ArticleProceedings of the National Academy of Sciences of the United States of America2013
3D phenotyping and quantitative trait locus mapping identify core regions of the rice genome controlling root architecture.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 124 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
124 citing papers in PubMed.
- Integrating 3D phenotyping and functional-structural plant models for crop ideotype breeding.Nature communications · 2026Review
- Improving 3D reconstruction quality for root phenotyping: assessing the impact of camera calibration and imaging parameters.Plant methods · 2026Article
- Three-dimensional phenotyping: Technological advances and applications in genomics-assisted crop breeding.Plant communications · 2026Review
- Early belowground interactions in lupin-wheat intercropping assessed by a simple root phenotyping approach.Plant and soil · 2026Article
- Root system architecture and drought adaptation: emerging tools and genetic insights.Frontiers in plant science · 2026Review
- Characterizing Root Morphology, Water and Nitrogen Uptake of Fibrous-Root and Taproot Crops Under Transparent Soil.Plants (Basel, Switzerland) · 2025Article
- Phenome-to-genome insights for evaluating root system architecture in field studies of maize.The plant genome · 2025Article
- Agronomical Responses of Elite Winter Wheat (Plants (Basel, Switzerland) · 2025Article
- Validating the contributions of stem and root traits to barley lodging in western Canada.Frontiers in plant science · 2025Article
- TopoRoot+: computing whorl and soil line traits of field-excavated maize roots from CT imaging.Plant methods · 2024Article
- Multi-trait association mapping for phosphorous efficiency reveals flexible root architectures in sorghum.BMC plant biology · 2024Article
- A 3D printed plant model for accurate and reliable 3D plant phenotyping.GigaScience · 2024Article
- SpykProps: an imaging pipeline to quantify architecture in unilateral grass inflorescences.Plant methods · 2023Article
- Evaluating the Response ofPlants (Basel, Switzerland) · 2023Article
- Review
- Characterizing a Cost-Effective Hydrogel-Based Transparent Soil.Gels (Basel, Switzerland) · 2023Article
- How to make sense of 3D representations for plant phenotyping: a compendium of processing and analysis techniques.Plant methods · 2023Review
- Genome-Wide Association Study for Root Morphology and Phosphorus Acquisition Efficiency in Diverse Maize Panels.International journal of molecular sciences · 2023Article
- Quantification of the three-dimensional root system architecture using an automated rotating imaging system.Plant methods · 2023Article
- Phenotypic variation of root-system architecture under high P and low P conditions in potato (Solanum tuberosum L.).BMC plant biology · 2023Article
64 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
16 authors.
Funding
Abstract
Identification of genes that control root system architecture in crop plants requires innovations that enable high-throughput and accurate measurements of root system architecture through time. We demonstrate the ability of a semiautomated 3D in vivo imaging and digital phenotyping pipeline to interrogate the quantitative genetic basis of root system growth in a rice biparental mapping population, Bala × Azucena. We phenotyped >1,400 3D root models and >57,000 2D images for a suite of 25 traits that quantified the distribution, shape, extent of exploration, and the intrinsic size of root networks at days 12, 14, and 16 of growth in a gellan gum medium. From these data we identified 89 quantitative trait loci, some of which correspond to those found previously in soil-grown plants, and provide evidence for genetic tradeoffs in root growth allocations, such as between the extent and thoroughness of exploration. We also developed a multivariate method for generating and mapping central root architecture phenotypes and used it to identify five major quantitative trait loci (r(2) = 24-37%), two of which were not identified by our univariate analysis. Our imaging and analytical platform provides a means to identify genes with high potential for improving root traits and agronomic qualities of crops.
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.