ArticleJournal of experimental botany2017
Oscillatory signatures underlie growth regimes in Arabidopsis pollen tubes: computational methods to estimate tip location, periodicity, and synchronization in growing cells.
Article in Journal of experimental botany, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers, 1 of them a synthesis that pooled it.
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Who cites it
39 citing papers in PubMed, 1 synthesis or guideline pooled it, 62 citations in OpenAlex.
- A multiscale growth atlas of Arabidopsis: linking cell dynamics to organ development.The New phytologist · 2026Pooled it
- TipQuant: a robust algorithm for quantitative analysis of spatiotemporally dynamic activities in tip-growing cells.The New phytologist · 2026Article
- CNGCs in Marchantia paleacea uncouple arbuscular mycorrhizal symbiosis and rhizoid development.The New phytologist · 2026Article
- Domain architecture of plant eukaryotic translation initiation factor 3 subunit E governs interaction with translational cis-elements to regulatepollen tube growth.The Plant cell · 2026Article
- Quantitative Phenotyping of Ion Fluxes in Tip-Growing Cells Under Varying Growth Regimes: A Data Analysis Protocol.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Mechanosensitive ion channel MSL8 is required for oscillatory growth and cell wall dynamics in Arabidopsis pollen tubes.Plant reproduction · 2025Article
- Semi-automated high content analysis of pollen performance using tubetracker.Plant reproduction · 2025Article
- The Role of Female and Male Genes in Regulating Pollen Tube Guidance in Flowering Plants.Genes · 2024Review
- Osmosensor-mediated control of CaNature · 2024Article
- Imaging of plant calcium-sensor kinase conformation monitors real time calcium-dependent decoding in planta.The Plant cell · 2024Article
- Seasonality as a risk factor for deaths in Parkinson's disease.Clinics (Sao Paulo, Brazil) · 2024Article
- Overexpressing Vitamin C Defective 2 reduces fertility and alters Ca2+ signals in Arabidopsis pollen.Plant physiology · 2023Article
- Electrifying rhythms in plant cells.Current opinion in cell biology · 2022Review
- SEC1A is a major Arabidopsis Sec1/Munc18 gene in vesicle trafficking during pollen tube tip growth.The Plant journal : for cell and molecular biology · 2022Article
- Fast and flexible processing of large FRET image stacks using the FRET-IBRA toolkit.PLoS computational biology · 2022Article
- CamelliA-based simultaneous imaging of Ca2+ dynamics in subcellular compartments.Plant physiology · 2022Article
- West Nile virus transmission potential in Portugal.Communications biology · 2022Article
- Simultaneous imaging of ER and cytosolic Ca2+ dynamics reveals long-distance ER Ca2+ waves in plants.Plant physiology · 2021Article
- Insights into the Mechanisms of Heat Priming and Thermotolerance in Tobacco Pollen.International journal of molecular sciences · 2021Article
- Spatiotemporal Quantification of Cytosolic pH inBio-protocol · 2021Article
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3 authors at 1 institution in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
Oscillations in pollen tubes have been reported for many cellular processes, including growth, extracellular ion fluxes, and cytosolic ion concentrations. However, there is a shortage of quantitative methods to measure and characterize the different dynamic regimes observed. Herein, a suite of open-source computational methods and original algorithms were integrated into an automated analysis pipeline that we employed to characterize specific oscillatory signatures in pollen tubes of Arabidopsis thaliana (Col-0). Importantly, it enabled us to detect and quantify a Ca2+ spiking behaviour upon growth arrest and synchronized oscillations involving growth, extracellular H+ fluxes, and cytosolic Ca2+, providing the basis for novel hypotheses. Our computational approach includes a new tip detection method with subpixel resolution using linear regression, showing improved ability to detect oscillations when compared to currently available methods. We named this data analysis pipeline 'Computational Heuristics for Understanding Kymographs and aNalysis of Oscillations Relying on Regression and Improved Statistics', or CHUKNORRIS. It can integrate diverse data types (imaging, electrophysiology), extract quantitative and time-explicit estimates of oscillatory characteristics from isolated time series (period and amplitude) or pairs (phase relationships and delays), and evaluate their synchronization state. Here, its performance is tested with ratiometric and single channel kymographs, ion flux data, and growth rate analysis.
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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.