ArticleMolecular ecology2010
Seeing red: the origin of grain pigmentation in US weedy rice.
Article in Molecular ecology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
29 citing papers in PubMed.
- Red pericarp trait, common to weedy rice, contributes to freezing tolerance of seeds and their ability to overwinter in soil.AoB PLANTS · 2026Article
- Pleiotropic effects of red and purple pericarp genes on seed coating patterns, flavonoids, dormancy, and germination in rice.G3 (Bethesda, Md.) · 2025Article
- Population genomic analysis unravels the evolutionary roadmap of pericarp color in rice.Plant communications · 2024Article
- Genetic Diversity of Weedy Rice and Its Potential Application as a Novel Source of Disease Resistance.Plants (Basel, Switzerland) · 2023Review
- Transcriptomic and QTL Analysis of Seed Germination Vigor under Low Temperature in Weedy Rice WR04-6.Plants (Basel, Switzerland) · 2023Article
- Seed Shattering: A Trait of Evolutionary Importance in Plants.Frontiers in plant science · 2021Review
- Overexpression of improved EPSPS gene results in field level glyphosate tolerance and higher grain yield in rice.Plant biotechnology journal · 2020Article
- Something old, something new: Evolution of Colombian weedy rice (Evolutionary applications · 2020Article
- Weedy Rice as a Novel Gene Resource: A Genome-Wide Association Study of Anthocyanin Biosynthesis and an Evaluation of Nutritional Quality.Frontiers in plant science · 2020Article
- When West Meets East: The Origins and Spread of Weedy Rice Between Continental and Island Southeast Asia.G3 (Bethesda, Md.) · 2019Article
- Genetic variation and possible origins of weedy rice found in California.Ecology and evolution · 2019Article
- Call of the wild rice:Evolutionary applications · 2019Article
- Two Contrasting Patterns and Underlying Genes for Coadaptation of Seed Dormancy and Flowering Time in Rice.Scientific reports · 2018Article
- The Role of Standing Variation in the Evolution of Weedines Traits in South Asian Weedy Rice (G3 (Bethesda, Md.) · 2018Article
- Population genomics identifies the origin and signatures of selection of Korean weedy rice.Plant biotechnology journal · 2017Article
- Systems Genetics Identifies a Novel Regulatory Domain of Amylose Synthesis.Plant physiology · 2017Article
- Little White Lies: Pericarp Color Provides Insights into the Origins and Evolution of Southeast Asian Weedy Rice.G3 (Bethesda, Md.) · 2016Article
- Fitness correlates of crop transgene flow into weedy populations: a case study of weedy rice in China and other examples.Evolutionary applications · 2016Review
- Evolutionary and social consequences of introgression of nontransgenic herbicide resistance from rice to weedy rice in Brazil.Evolutionary applications · 2016Review
- Cytoplasmic-genetic male sterility gene provides direct evidence for some hybrid rice recently evolving into weedy rice.Scientific reports · 2015Article
Corrections and comments
- Commented on by
Authors and funding
6 authors.
Funding
Abstract
Weedy forms of crop species infest agricultural fields worldwide and are a leading cause of crop losses, yet little is known about how these weeds evolve. Red rice (Oryza sativa), a major weed of cultivated rice fields in the US, is recognized by the dark-pigmented grain that gives it its common name. Studies using neutral molecular markers have indicated a close relationship between US red rice and domesticated rice, suggesting that the weed may have originated through reversion of domesticated rice to a feral form. We have tested this reversion hypothesis by examining molecular variation at Rc, the regulatory gene responsible for grain pigmentation differences between domesticated and wild rice. Loss-of-function mutations at Rc account for the absence of proanthocyanidin pigments in cultivated rice grains, and the major rc domestication allele has been shown to be capable of spontaneous reversion to a functional form through additional mutations at the Rc locus. Using a diverse sample of 156 weedy, domesticated and wild Oryzas, we analysed DNA sequence variation at Rc and its surrounding 4 Mb genomic region. We find that reversion of domestication alleles does not account for the pigmented grains of weed accessions; moreover, we find that haplotypes characterizing the weed are either absent or very rare in cultivated rice. Sequences from genomic regions flanking Rc are consistent with a genomic footprint of the rc selective sweep in cultivated rice, and they are compatible with a close relationship of red rice to Asian Oryzas that have never been cultivated in the US.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.