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      Assessing scale‐wise similarity of curves with a thick pen: As illustrated through comparisons of spectral irradiance

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          Abstract

          Forest canopies create dynamic light environments in their understorey, where spectral composition changes among patterns of shade and sunflecks, and through the seasons with canopy phenology and sun angle. Plants use spectral composition as a cue to adjust their growth strategy for optimal resource use. Quantifying the ever‐changing nature of the understorey light environment is technically challenging with respect to data collection. Thus, to capture the simultaneous variation occurring in multiple regions of the solar spectrum, we recorded spectral irradiance from forest understoreys over the wavelength range 300–800 nm using an array spectroradiometer. It is also methodologically challenging to analyze solar spectra because of their multi‐scale nature and multivariate lay‐out. To compare spectra, we therefore used a novel method termed thick pen transform ( TPT), which is simple and visually interpretable. This enabled us to show that sunlight position in the forest understorey (i.e., shade, semi‐shade, or sunfleck) was the most important factor in determining shape similarity of spectral irradiance. Likewise, the contributions of stand identity and time of year could be distinguished. Spectra from sunflecks were consistently the most similar, irrespective of differences in global irradiance. On average, the degree of cross‐dependence increased with increasing scale, sometimes shifting from negative (dissimilar) to positive (similar) values. We conclude that the interplay of sunlight position, stand identity, and date cannot be ignored when quantifying and comparing spectral composition in forest understoreys. Technological advances mean that array spectroradiometers, which can record spectra contiguously over very short time intervals, are being widely adopted, not only to measure irradiance under pollution, clouds, atmospheric changes, and in biological systems, but also spectral changes at small scales in the photonics industry. We consider that TPT is an applicable method for spectral analysis in any field and can be a useful tool to analyze large datasets in general.

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          Most cited references31

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          Photoreceptor signaling networks in plant responses to shade.

          The dynamic light environment of vegetation canopies is perceived by phytochromes, cryptochromes, phototropins, and UV RESISTANCE LOCUS 8 (UVR8). These receptors control avoidance responses to preclude exposure to limiting or excessive light and acclimation responses to cope with conditions that cannot be avoided. The low red/far-red ratios of shade light reduce phytochrome B activity, which allows PHYTOCHROME INTERACTING FACTORS (PIFs) to directly activate the transcription of auxin-synthesis genes, leading to shade-avoidance responses. Direct PIF interaction with DELLA proteins links gibberellin and brassinosteroid signaling to shade avoidance. Shade avoidance also requires CONSTITUTIVE PHOTOMORPHOGENESIS 1 (COP1), a target of cryptochromes, phytochromes, and UVR8. Multiple regulatory loops and the input of the circadian clock create a complex network able to respond even to subtle threats of competition with neighbors while still compensating for major environmental fluctuations such as the day-night cycles.
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            A formula for average foliage density

            JB Miller (1967)
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              Quantifying the effect of canopy architecture on optical measurements of leaf area index using two gap size analysis methods

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                Author and article information

                Contributors
                matthew.robson@helsinki.fi
                Journal
                Ecol Evol
                Ecol Evol
                10.1002/(ISSN)2045-7758
                ECE3
                Ecology and Evolution
                John Wiley and Sons Inc. (Hoboken )
                2045-7758
                12 September 2018
                October 2018
                : 8
                : 20 ( doiID: 10.1002/ece3.2018.8.issue-20 )
                : 10206-10218
                Affiliations
                [ 1 ] OEB, Viikki Plant Science Centre University of Helsinki Helsinki Finland
                [ 2 ] Department of Finance and Statistics Hanken School of Economics Helsinki Finland
                [ 3 ] Department of Statistics Universidad Carlos III de Madrid Getafe Spain
                Author notes
                [*] [* ] Correspondence

                Thomas Matthew Robson, OEB, Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland.

                Email: matthew.robson@ 123456helsinki.fi

                Author information
                http://orcid.org/0000-0002-8631-796X
                Article
                ECE34496
                10.1002/ece3.4496
                6206219
                35c1bbbc-81c0-4c00-bfa2-da27e1bbb0e0
                © 2018 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd.

                This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

                History
                : 16 November 2017
                : 17 May 2018
                : 03 August 2018
                Page count
                Figures: 9, Tables: 1, Pages: 13, Words: 8280
                Funding
                Funded by: Ministerio de Economía y Competitividad
                Award ID: MTM2014‐56535‐R
                Funded by: Suomen Akatemia
                Award ID: 266523
                Award ID: 304519
                Categories
                Original Research
                Original Research
                Custom metadata
                2.0
                ece34496
                October 2018
                Converter:WILEY_ML3GV2_TO_NLMPMC version:version=5.5.1 mode:remove_FC converted:30.10.2018

                Evolutionary Biology
                canopy,cross‐dependence,multi‐scale,phenology,spectral irradiance,spectroradiometer,sunfleck,thick pen measure of association,thick pen transform,understorey

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