryonic resetting of winter memory and restoration of winter annual growth habit in wheat DOI
De Niu, Zheng Gao, Bowen Cui

et al.

Nature Plants, Journal Year: 2024, Volume and Issue: 10(1), P. 37 - 52

Published: Jan. 4, 2024

Language: Английский

Citations

10
Deciphering spike architecture formation towards yield improvement in wheat DOI Creative Commons

Xumei Luo,

Yiman Yang, Xuelei Lin

et al.

Journal of genetics and genomics/Journal of Genetics and Genomics, Journal Year: 2023, Volume and Issue: 50(11), P. 835 - 845

Published: March 11, 2023

Wheat is the most widely grown crop globally, providing 20% of daily consumed calories and protein content around world. With growing global population frequent occurrence extreme weather caused by climate change, ensuring adequate wheat production essential for food security. The architecture inflorescence plays a crucial role in determining grain number size, which key trait improving yield. Recent advances genomics gene cloning techniques have improved our understanding spike development its applications breeding practices. Here, we summarize genetic regulation network governing formation, strategies used identifying studying factors affecting architecture, progress made applications. Additionally, highlight future directions that will aid regulatory mechanistic study determination targeted yield improvement.

Language: Английский

Citations

20
Creation and Phenotypic Analysis of an EMS Mutant Library for Processing Tomatoes DOI

M. Zhang,

Hongyan Du,

Shengqun Pang

et al.

Journal of Plant Growth Regulation, Journal Year: 2025, Volume and Issue: unknown

Published: Feb. 19, 2025

Language: Английский

Citations

0
Decoding cellular transcriptional regulatory networks governing wheat inflorescence development DOI Creative Commons
Jun Xiao, Xuemei Liu, Xuelei Lin

et al.

Research Square (Research Square), Journal Year: 2025, Volume and Issue: unknown

Published: March 12, 2025

Abstract In wheat, inflorescence architecture critically determines yield potential, yet its structural complexity and asynchronous development have hindered cellular-resolution studies of spikelet floret formation. Here, we integrate spatial transcriptomics, high-sensitivity multiplexed error-robust fluorescence in situ hybridization (MERFISH), snRNA-seq across six developmental stages to generate a spatiotemporal atlas the wheat inflorescence. We identified 20 cell types, spatially resolved into three categories: 1) proliferating cells within spikelet, marked by active division; 2) supporting along central axis, including pith, cortex, vasculature; 3) developmental located both inside at base spikelets. The multi-omics approach enabled identification rare type ovary. Trajectory inference revealed that spikelets florets originate from two temporally distinct sub-clusters proliferating cells (R7), each defined high expression regulators. These findings challenge conventional model sequential meristem transitions (inflorescence-spikelet-floret) in wheat. Integration time-series snATAC-seq delineated cellular transcriptional regulatory networks (cTRNs) governing formation, mediated auxin cytokinin signaling, driven MADS-box transcription factors. Cell identity was maintained type-specific accessible chromatin regions (csACRs), which are enriched for SNPs associated with spike-related traits. For instance, csACRs WFZP DUO1 promoters affect TaNAC30 binding, regulating supernumerary phenotypes. Our work provides mechanistic framework identifies cTRN nodes as potential targets optimizing yield-related architecture.

Language: Английский

Citations

0
Creating a gene-indexed EMS mutation library of Zheng58 for improving maize genetics research DOI
Leelyn Chong, Huihui Su, Yingpeng Liu

et al.

Theoretical and Applied Genetics, Journal Year: 2025, Volume and Issue: 138(4)

Published: March 27, 2025

Language: Английский

Citations

0
Spatiotemporal transcriptomics reveals key gene regulation for grain yield and quality in wheat DOI Creative Commons
Xiaohui Li,

Yiman Wan,

Dongzhi Wang

et al.

Genome biology, Journal Year: 2025, Volume and Issue: 26(1)

Published: April 11, 2025

Cereal grain size and quality are critical agronomic traits in crop production. Wheat development is governed by intricate regulatory networks that require precise spatiotemporal coordination of gene expression to establish functional compartments different cell types. Here, we perform a spatial transcriptomics study covering the early stages wheat development, from 4 12 days after pollination. We classify into 10 distinct types identify 192 marker genes associated with them. WGCNA analysis reveals highly expressed exhibit enrichment patterns, significantly influencing filling. Through co-expression motif analyses, specific group may regulate including TaABI3-B1, transcription factor specifically embryo surrounding endosperm, which negatively affects size. This presents comprehensive transcriptional dataset for understanding development. Additionally, it identifies key genetic resources potential applications improving yield.

Language: Английский

Citations

0
Development, genetic insights and phenotypic characterization of yield-related traits in EMS-induced mutants of black wheat DOI
Nidhi Shukla,

Monalisha Mishra,

Nand Kumar Singh

et al.

Cereal Research Communications, Journal Year: 2025, Volume and Issue: unknown

Published: April 29, 2025

Language: Английский

Citations

0
Population-scale gene expression analysis reveals the contribution of expression diversity to the modern wheat improvement DOI Open Access
Zhimeng Zhang, Shengwei Ma,

Mou Yin

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2025, Volume and Issue: unknown

Published: Feb. 23, 2025

Abstract Changes in gene expression are crucial for crop breeding, yet population genomics has primarily focused on sequence polymorphisms rather than diversity. The strategy of using single genome reference RNA-seq analysis could not handle introgression bias, especially hexaploidy wheat. Here, we conducted 328 wheat lines, including representative diverse landraces and elite cultivars from China the United States, to investigate role variation shaping agronomic traits. Using pan-genome resources, identified 20,615 more transcripts ‘Chinese Spring’ alone. We constructed a pan-gene atlas regulatory map through eQTL analysis, demonstrating that genes introgressed wild relatives were under tight genetic control. Genes responding environmental stress show higher activity after into genome, how long-term breeding selection impacted regulation targeted introgression. Multi-omics modeling 231 high-confidence candidate 34 field traits seedling resistance phenotypes 8 powdery mildew isolates. More one fifth those candidates have no homolog genome. By utilizing indexed KN9204 EMS library, 80% showed significant trait difference between type mutant lines. Furthermore, directional shifts which changed by improvement demonstrated distinct adaptations local environments. Our study correct bias reads mapping studies revealed patterns within their mechanisms, highlighted impact world’s most important crop.

Language: Английский

Citations

0