The plant leaf movement analyzer (PALMA): a simple tool for the analysis of periodic cotyledon and leaf movement in Arabidopsis thaliana

Wagner L, Schmal C, Staiger D, Danisman S (2017)
Plant Methods 13: 2.

Download
OA 2.31 MB
Journal Article | Original Article | Published | English
Abstract
Background The analysis of circadian leaf movement rhythms is a simple yet effective method to study effects of treatments or gene mutations on the circadian clock of plants. Currently, leaf movements are analysed using time lapse photography and subsequent bioinformatics analyses of leaf movements. Programs that are used for this purpose either are able to perform one function (i.e. leaf tip detection or rhythm analysis) or their function is limited to specific computational environments. We developed a leaf movement analysis tool—PALMA—that works in command line and combines image extraction with rhythm analysis using Fast Fourier transformation and non-linear least squares fitting. Results We validated PALMA in both simulated time series and in experiments using the known short period mutant sensitivity to red light reduced 1 (srr1-1). We compared PALMA with two established leaf movement analysis tools and found it to perform equally well. Finally, we tested the effect of reduced iron conditions on the leaf movement rhythms of wild type plants. Here, we found that PALMA successfully detected period lengthening under reduced iron conditions. Conclusions PALMA correctly estimated the period of both simulated and real-life leaf movement experiments. As a platform-independent console-program that unites both functions needed for the analysis of circadian leaf movements it is a valid alternative to existing leaf movement analysis tools.
Publishing Year
ISSN
Financial disclosure
Article Processing Charge funded by the Deutsche Forschungsgemeinschaft and the Open Access Publication Fund of Bielefeld University.
PUB-ID

Cite this

Wagner L, Schmal C, Staiger D, Danisman S. The plant leaf movement analyzer (PALMA): a simple tool for the analysis of periodic cotyledon and leaf movement in Arabidopsis thaliana. Plant Methods. 2017;13: 2.
Wagner, L., Schmal, C., Staiger, D., & Danisman, S. (2017). The plant leaf movement analyzer (PALMA): a simple tool for the analysis of periodic cotyledon and leaf movement in Arabidopsis thaliana. Plant Methods, 13, 2. doi:10.1186/s13007-016-0153-3
Wagner, L., Schmal, C., Staiger, D., and Danisman, S. (2017). The plant leaf movement analyzer (PALMA): a simple tool for the analysis of periodic cotyledon and leaf movement in Arabidopsis thaliana. Plant Methods 13:2.
Wagner, L., et al., 2017. The plant leaf movement analyzer (PALMA): a simple tool for the analysis of periodic cotyledon and leaf movement in Arabidopsis thaliana. Plant Methods, 13: 2.
L. Wagner, et al., “The plant leaf movement analyzer (PALMA): a simple tool for the analysis of periodic cotyledon and leaf movement in Arabidopsis thaliana”, Plant Methods, vol. 13, 2017, : 2.
Wagner, L., Schmal, C., Staiger, D., Danisman, S.: The plant leaf movement analyzer (PALMA): a simple tool for the analysis of periodic cotyledon and leaf movement in Arabidopsis thaliana. Plant Methods. 13, : 2 (2017).
Wagner, Lucas, Schmal, Christoph, Staiger, Dorothee, and Danisman, Selahattin. “The plant leaf movement analyzer (PALMA): a simple tool for the analysis of periodic cotyledon and leaf movement in Arabidopsis thaliana”. Plant Methods 13 (2017): 2.
All files available under the following license(s):
Copyright Statement:
This Item is protected by copyright and/or related rights. [...]
Main File(s)
Access Level
OA Open Access
Last Uploaded
2017-03-01T09:19:45Z

This data publication is cited in the following publications:
This publication cites the following data publications:

28 References

Data provided by Europe PubMed Central.

A revised medium for rapid growth and bio assays with tobacco tissue cultures
Murashige T, Skoog F., 1962

AUTHOR UNKNOWN, 0
Tissue-specific clocks in Arabidopsis show asymmetric coupling.
Endo M, Shimizu H, Nohales MA, Araki T, Kay SA., Nature 515(7527), 2014
PMID: 25363766

Export

0 Marked Publications

Open Data PUB

Web of Science

View record in Web of Science®

Sources

PMID: 28053647
PubMed | Europe PMC

Search this title in

Google Scholar