ArticleFunctional & integrative genomics2019
Global transcriptome analysis uncovers the gene co-expression regulation network and key genes involved in grain development of wheat (Triticum aestivum L.).
Article in Functional & integrative genomics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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21 citing papers in PubMed, 32 citations in OpenAlex.
- Genetic dissection of a key dynamic growth period QTL for source-sink-related traits and its breeding application potential in wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Integrative multi-omics analysis uncovers the regulatory network of wheat grain development during grain filling.BMC plant biology · 2026Article
- Assessment of key transcription factors and drought-responsive genes in wheat cultivars under drought stress.Journal, genetic engineering & biotechnology · 2026Article
- Balancing act: transcriptomic, morphological, and biochemical insights into wheat endosperm development associated with bread quality.BMC plant biology · 2026Article
- Antagonistic effects of selection on alleles associated with seed size and seed dormancy in wheat.Genome biology · 2025Article
- TaWUS-like-5D affects grain weight and filling by inhibiting the expression of sucrose and trehalose metabolism-related genes in wheat grain endosperm.Plant biotechnology journal · 2025Article
- The dynamic epigenetic atlas and its effects on instability of starch and seed storage protein quality traits in wheat (Frontiers in plant science · 2025Article
- Pleiotropic phenotypic effects of the TaCYP78A family on multiple yield-related traits in wheat.Plant biotechnology journal · 2024Article
- Article
- Transcriptome and metabolome analyses reveal regulatory networks associated with nutrition synthesis in sorghum seeds.Communications biology · 2024Article
- Identification and Analysis of lncRNA and circRNA Related to Wheat Grain Development.International journal of molecular sciences · 2024Article
- RNA-Seq transcriptome profiling of immature grain wheat is a technique for understanding comparative modeling of baking quality.Scientific reports · 2024Article
- Integrated Transcriptome Analysis Identified Key Expansin Genes Associated with Wheat Cell Wall, Grain Weight and Yield.Plants (Basel, Switzerland) · 2023Article
- Comparative physiological and biochemical mechanisms in diploid, triploid, and tetraploid watermelon (Citrullus lanatus L.) grafted by branches.Scientific reports · 2023Article
- Modified expression of TaCYP78A5 enhances grain weight with yield potential by accumulating auxin in wheat (Triticum aestivum L.).Plant biotechnology journal · 2022Article
- Mapping Resistance to ArgentineanInternational journal of molecular sciences · 2021Article
- A Sheathed Spike Gene,International journal of molecular sciences · 2021Article
- Transcriptome Analysis Reveals a Potential Role of Benzoxazinoid in Regulating Stem Elongation in the Wheat MutantFrontiers in genetics · 2021Article
- Toward the Genetic Basis and Multiple QTLs of Kernel Hardness in Wheat.Plants (Basel, Switzerland) · 2020Article
- The Wheat GENIE3 Network Provides Biologically-Relevant Information in Polyploid Wheat.G3 (Bethesda, Md.) · 2020Article
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Authors and funding
11 authors at 3 institutions in 3 countries.
Funding
Abstract
Wheat grain development is a robust biological process that largely determines grain quality and yield. In this study, we investigated the grain transcriptome of winter wheat cv. Xiaoyan-6 at four developmental stages (5, 10, 15, and 20 days post-anthesis), using high-throughput RNA sequencing (RNA-Seq). We identified 427 grain-specific transcription factors (TFs) and 1653 differentially expressed TFs during grain development as well as a grain co-expression regulation network (GrainNet) of the TFs and their predicted co-expressed genes. Our study identified ten putative key TFs and the predicted regulatory genes of these TFs in wheat grain development of Xiaoyan-6. The analysis was given a firm basis through the study of additional wheat tissues, including root, stem, leaf, flag leaf, grain, spikes (from wheat plants at booting or heading stages) to provide a dataset of 92,478 high-confidence protein-coding genes that were mostly evenly distributed among subgenomes, but unevenly distributed across each of the chromosomes or each of the seven homeologous groups. Within this larger framework of the transcriptomes, we identified 4659 grain-specific genes (SEGs) and 26,500 differentially expressed genes (DEGs) throughout grain development stages tested. The SEGs identified mainly associate with regulation and signaling-related biological processes, while the DEGs mainly involve in cellular component organization or biogenesis and nutrient reservoir activity during grain development of Xiaoyan-6. This study establishes new targets for modifying genes related to grain development and yield, to fine-tune expression in different varieties and environments.
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