ArticleGenetics2013
High-throughput computer vision introduces the time axis to a quantitative trait map of a plant growth response.
Article in Genetics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 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
35 citing papers in PubMed, 85 citations in OpenAlex.
- Three-dimensional phenotyping: Technological advances and applications in genomics-assisted crop breeding.Plant communications · 2026Review
- Open RGB imaging workflow for morphological and morphometric analysis of fruits using deep learning: a case study on almonds.GigaScience · 2026Article
- Posterior estimation of longitudinal variance components from nonlongitudinal data using Bayesian Gaussian process model.Genetics · 2026Article
- QTL for the Kinematic Traits That Define the Arabidopsis Root Elongation Zone and Their Relationship to Gravitropism.Plants (Basel, Switzerland) · 2024Article
- Leveraging orthology within maize and Arabidopsis QTL to identify genes affecting natural variation in gravitropism.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- High-throughput measurement of plant fitness traits with an object detection method using Faster R-CNN.The New phytologist · 2022Article
- High-resolution imaging as a tool for identifying quantitative trait loci that regulate photomorphogenesis inAoB PLANTS · 2021Article
- Identification of quantitative trait loci associated with canopy temperature in soybean.Scientific reports · 2020Article
- Increased Power and Accuracy of Causal Locus Identification in Time Series Genome-wide Association in Sorghum.Plant physiology · 2020Article
- Estimation of dynamic SNP-heritability with Bayesian Gaussian process models.Bioinformatics (Oxford, England) · 2020Article
- Functional QTL mapping and genomic prediction of canopy height in wheat measured using a robotic field phenotyping platform.Journal of experimental botany · 2020Article
- A Gaussian process model and Bayesian variable selection for mapping function-valued quantitative traits with incomplete phenotypic data.Bioinformatics (Oxford, England) · 2019Article
- Three-Dimensional Time-Lapse Analysis Reveals Multiscale Relationships in Maize Root Systems with Contrasting Architectures.The Plant cell · 2019Article
- Leveraging Breeding Values Obtained from Random Regression Models for Genetic Inference of Longitudinal Traits.The plant genome · 2019Article
- Genome-wide association of barley plant growth under drought stress using a nested association mapping population.BMC plant biology · 2019Article
- The complex genetic architecture of shoot growth natural variation in Arabidopsis thaliana.PLoS genetics · 2019Article
- Time-specific and pleiotropic quantitative trait loci coordinately modulate stem growth in Populus.Plant biotechnology journal · 2019Article
- Regulation of Root Angle and Gravitropism.G3 (Bethesda, Md.) · 2018Article
- ShinyAIM: Shiny-based application of interactive Manhattan plots for longitudinal genome-wide association studies.Plant direct · 2018Article
- The Quantitative Genetic Control of Root Architecture in Maize.Plant & cell physiology · 2018Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
Automated image acquisition, a custom analysis algorithm, and a distributed computing resource were used to add time as a third dimension to a quantitative trait locus (QTL) map for plant root gravitropism, a model growth response to an environmental cue. Digital images of Arabidopsis thaliana seedling roots from two independently reared sets of 162 recombinant inbred lines (RILs) and one set of 92 near isogenic lines (NILs) derived from a Cape Verde Islands (Cvi) × Landsberg erecta (Ler) cross were collected automatically every 2 min for 8 hr following induction of gravitropism by 90° reorientation of the sample. High-throughput computing (HTC) was used to measure root tip angle in each of the 1.1 million images acquired and perform statistical regression of tip angle against the genotype at each of the 234 RIL or 102 NIL DNA markers independently at each time point using a standard stepwise procedure. Time-dependent QTL were detected on chromosomes 1, 3, and 4 by this mapping method and by an approach developed to treat the phenotype time course as a function-valued trait. The QTL on chromosome 4 was earliest, appearing at 0.5 hr and remaining significant for 5 hr, while the QTL on chromosome 1 appeared at 3 hr and thereafter remained significant. The Cvi allele generally had a negative effect of 2.6-4.0%. Heritability due to the QTL approached 25%. This study shows how computer vision and statistical genetic analysis by HTC can characterize the developmental timing of genetic architectures.
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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.