ArticleProceedings of the National Academy of Sciences of the United States of America2004
Long-range patterns of diversity and linkage disequilibrium surrounding the maize Y1 gene are indicative of an asymmetric selective sweep.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 81 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
81 citing papers in PubMed, 214 citations in OpenAlex.
- The MexMAGIC population reveals the genetic architecture of traits exhibiting clinal variation in Mexican native maize.The New phytologist · 2026Article
- Genetic Dissection of Carotenoid Variation by Integrating Quantitative Trait Loci Mapping and Candidate Region Association Study in Sweet Corn.Plants (Basel, Switzerland) · 2025Article
- Genome-wide association study identifies quantitative trait loci associated with resistance to Verticillium dahliae race 3 in tomato.The plant genome · 2025Article
- Host genotype-driven shifts in theFrontiers in microbiology · 2025Article
- Evolutionary and synteny analysis of HIS1, BADH2, GBSS1, and GBSS2 in rice: insights for effective introgression breeding strategies.Scientific reports · 2024Article
- Selective sweeps identification in distinct groups of cultivated rye (Secale cereale L.) germplasm provides potential candidate genes for crop improvement.BMC plant biology · 2023Article
- A role for heritable transcriptomic variation in maize adaptation to temperate environments.Genome biology · 2023Article
- Molecular genetic variation of animals and plants under domestication.Proceedings of the National Academy of Sciences of the United States of America · 2022Review
- Understanding Omics Driven Plant Improvement andFrontiers in genetics · 2021Review
- A hybrid sterile locus leads to the linkage drag of interspecific hybrid progenies.Plant diversity · 2020Article
- Genome-wide association analysis of stripe rust resistance loci in wheat accessions from southwestern China.Journal of applied genetics · 2020Article
- Identifying loci with breeding potential across temperate and tropical adaptation via EigenGWAS and EnvGWAS.Molecular ecology · 2019Article
- Changing Form and Function through Carotenoids and Synthetic Biology.Plant physiology · 2019Article
- Molecular analysis of mutant3 Biotech · 2019Article
- High Levels of Variation Within Gene Sequences ofFrontiers in plant science · 2018Article
- Non-random transmission of parental alleles into crop-wild and crop-weed hybrid lineages separated by a transgene and neutral identifiers in rice.Scientific reports · 2017Article
- Structure and Origin of theGenetics · 2017Article
- Genome-wide indel/SSR scanning reveals significant loci associated with excellent agronomic traits of a cabbage (Brassica oleracea) elite parental line '01-20'.Scientific reports · 2017Article
- Back into the wild-Apply untapped genetic diversity of wild relatives for crop improvement.Evolutionary applications · 2017Review
- Genetic diversity of theBreeding science · 2016Article
21 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
4 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Both yellow and white corn occurs among ancestral open pollinated varieties. More recently, breeders have selected yellow endosperm variants of maize over ancestral white phenotypes for their increased nutritional value resulting from the up-regulation of the Y1 phytoene synthase gene product in endosperm tissue. As a result, diversity within yellow maize lines at the Y1 gene is dramatically decreased as compared to white corn. We analyzed patterns of sequence diversity and linkage disequilibrium in nine low copy regions located at varying distances from the Y1 gene, including a homolog of the barley Mlo gene. Patterns consistent with a selective sweep, such as significant associations of informative single-nucleotide polymorphisms with endosperm color phenotype, linkage disequilibrium, and significantly reduced diversity within the yellow endosperm haplotypes, were observed up to 600 kb downstream of Y1, whereas the upstream region showed a more rapid recovery. The starch branching enzyme 1 (sbe1) gene is the first region downstream of Y1 that does not have a highly conserved haplotype in the yellow endosperm germplasm.
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.