ArticleThe Plant cell2015
The Birth of a Black Rice Gene and Its Local Spread by Introgression.
Article in The Plant cell, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 80 papers.
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Who cites it
80 citing papers in PubMed, 241 citations in OpenAlex.
- Targeted anthocyanin biofortification in black rice: a review of spatial metabolic control, growth-defence trade-offs and genotype-environment-management design.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Single-Cell CRISPR: An Efficient Strategy for Decoding Plant Cis-Regulatory Complexity.Plant biotechnology journal · 2026Review
- The Science of Colour in Rice: A Review on Health Benefits, Genetic Regulation, and Anthocyanin Stability.Rice (New York, N.Y.) · 2026Review
- Regulatory Roles of PURPLE FRUIT 1 and OsPa in Pigmentation of Rice Grain.Rice (New York, N.Y.) · 2026Article
- Integrative multi-omics analysis reveals the domestication mechanism of black rice.National science review · 2026Article
- Two bHLH Transcription Factor GenesPlants (Basel, Switzerland) · 2026Article
- Engineering non-coding DNA Elements in Rice: an Elegant Approach To fine-tune Agronomical Advantageous Traits.Rice (New York, N.Y.) · 2025Review
- A simple method to efficiently generate structural variation in plants.PLoS genetics · 2025Article
- Comparative analysis of the metabolite compositions and antioxidant capacity of waxy and non-waxy black rice (Food chemistry: X · 2025Article
- Pleiotropic effects of red and purple pericarp genes on seed coating patterns, flavonoids, dormancy, and germination in rice.G3 (Bethesda, Md.) · 2025Article
- Unlocking the potential of wild rice to bring missing nutrition to elite grains.Plant communications · 2025Review
- Harnessing neo-domestication of wild pigmented rice for enhanced nutrition and sustainable agriculture.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Review
- Advances and Future Prospects of Pigment Deposition in Pigmented Rice.Plants (Basel, Switzerland) · 2025Review
- Regulation of Flavonoid Biosynthesis by the MYB-bHLH-WDR (MBW) Complex in Plants and Its Specific Features in Cereals.International journal of molecular sciences · 2025Review
- Uncovering genetic determinants of antioxidant properties in Thai landrace rice through genome-wide association analysis.Scientific reports · 2025Article
- Comprehensive genetic diversity revealed in the pre-breeding RILs (Frontiers in genetics · 2025Article
- Introgression among subgroups is an important driving force for genetic improvement and evolution of the Asian cultivated riceFrontiers in plant science · 2025Review
- Advances in Plant GABA Research: Biological Functions, Synthesis Mechanisms and Regulatory Pathways.Plants (Basel, Switzerland) · 2024Review
- Breeding Rice to Increase Anthocyanin Yield Per Area through Small, Black Grain Size and Three Grains per Spikelet.Plants (Basel, Switzerland) · 2024Article
- Sequence and epigenetic variations of R2R3-MYB transcription factors determine the diversity of taproot skin and flesh colors in different cultivated types of radish (Raphanus sativus L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
20 more citing papers are in PubMed but not listed here.
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Authors and funding
9 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The origin and spread of novel agronomic traits during crop domestication are complex events in plant evolution. Wild rice (Oryza rufipogon) has red grains due to the accumulation of proanthocyanidins, whereas most cultivated rice (Oryza sativa) varieties have white grains induced by a defective allele in the Rc basic helix-loop-helix (bHLH) gene. Although the events surrounding the origin and spread of black rice traits remain unknown, varieties with black grains due to anthocyanin accumulation are distributed in various locations throughout Asia. Here, we show that the black grain trait originated from ectopic expression of the Kala4 bHLH gene due to rearrangement in the promoter region. Both the Rc and Kala4 genes activate upstream flavonol biosynthesis genes, such as chalcone synthase and dihydroflavonol-4-reductase, and downstream genes, such as leucoanthocyanidin reductase and leucoanthocyanidin dioxygenase, to produce the respective specific pigments. Genome analysis of 21 black rice varieties as well as red- and white-grained landraces demonstrated that black rice arose in tropical japonica and its subsequent spread to the indica subspecies can be attributed to the causal alleles of Kala4. The relatively small size of genomic fragments of tropical japonica origin in some indica varieties indicates that refined introgression must have occurred by natural crossbreeding in the course of evolution of the black trait in rice.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.