ArticleGenetics2007
The extent of linkage disequilibrium in rice (Oryza sativa L.).
Article in Genetics, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 198 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
198 citing papers in PubMed.
- Candidate genes identification for internode length in rice via genome-wide association studies.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Insights into lentil diversity, domestication, and the genetic basis of important agronomic traits through resequencing of 238 Lens accessions.The Plant journal : for cell and molecular biology · 2026Article
- A transposon insertion in the 5' UTR of OsPT1 reprograms its expression pattern and promotes cadmium accumulation in rice grains.Plant communications · 2026Article
- Integrative genomic approaches to unravel genomic regions and candidate genes associated with flag leaf photosynthesis at the reproductive stage in rice.Frontiers in plant science · 2026Article
- Genetic architecture of seedling stage chilling tolerance in United States rice germplasm.Frontiers in plant science · 2026Article
- Genome-wide association study (GWAS) and transcription analysis of candidate genes for rice grain eating and cooking quality (ECQ) traits.BMC genomics · 2025Article
- The effect of haplotype size on genomic selection accuracy and epistasis: An empirical study in rice.The plant genome · 2025Article
- Improving grain yield and salt tolerance by optimizing plant height with beneficial haplotypes in rice (Oryza sativa).Journal of advanced research · 2025Article
- Genome-wide association mapping and transcriptional analysis uncover genetic determinants of minor tocopherols in rice seeds.Scientific reports · 2025Article
- Unlocking genetic hotspots: GWAS reveals key nitrogen responsive genomic regions and key genes for root and yield traits in indica rice.Molecular genetics and genomics : MGG · 2025Article
- Independent origins and non-parallel selection signatures of triclabendazole resistance in Fasciola hepatica.Nature communications · 2025Article
- Genome-wide association study identifies elite alleles of FLA2 and FLA9 controlling flag leaf angle in rice.BMC genomics · 2025Article
- Elite Alleles of EPE1 Identified via Genome-wide Association Studies Increase Panicle Elongation Length in Rice.Rice (New York, N.Y.) · 2025Article
- Article
- Integrative genomic and transcriptomic dissection of salt tolerance forFrontiers in plant science · 2025Article
- GW3, encoding a member of the P450 subfamily, controls grain width by regulating the GATAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Genome-wide association study provides new insight into the underlying mechanism of drought tolerance during seed germination stage in soybean.Scientific reports · 2024Article
- Discovering New QTNs and Candidate Genes Associated with Rice-Grain-Related Traits within a Collection of Northeast Core Set and Rice Landraces.Plants (Basel, Switzerland) · 2024Article
- Genome-Wide Association Study to Identify Marker-Trait Associations for Seed Color in Colored Wheat (International journal of molecular sciences · 2024Article
- A Genome-Wide Association Study Reveals the Genetic Mechanisms of Nutrient Accumulation in Spinach.Genes · 2024Article
138 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Despite its status as one of the world's major crops, linkage disequilibrium (LD) patterns have not been systematically characterized across the genome of Asian rice (Oryza sativa). Such information is critical to fully exploit the genome sequence for mapping complex traits using association techniques. Here we characterize LD in five 500-kb regions of the rice genome in three major cultivated rice varieties (indica, tropical japonica, and temperate japonica) and in the wild ancestor of Asian rice, Oryza rufipogon. Using unlinked SNPs to determine the amount of background linkage disequilibrium in each population, we find that the extent of LD is greatest in temperate japonica (probably >500 kb), followed by tropical japonica (approximately 150 kb) and indica (approximately 75 kb). LD extends over a shorter distance in O. rufipogon (<<40 kb) than in any of the O. sativa groups assayed here. The differences in the extent of LD among these groups are consistent with differences in outcrossing and recombination rate estimates. As well as heterogeneity between groups, our results suggest variation in LD patterns among genomic regions. We demonstrate the feasibility of genomewide association mapping in cultivated Asian rice using a modest number of SNPs.
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.