ArticlePloS one2012
Genome-wide analysis of the complex transcriptional networks of rice developing seeds.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
44 citing papers in PubMed, 98 citations in OpenAlex.
- OsMYB94 functions as a master regulator of metabolic pathways associated with rice caryopsis maturation and quality formation.The New phytologist · 2026Article
- Prediction of new candidate proteins and analysis of sub-modules and protein hubs associated with seed development in rice (Oryza sativa) using an ensemble network-based systems biology approach.BMC plant biology · 2025Article
- Carbohydrate flow during grain filling: Phytohormonal regulation and genetic control in rice (Oryza sativa).Journal of integrative plant biology · 2025Review
- Genome-Wide Identification and In Silico Expression Analysis ofPlants (Basel, Switzerland) · 2025Article
- Transcriptome and metabolome analyses reveal regulatory networks associated with nutrition synthesis in sorghum seeds.Communications biology · 2024Article
- RNA-Seq transcriptome profiling of immature grain wheat is a technique for understanding comparative modeling of baking quality.Scientific reports · 2024Article
- Gene expression variations and allele-specific expression of two rice and their hybrid in caryopses at single-nucleus resolution.Frontiers in plant science · 2023Article
- Gene Expression in the Developing Seed of Wild and Domesticated Rice.International journal of molecular sciences · 2022Article
- Laser microdissection transcriptome data derived gene regulatory networks of developing rice endosperm revealed tissue- and stage-specific regulators modulating starch metabolism.Plant molecular biology · 2022Article
- Transcriptome and Coexpression Network Analyses Provide In-Sights into the Molecular Mechanisms of Hydrogen Cyanide Synthesis during Seed Development in Common Vetch (International journal of molecular sciences · 2022Article
- Spatial distribution of proteins and metabolites in developing wheat grain and their differential regulatory response during the grain filling process.The Plant journal : for cell and molecular biology · 2021Article
- Genome Wide Analysis of the Transcriptional Profiles in Different Regions of the Developing Rice Grains.Rice (New York, N.Y.) · 2020Article
- Global transcriptome analysis uncovers the gene co-expression regulation network and key genes involved in grain development of wheat (Triticum aestivum L.).Functional & integrative genomics · 2019Article
- Targeted Endoplasmic Reticulum Localization of Storage Protein mRNAs Requires the RNA-Binding Protein RBP-L.Plant physiology · 2019Article
- RicetissueTFDB: A Genome-Wide Identification of Tissue-Specific Transcription Factors in Rice.The plant genome · 2019Article
- The Rice Alpha-Amylase, Conserved Regulator of Seed Maturation and Germination.International journal of molecular sciences · 2019Review
- Genome-wide identification of grain filling genes regulated by the OsSMF1 transcription factor in rice.Rice (New York, N.Y.) · 2017Article
- Global transcriptome analysis and identification of genes involved in nutrients accumulation during seed development of rice tartary buckwheat (Fagopyrum Tararicum).Scientific reports · 2017Article
- Seed maturation associated transcriptional programs and regulatory networks underlying genotypic difference in seed dormancy and size/weight in wheat (Triticum aestivum L.).BMC plant biology · 2017Article
- Activation-tagging in indica rice identifies a novel transcription factor subunit, NF-YC13 associated with salt tolerance.Scientific reports · 2017Article
Corrections and comments
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Authors and funding
3 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe development of rice (Oryza sativa) seed is closely associated with assimilates storage and plant yield, and is fine controlled by complex regulatory networks. Exhaustive transcriptome analysis of developing rice embryo and endosperm will help to characterize the genes possibly involved in the regulation of seed development and provide clues of yield and quality improvement. PRINCIPAL
findingsOur analysis showed that genes involved in metabolism regulation, hormone response and cellular organization processes are predominantly expressed during rice development. Interestingly, 191 transcription factor (TF)-encoding genes are predominantly expressed in seed and 59 TFs are regulated during seed development, some of which are homologs of seed-specific TFs or regulators of Arabidopsis seed development. Gene co-expression network analysis showed these TFs associated with multiple cellular and metabolism pathways, indicating a complex regulation of rice seed development. Further, by employing a cold-resistant cultivar Hanfeng (HF), genome-wide analyses of seed transcriptome at normal and low temperature reveal that rice seed is sensitive to low temperature at early stage and many genes associated with seed development are down-regulated by low temperature, indicating that the delayed development of rice seed by low temperature is mainly caused by the inhibition of the development-related genes. The transcriptional response of seed and seedling to low temperature is different, and the differential expressions of genes in signaling and metabolism pathways may contribute to the chilling tolerance of HF during seed development.
conclusionsThese results provide informative clues and will significantly improve the understanding of rice seed development regulation and the mechanism of cold response in rice seed.
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