ArticlePLoS genetics2015
The Multi-allelic Genetic Architecture of a Variance-Heterogeneity Locus for Molybdenum Concentration in Leaves Acts as a Source of Unexplained Additive Genetic Variance.
Article in PLoS genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 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
36 citing papers in PubMed, 69 citations in OpenAlex.
- distQTL: distribution quantitative trait loci identification by population-scale single-cell data.NAR genomics and bioinformatics · 2025Article
- Mean and variance heterogeneity loci impact kernel compositional traits in maize.The plant genome · 2025Article
- distQTL: Distribution Quantitative Trait Loci Identification by Population-Scale Single-Cell Data.bioRxiv : the preprint server for biology · 2025Article
- Comparison of linkage and association mapping in MAGIC lines identifies AtMTP3 as a new gene controlling natural variation in leaf zinc concentration in Arabidopsis.Journal of experimental botany · 2025Article
- Metal nutrition and transport in the process of symbiotic nitrogen fixation.Plant communications · 2024Review
- Detecting genetic effects on phenotype variability to capture gene-by-environment interactions: a systematic method comparison.G3 (Bethesda, Md.) · 2024Review
- Elemental profiling and genome-wide association studies reveal genomic variants modulating ionomic composition inFrontiers in plant science · 2024Article
- Article
- Genetic dissection of maize (Zea maysL.) trace element traits using genome-wide association studies.BMC plant biology · 2023Article
- Chasing the mechanisms of ecologically adaptive salinity tolerance.Plant communications · 2023Review
- Review
- Climate change challenges, plant science solutions.The Plant cell · 2023Article
- Genome-wide variance quantitative trait locus analysis suggests small interaction effects in blood pressure traits.Scientific reports · 2022Article
- Genetics as a key to improving crop photosynthesis.Journal of experimental botany · 2022Article
- Physiological Importance of Molybdate Transporter Family 1 in Feeding the Molybdenum Cofactor Biosynthesis Pathway inMolecules (Basel, Switzerland) · 2022Article
- GWAS of longitudinal trajectories at biobank scale.American journal of human genetics · 2022Article
- Genome-Wide Association Study Reveals Genomic Regions Associated With Molybdenum Accumulation in Wheat Grains.Frontiers in plant science · 2022Article
- Adaptation to coastal soils through pleiotropic boosting of ion and stress hormone concentrations in wild Arabidopsis thaliana.The New phytologist · 2021Article
- Variance heterogeneity genome-wide mapping for cadmium in bread wheat reveals novel genomic loci and epistatic interactions.The plant genome · 2020Article
- AraPheno and the AraGWAS Catalog 2020: a major database update including RNA-Seq and knockout mutation data for Arabidopsis thaliana.Nucleic acids research · 2020Article
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 at 2 institutions in 2 countries.
Funding
Abstract
Genome-wide association (GWA) analyses have generally been used to detect individual loci contributing to the phenotypic diversity in a population by the effects of these loci on the trait mean. More rarely, loci have also been detected based on variance differences between genotypes. Several hypotheses have been proposed to explain the possible genetic mechanisms leading to such variance signals. However, little is known about what causes these signals, or whether this genetic variance-heterogeneity reflects mechanisms of importance in natural populations. Previously, we identified a variance-heterogeneity GWA (vGWA) signal for leaf molybdenum concentrations in Arabidopsis thaliana. Here, fine-mapping of this association reveals that the vGWA emerges from the effects of three independent genetic polymorphisms that all are in strong LD with the markers displaying the genetic variance-heterogeneity. By revealing the genetic architecture underlying this vGWA signal, we uncovered the molecular source of a significant amount of hidden additive genetic variation or "missing heritability". Two of the three polymorphisms underlying the genetic variance-heterogeneity are promoter variants for Molybdate transporter 1 (MOT1), and the third a variant located ~25 kb downstream of this gene. A fourth independent association was also detected ~600 kb upstream of MOT1. Use of a T-DNA knockout allele highlights Copper Transporter 6; COPT6 (AT2G26975) as a strong candidate gene for this association. Our results show that an extended LD across a complex locus including multiple functional alleles can lead to a variance-heterogeneity between genotypes in natural populations. Further, they provide novel insights into the genetic regulation of ion homeostasis in A. thaliana, and empirically confirm that variance-heterogeneity based GWA methods are a valuable tool to detect novel associations of biological importance in natural populations.
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.