ArticleNature methods2012
A microfluidic device and computational platform for high-throughput live imaging of gene expression.
Article in Nature methods, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.
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Who cites it
50 citing papers in PubMed.
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- Synchronizing Germination Rates Across Plant Species for Fabricated Ecosystems EcoFAB 2.0.Bio-protocol · 2025Article
- Label-free structural imaging of plant roots and microbes using third-harmonic generation microscopy.Scientific reports · 2025Article
- Microfluidics to Follow Spatiotemporal Dynamics at the Nucleo-Cytoplasmic Interface During Plant Root Growth.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Observing root growth and signalling responses to stress gradients and pathogens using the bi-directional dual-flow RootChip.Lab on a chip · 2024Article
- Dynamic in situ detection in iRhizo-Chip reveals diurnal fluctuations ofProceedings of the National Academy of Sciences of the United States of America · 2024Article
- RoPod, a customizable toolkit for non-invasive root imaging, reveals cell type-specific dynamics of plant autophagy.Scientific reports · 2024Article
- Assessing the hydromechanical control of plant growth.Journal of the Royal Society, Interface · 2024Article
- Methodology to enable high-throughput imaging of Arabidopsis seedlings on cover glass-bottom multiwell plates.microPublication biology · 2024Article
- EcoFAB 3.0: a sterile system for studying sorghum that replicates previous field and greenhouse observations.Frontiers in plant science · 2024Article
- Root Walker: an automated pipeline for large scale quantification of early root growth responses at high spatial and temporal resolution.The Plant journal : for cell and molecular biology · 2024Article
- Studying root-environment interactions in structured microdevices.Journal of experimental botany · 2023Article
- The rhizodynamics robot: Automated imaging system for studying long-term dynamic root growth.PloS one · 2023Article
- A Reproducible and Tunable Synthetic Soil Microbial Community Provides New Insights into Microbial Ecology.mSystems · 2022Article
- Live Plant Cell Tracking: Fiji plugin to analyze cell proliferation dynamics and understand morphogenesis.Plant physiology · 2022Article
- Article
- Microfluidics-Based Bioassays and Imaging of Plant Cells.Plant & cell physiology · 2021Review
- A perspective on cell proliferation kinetics in the root apical meristem.Journal of experimental botany · 2021Review
- Microfluidic Devices for Monitoring the Root Morphology of Arabidopsis Thaliana in situ.Analytical sciences : the international journal of the Japan Society for Analytical Chemistry · 2021Article
- WinRoots: A High-Throughput Cultivation and Phenotyping System for Plant Phenomics Studies Under Soil Stress.Frontiers in plant science · 2021Article
Corrections and comments
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Authors and funding
12 authors.
Funding
Abstract
To fully describe gene expression dynamics requires the ability to quantitatively capture expression in individual cells over time. Automated systems for acquiring and analyzing real-time images are needed to obtain unbiased data across many samples and conditions. We developed a microfluidics device, the RootArray, in which 64 Arabidopsis thaliana seedlings can be grown and their roots imaged by confocal microscopy over several days without manual intervention. To achieve high throughput, we decoupled acquisition from analysis. In the acquisition phase, we obtain images at low resolution and segment to identify regions of interest. Coordinates are communicated to the microscope to record the regions of interest at high resolution. In the analysis phase, we reconstruct three-dimensional objects from stitched high-resolution images and extract quantitative measurements from a virtual medial section of the root. We tracked hundreds of roots to capture detailed expression patterns of 12 transgenic reporter lines under different conditions.
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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.