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      Evolution of rapid blue‐light response linked to explosive diversification of ferns in angiosperm forests

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          Summary

          • Ferns appear in the fossil record some 200 Myr before angiosperms. However, as angiosperm‐dominated forest canopies emerged in the Cretaceous period there was an explosive diversification of modern (leptosporangiate) ferns, which thrived in low, blue‐enhanced light beneath angiosperm canopies. A mechanistic explanation for this transformative event in the diversification of ferns has remained elusive.

          • We used physiological assays, transcriptome analysis and evolutionary bioinformatics to investigate a potential connection between the evolution of enhanced stomatal sensitivity to blue light in modern ferns and the rise of angiosperm‐dominated forests in the geological record.

          • We demonstrate that members of the largest subclade of leptosporangiate ferns, Polypodiales, have significantly faster stomatal response to blue light than more ancient fern lineages and a representative angiosperm. We link this higher sensitivity to levels of differentially expressed genes in blue‐light signaling, particularly in the cryptochrome (CRY) signaling pathway. Moreover, CRYs of the Polypodiales examined show gene duplication events between 212.9–196.9 and 164.4–151.8 Ma, when angiosperms were emerging, which are lacking in other major clades of extant land plants.

          • These findings suggest that evolution of stomatal blue‐light sensitivity helped modern ferns exploit the shady habitat beneath angiosperm forest canopies, fueling their Cretaceous hyperdiversification.

          Abstract

          See also the Commentary on this article by Chater, 230: 886–888 .

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          The worldwide leaf economics spectrum.

          Bringing together leaf trait data spanning 2,548 species and 175 sites we describe, for the first time at global scale, a universal spectrum of leaf economics consisting of key chemical, structural and physiological properties. The spectrum runs from quick to slow return on investments of nutrients and dry mass in leaves, and operates largely independently of growth form, plant functional type or biome. Categories along the spectrum would, in general, describe leaf economic variation at the global scale better than plant functional types, because functional types overlap substantially in their leaf traits. Overall, modulation of leaf traits and trait relationships by climate is surprisingly modest, although some striking and significant patterns can be seen. Reliable quantification of the leaf economics spectrum and its interaction with climate will prove valuable for modelling nutrient fluxes and vegetation boundaries under changing land-use and climate.
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            The evolutionary fate and consequences of duplicate genes.

            Gene duplication has generally been viewed as a necessary source of material for the origin of evolutionary novelties, but it is unclear how often gene duplicates arise and how frequently they evolve new functions. Observations from the genomic databases for several eukaryotic species suggest that duplicate genes arise at a very high rate, on average 0.01 per gene per million years. Most duplicated genes experience a brief period of relaxed selection early in their history, with a moderate fraction of them evolving in an effectively neutral manner during this period. However, the vast majority of gene duplicates are silenced within a few million years, with the few survivors subsequently experiencing strong purifying selection. Although duplicate genes may only rarely evolve new functions, the stochastic silencing of such genes may play a significant role in the passive origin of new species.
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              Ferns diversified in the shadow of angiosperms.

              The rise of angiosperms during the Cretaceous period is often portrayed as coincident with a dramatic drop in the diversity and abundance of many seed-free vascular plant lineages, including ferns. This has led to the widespread belief that ferns, once a principal component of terrestrial ecosystems, succumbed to the ecological predominance of angiosperms and are mostly evolutionary holdovers from the late Palaeozoic/early Mesozoic era. The first appearance of many modern fern genera in the early Tertiary fossil record implies another evolutionary scenario; that is, that the majority of living ferns resulted from a more recent diversification. But a full understanding of trends in fern diversification and evolution using only palaeobotanical evidence is hindered by the poor taxonomic resolution of the fern fossil record in the Cretaceous. Here we report divergence time estimates for ferns and angiosperms based on molecular data, with constraints from a reassessment of the fossil record. We show that polypod ferns (> 80% of living fern species) diversified in the Cretaceous, after angiosperms, suggesting perhaps an ecological opportunistic response to the diversification of angiosperms, as angiosperms came to dominate terrestrial ecosystems.
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                Author and article information

