SynthesisPLoS genetics2012
A genome-wide association study identifies variants underlying the Arabidopsis thaliana shade avoidance response.
Synthesis in PLoS genetics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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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.
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Who cites it
58 citing papers in PubMed.
- Structural variation in the IAMH2 3' UTR underlies hypocotyl elongation during light adaptation in Arabidopsis thaliana.The Plant journal : for cell and molecular biology · 2026Article
- Beyond the Standard GWAS-A Guide for Plant Biologists.Plant & cell physiology · 2025Review
- Genome-wide association studies reveal potential candidate genes associated with amino acid in tea plants.PeerJ · 2025Article
- Residual networks without pooling layers improve the accuracy of genomic predictions.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Pangenome-genotyped structural variation improves molecular phenotype mapping in cattle.Genome research · 2024Article
- Genome-wide association analysis reveals genes controlling an antagonistic effect of biotic and osmotic stress on Arabidopsis thaliana growth.Molecular plant pathology · 2024Article
- Genome-wide association studies identify loci controlling specialized seed metabolites in Arabidopsis.Plant physiology · 2024Article
- Genomic Basis of Adaptation to a Novel Precipitation Regime.Molecular biology and evolution · 2023Article
- Genetic dissection of seed characteristics in field pennycress via genome-wide association mapping studies.The plant genome · 2022Article
- Analysis of genotype-by-environment interactions in a maize mapping population.G3 (Bethesda, Md.) · 2022Article
- Functional analysis ofFrontiers in plant science · 2022Article
- Light signalling shapes plant-plant interactions in dense canopies.Plant, cell & environment · 2021Review
- Uncovering the genetic mechanisms regulating panicle architecture in rice with GPWAS and GWAS.BMC genomics · 2021Article
- Polygenic adaptation of rosette growth in Arabidopsis thaliana.PLoS genetics · 2021Article
- Multiple Loci Control Variation in Plasticity to Foliar Shade Throughout Development inG3 (Bethesda, Md.) · 2020Article
- Genotype networks of 80 quantitative Arabidopsis thaliana phenotypes reveal phenotypic evolvability despite pervasive epistasis.PLoS computational biology · 2020Article
- Variation in plastic responses to light results from selection in different competitive environments-A game theoretical approach using virtual plants.PLoS computational biology · 2019Article
- A Genome-Wide Association Study Identifies New Loci Involved in Wound-Induced Lateral Root Formation inFrontiers in plant science · 2019Article
- Genome-wide association study reveals novel players in defense hormone crosstalk in Arabidopsis.Plant, cell & environment · 2018Article
- Genome-wide association study uncovers a novel QTL allele of AtS40-3 that affects the sex ratio of cyst nematodes in Arabidopsis.Journal of experimental botany · 2018Article
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
Shade avoidance is an ecologically and molecularly well-understood set of plant developmental responses that occur when the ratio of red to far-red light (R:FR) is reduced as a result of foliar shade. Here, a genome-wide association study (GWAS) in Arabidopsis thaliana was used to identify variants underlying one of these responses: increased hypocotyl elongation. Four hypocotyl phenotypes were included in the study, including height in high R:FR conditions (simulated sun), height in low R:FR conditions (simulated shade), and two different indices of the response of height to low R:FR. GWAS results showed that variation in these traits is controlled by many loci of small to moderate effect. A known PHYC variant contributing to hypocotyl height variation was identified and lists of significantly associated genes were enriched in a priori candidates, suggesting that this GWAS was capable of generating meaningful results. Using metadata such as expression data, GO terms, and other annotation, we were also able to identify variants in candidate de novo genes. Patterns of significance among our four phenotypes allowed us to categorize associations into three groups: those that affected hypocotyl height without influencing shade avoidance, those that affected shade avoidance in a height-dependent fashion, and those that exerted specific control over shade avoidance. This grouping allowed for the development of explicit hypotheses about the genetics underlying shade avoidance variation. Additionally, the response to shade did not exhibit any marked geographic distribution, suggesting that variation in low R:FR-induced hypocotyl elongation may represent a response to local conditions.
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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.