ArticlePlant & cell physiology2017
Complementary Proteome and Transcriptome Profiling in Developing Grains of a Notched-Belly Rice Mutant Reveals Key Pathways Involved in Chalkiness Formation.
Article in Plant & cell physiology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 51 citations in OpenAlex.
- The mysterious dialogue between the embryo, endosperm, and seed coat, and its implications for seed traits.Journal of experimental botany · 2026Review
- Physiological and transcriptome analyses for revealing the mechanism of adventitious root formation in Camellia luteoflora.BMC plant biology · 2026Article
- Haplotype Analysis of the GL7/GW7/SLG7 Gene and Its Application in Improving the Grain Quality of Three-Line Hybrid Rice.Rice (New York, N.Y.) · 2025Article
- CRISPR/Cas9-based modulation of V-PPase expression in rice improves grain quality and yield under high nighttime temperature.Plant cell reports · 2025Article
- Comprehensive GWAS and Transcriptome Analysis Discovered Candidate Gene Associated with Starch Pasting Properties of Temperate japonica rice (Oryza sativa L.).Rice (New York, N.Y.) · 2025Article
- Positional variations of rice protein compositions accumulation within a panicle during the grain filling.BMC plant biology · 2025Article
- Mapping of qChalk1 controlling grain chalkiness in japonica rice.Molecular biology reports · 2023Article
- Meta-QTL and haplo-pheno analysis reveal superior haplotype combinations associated with low grain chalkiness under high temperature in rice.Frontiers in plant science · 2023Article
- Transcriptome and Metabolome Analyses Reveals the Pathway and Metabolites of Grain Quality Under Phytochrome B in Rice (Oryza sativa L.).Rice (New York, N.Y.) · 2022Article
- Identification of Key Genes during Ethylene-Induced Adventitious Root Development in Cucumber (International journal of molecular sciences · 2022Article
- Dynamic formation and transcriptional regulation mediated by phytohormones during chalkiness formation in rice.BMC plant biology · 2021Article
- Proteome and transcriptome analyses of wheat near isogenic lines identifies key proteins and genes of wheat bread quality.Scientific reports · 2021Article
- Metabolic Disturbance Induced by the Embryo Contributes to the Formation of Chalky Endosperm of a Notched-Belly Rice Mutant.Frontiers in plant science · 2021Article
- Identification and Pleiotropic Effect Analysis ofFrontiers in plant science · 2021Article
- Integrated Omics Analyses Identify Key Pathways Involved in Petiole Rigidity Formation in Sacred Lotus.International journal of molecular sciences · 2020Article
- Cuminal InhibitsMicroorganisms · 2020Article
- Embryo-Endosperm Interaction and Its Agronomic Relevance to Rice Quality.Frontiers in plant science · 2020Review
- iTRAQ proteomics reveals the regulatory response to Magnaporthe oryzae in durable resistant vs. susceptible rice genotypes.PloS one · 2020Article
- Integrated analysis of quantitative proteome and transcriptional profiles reveals abnormal gene expression and signal pathway in bladder cancer.Genes & genomics · 2019Article
- iTRAQ-based quantitative analysis reveals proteomic changes in Chinese cabbage (Brassica rapa L.) in response to Plasmodiophora brassicae infection.Scientific reports · 2019Article
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Rice grain chalkiness is a highly complex trait involved in multiple metabolic pathways and controlled by polygenes and growth conditions. To uncover novel aspects of chalkiness formation, we performed an integrated profiling of gene activity in the developing grains of a notched-belly rice mutant. Using exhaustive tandem mass spectrometry-based shotgun proteomics and whole-genome RNA sequencing to generate a nearly complete catalog of expressed mRNAs and proteins, we reliably identified 38,476 transcripts and 3,840 proteins. Comparison between the translucent part and chalky part of the notched-belly grains resulted in only a few differently express genes (240) and differently express proteins (363), thus making it possible to focus on 'core' genes or common pathways. Several novel key pathways were identified as of relevance to chalkiness formation, in particular the shift of C and N metabolism, the down-regulation of ribosomal proteins and the resulting low abundance of storage proteins especially the 13 kDa prolamin subunit, and the suppressed photosynthetic capacity in the pericarp of the chalky part. Further, genes and proteins as transporters for carbohydrates, amino acid/peptides, proteins, lipids and inorganic ions showed an increasing expression pattern in the chalky part of the notched-belly grains. Similarly, transcripts and proteins of receptors for auxin, ABA, ethylene and brassinosteroid were also up-regulated. In summary, this joint analysis of transcript and protein profiles provides a comprehensive reference map of gene activity regarding the physiological state in the chalky endosperm.
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