                Contributors
                peter.franks@sydney.edu.au
                wufeibo@zju.edu.cn
                z.chen@westernsydney.edu.au
                Journal
                New Phytol
                New Phytol
                10.1111/(ISSN)1469-8137
                NPH
                The New Phytologist
                John Wiley and Sons Inc. (Hoboken )
                0028-646X
                1469-8137
                07 January 2021
                May 2021
                : 230
                : 3 ( doiID: 10.1111/nph.v230.3 )
                : 1201-1213
                Affiliations
                [ 1 ] College of Agriculture and Biotechnology Zhejiang University Hangzhou 310058 China
                [ 2 ] School of Science Western Sydney University Penrith NSW 2751 Australia
                [ 3 ] Hawkesbury Institute for the Environment Western Sydney University Penrith NSW 2751 Australia
                [ 4 ] College of Life and Environmental Sciences Hangzhou Normal University Hangzhou 310036 China
                [ 5 ] Department of Biology University of Florida Gainesville FL 32611 USA
                [ 6 ] Florida Museum of Natural History University of Florida Gainesville FL 32611 USA
                [ 7 ] Department of Biology Stanford University Stanford CA 94305 USA
                [ 8 ] Collaborative Innovation Centre for Grain Industry College of Agriculture Yangtze University Jingzhou 434025 China
                [ 9 ] Department of Plant Biology University of Georgia Athens GA 30602 USA
                [ 10 ] Tasmanian Institute of Agriculture University of Tasmania Hobart TAS 7004 Australia
                [ 11 ] International Research Centre for Environmental Membrane Biology Foshan University Foshan 528041 China
                [ 12 ] Laboratory of Plant Physiology and Biophysics University of Glasgow Glasgow G12 8QQ UK
                [ 13 ] Institute of Evolution University of Haifa Mount Carmel Haifa 34988384 Israel
                [ 14 ] School of Life and Environmental Sciences The University of Sydney Sydney NSW 2006 Australia
                Author notes
                [*] [* ] Authors for correspondence:

                Peter J. Franks

                Email: peter.franks@sydney.edu.au

                Feibo Wu

                Email: wufeibo@ 123456zju.edu.cn

                Zhong‐Hua Chen

                Email: z.chen@ 123456westernsydney.edu.au

                [*]

                These authors contributed equally to this work.

                Author information
                https://orcid.org/0000-0001-9904-7615
                https://orcid.org/0000-0002-9976-0055
                https://orcid.org/0000-0003-1361-4645
                https://orcid.org/0000-0002-4810-658X
                https://orcid.org/0000-0001-8797-3398
                https://orcid.org/0000-0002-7531-320X
                Article
                NPH17135 2020-34517
                10.1111/nph.17135
                8048903
                33280113
                bbabd9db-795a-4d4c-86ec-3eb69aa78b60
                © 2020 The Authors New Phytologist © 2020 New Phytologist Foundation

                This is an open access article under the terms of the http://creativecommons.org/licenses/by-nc-nd/4.0/ License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non‐commercial and no modifications or adaptations are made.

                History
                : 19 September 2020
                : 21 November 2020
                Page count
                Figures: 6, Tables: 0, Pages: 13, Words: 9453
                Funding
                Funded by: Australian Research Council , open-funder-registry 10.13039/501100000923;
                Award ID: DE1401011143
                Award ID: DP150104007
                Award ID: DP170100460
                Funded by: National Natural Science Foundation of China , open-funder-registry 10.13039/501100001809;
                Award ID: 31571578
                Award ID: 31620103912
                Award ID: 31771687
                Categories
                Full Paper
                Research
                Full Papers
                Custom metadata
                2.0
                May 2021
                Converter:WILEY_ML3GV2_TO_JATSPMC version:6.0.2 mode:remove_FC converted:15.04.2021

                Plant science & Botany
                blue‐light signaling,cryptochrome,fern evolution,photosynthesis,stomata
                Plant science & Botany
                blue‐light signaling, cryptochrome, fern evolution, photosynthesis, stomata

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