ArticleScientific reports2018
HyphaTracker: An ImageJ toolbox for time-resolved analysis of spore germination in filamentous fungi.
Article in Scientific reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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16 citing papers in PubMed, 33 citations in OpenAlex.
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- A geometric and probabilistic framework for mechanistic antifungal screening from colony morphology.Pest management science · 2026Article
- Review
- Inferring fungal growth rates from optical density data.PLoS computational biology · 2024Article
- The impact of episporic modification ofComputational and structural biotechnology journal · 2021Article
- Modified Rhodopsins FromFrontiers in molecular biosciences · 2021Article
- Increased Pathogenicity of the Nematophagous FungusFrontiers in fungal biology · 2021Article
- Microfluidic monitoring of the growth of individual hyphae in confined environments.Royal Society open science · 2020Article
- HyLength: a semi-automated digital image analysis tool for measuring the length of roots and fungal hyphae of dense mycelia.Mycorrhiza · 2020Article
- Fungal feature tracker (FFT): A tool for quantitatively characterizing the morphology and growth of filamentous fungi.PLoS computational biology · 2019Article
- mycelyso - high-throughput analysis of Streptomyces mycelium live cell imaging data.BMC bioinformatics · 2019Article
- Mycobacterium ulcerans mycolactones-fungi crosstalking.Scientific reports · 2019Article
- Opsin 1 and Opsin 2 of the Corn Smut FungusFrontiers in microbiology · 2019Article
- Analysis of spatio-temporal fungal growth dynamics under different environmental conditions.IMA fungus · 2019Article
- A swift, easy and cheap protocol to evaluate the tooth bleachingJournal of clinical and experimental dentistry · 2018Article
- Protein Activity of the Fusarium fujikuroi Rhodopsins CarO and OpsA and Their Relation to Fungus-Plant Interaction.International journal of molecular sciences · 2018Article
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The dynamics of early fungal development and its interference with physiological signals and environmental factors is yet poorly understood. Especially computational analysis tools for the evaluation of the process of early spore germination and germ tube formation are still lacking. For the time-resolved analysis of conidia germination of the filamentous ascomycete Fusarium fujikuroi we developed a straightforward toolbox implemented in ImageJ. It allows for processing of microscopic acquisitions (movies) of conidial germination starting with drift correction and data reduction prior to germling analysis. From the image time series germling related region of interests (ROIs) are extracted, which are analysed for their area, circularity, and timing. ROIs originating from germlings crossing other hyphae or the image boundaries are omitted during analysis. Each conidium/hypha is identified and related to its origin, thus allowing subsequent categorization. The efficiency of HyphaTracker was proofed and the accuracy was tested on simulated germlings at different signal-to-noise ratios. Bright-field microscopic images of conidial germination of rhodopsin-deficient F. fujikuroi mutants and their respective control strains were analysed with HyphaTracker. Consistent with our observation in earlier studies the CarO deficient mutant germinated earlier and grew faster than other, CarO expressing strains.
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