The DOI matches its Crossref record; 48 of the 48 references it cites were found in a registry or an index.
Caught Red-Handed:Rc Encodes a Basic Helix-Loop-Helix Protein Conditioning Red Pericarp in Rice
Open accessAbstract
Rc is a domestication-related gene required for red pericarp in rice (Oryza sativa). The red grain color is ubiquitous among the wild ancestors of O. sativa, in which it is closely associated with seed shattering and dormancy. Rc encodes a basic helix-loop-helix (bHLH) protein that was fine-mapped to an 18.5-kb region on rice chromosome 7 using a cross between Oryza rufipogon (red pericarp) and O. sativa cv Jefferson (white pericarp). Sequencing of the alleles from both mapping parents as well as from two independent genetic stocks of Rc revealed that the dominant red allele differed from the recessive white allele by a 14-bp deletion within exon 6 that knocked out the bHLH domain of the protein. A premature stop codon was identified in the second mutant stock that had a light red pericarp. RT-PCR experiments confirmed that the Rc gene was expressed in both red- and white-grained rice but that a shortened transcript was present in white varieties. Phylogenetic analysis, supported by comparative mapping in rice and maize (Zea mays), showed that Rc, a positive regulator of proanthocyanidin, is orthologous with INTENSIFIER1, a negative regulator of anthocyanin production in maize, and is not in the same clade as rice bHLH anthocyanin regulators.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Thompson, J. D., Higgins, D. G., & Gibson, T. J. (1994) · Nucleic Acids Research · doi:10.1093/nar/22.22.4673 · Cited by 64,617
Hall, T. A. (1999) · Nucleic Acids Symposium Series · doi:10.14601/phytopathol_mediterr-14998u1.29 · Cited by 38,297
MRBAYES: Bayesian inference of phylogenetic trees.
Huelsenbeck, J. P., & Ronquist, F. (2001) · Bioinformatics · doi:10.1093/bioinformatics/17.8.754 · Cited by 21,937
Flavonoid Biosynthesis. A Colorful Model for Genetics, Biochemistry, Cell Biology, and Biotechnology
Winkel-Shirley, B. (2001) · Plant Physiology · doi:10.1104/pp.126.2.485 · Cited by 3,635
Isolation and characterization
Turksen, K. (2006) · Humana Press eBooks · Cited by 2,146
BLAST 2 Sequences, a new tool for comparing protein and nucleotide sequences
Tatusova, T. A., & Madden, T. L. (1999) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.1999.tb13575.x · Cited by 1,789
Estimating Synonymous and Nonsynonymous Substitution Rates Under Realistic Evolutionary Models
Yang, Z., & Nielsen, R. (2000) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a026236 · Cited by 1,764
Gonzalez, J. M., & Saiz‐Jimenez, C. (2002) · Environmental Microbiology · doi:10.1046/j.1462-2920.2002.00362.x · Cited by 1,710
Development and Mapping of 2240 New SSR Markers for Rice (Oryza sativa L.)
McCouch, S. R. (2002) · DNA Research · doi:10.1093/dnares/9.6.199 · Cited by 1,528
Self-citationA Fine-Scale Map of Recombination Rates and Hotspots Across the Human Genome
Myers, S., Bottolo, L., Freeman, C., McVean, G., & Donnelly, P. (2005) · Science · doi:10.1126/science.1117196 · Cited by 1,134
Cited by
Genomic variation in 3,010 diverse accessions of Asian cultivated rice
Wang, W., Mauleon, R., Hu, Z., Chebotarov, D., Tai, S., Wu, Z., Li, M., Zheng, T., Fuentes, R. R., Zhang, F., et al. (2018) · Nature · doi:10.1038/s41586-018-0063-9 · Cited by 1,748
A map of rice genome variation reveals the origin of cultivated rice
Huang, X., Kurata, N., Wei, X., Wang, Z.-X., Wang, A., Zhao, Q., Zhao, Y., Liu, K., Lu, H., Li, W., et al. (2012) · Nature · doi:10.1038/nature11532 · Cited by 1,634
Molecular Aspects of Seed Dormancy
Finkelstein, R., Reeves, W., Ariizumi, T., & Steber, C. (2008) · Annual Review of Plant Biology · doi:10.1146/annurev.arplant.59.032607.092740 · Cited by 1,379
Recent advances on the regulation of anthocyanin synthesis in reproductive organs
Petroni, K., & Tonelli, C. (2011) · Plant Science · doi:10.1016/j.plantsci.2011.05.009 · Cited by 935
Xu, X., Liu, X., Ge, S., Jensen, J. D., Hu, F., Li, X., Dong, Y., Gutenkunst, R. N., Fang, L., Huang, L., et al. (2012) · Nature Biotechnology · doi:10.1038/nbt.2050 · Cited by 850
Self-citation
Metadata
- Authors
- Sweeney, M. T., Thomson, M. J., Pfeil, B. E., & McCouch, S.
- Venue
- The Plant Cell
- Publisher
- Oxford University Press (OUP)
- Published
- 2006-01-06
- Volume
- 18
- Issue
- 2
- Pages
- 283-294
- ISSN
- 1040-4651 (ISSN-L)
- 1532-298X
- OpenAlex
- W2110811926
- Cited by
- 548
- References
- 48
- FWCI
- 11.13
- Type
- journal article
- Language
- en
- Open access
- hybrid
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
How to cite
Cite CoChat for the checks on this page, and the paper for its own findings.
- This page
- CoChat. (2026). Citation check: Caught Red-Handed:Rc Encodes a Basic Helix-Loop-Helix Protein Conditioning Red Pericarp in Rice. https://app.cochat.ai/papers/10.1105/tpc.105.038430
- The paper
- Sweeney, M. T., Thomson, M. J., Pfeil, B. E., & McCouch, S. (2006). Caught Red-Handed:Rc Encodes a Basic Helix-Loop-Helix Protein Conditioning Red Pericarp in Rice. The Plant Cell. https://doi.org/10.1105/tpc.105.038430
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
