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      C 4 trees have a broader niche than their close C 3 relatives

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          Abstract

          While C 3and C 4trees inhabit similar environments, C 4photosynthesis in trees expands the ecological niche relative to that of C 3tree species.

          Abstract

          Previous studies have demonstrated the ecological sorting of herbaceous C 3 and C 4 species along gradients of precipitation and temperature: C 4 herbaceous species typically occupy drier and warmer environments than their C 3 relatives. However, it is unclear if this pattern holds true for C 4 tree species, which are unique to Euphorbiaceae and found only on the Hawaiian Islands. Here, we combine occurrence data with local environmental and soil datasets to, for the first time, distinguish the ecological factors associated with photosynthetic diversification in the tree life form. These data are presented within a phylogenetic framework. We show that C 3 and C 4 trees inhabit similar environments, but that C 4 photosynthesis expands the ecological niche in trees relative to that of C 3 tree species. In particular, when compared with C 3 trees, C 4 trees moved into higher elevation habitats with characteristically sparse vegetation (and thus greater sunlight) and cooler temperatures, a pattern which contrasts with that of herbaceous species. Understanding the relationship between C 4 photosynthesis and ecological niche in tree species has implications for establishing how C 4 photosynthesis has, in this rare instance, evolved in trees, and whether this unique combination of traits could be exploited from an engineering perspective.

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          MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform.

          K Katoh (2002)
          A multiple sequence alignment program, MAFFT, has been developed. The CPU time is drastically reduced as compared with existing methods. MAFFT includes two novel techniques. (i) Homo logous regions are rapidly identified by the fast Fourier transform (FFT), in which an amino acid sequence is converted to a sequence composed of volume and polarity values of each amino acid residue. (ii) We propose a simplified scoring system that performs well for reducing CPU time and increasing the accuracy of alignments even for sequences having large insertions or extensions as well as distantly related sequences of similar length. Two different heuristics, the progressive method (FFT-NS-2) and the iterative refinement method (FFT-NS-i), are implemented in MAFFT. The performances of FFT-NS-2 and FFT-NS-i were compared with other methods by computer simulations and benchmark tests; the CPU time of FFT-NS-2 is drastically reduced as compared with CLUSTALW with comparable accuracy. FFT-NS-i is over 100 times faster than T-COFFEE, when the number of input sequences exceeds 60, without sacrificing the accuracy.
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            ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R

            After more than fifteen years of existence, the R package ape has continuously grown its contents, and has been used by a growing community of users. The release of version 5.0 has marked a leap towards a modern software for evolutionary analyses. Efforts have been put to improve efficiency, flexibility, support for 'big data' (R's long vectors), ease of use and quality check before a new release. These changes will hopefully make ape a useful software for the study of biodiversity and evolution in a context of increasing data quantity.
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              FactoMineR: AnRPackage for Multivariate Analysis

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                Author and article information

                Journal
                J Exp Bot
                J Exp Bot
                exbotj
                Journal of Experimental Botany
                Oxford University Press (UK )
                0022-0957
                1460-2431
                23 May 2022
                23 May 2022
                23 May 2022
                : 73
                : 10 , Special Issue: Exploiting the Natural Genetic Variation in Photosynthesis and CO2 Assimilation
                : 3189-3204
                Affiliations
                [1 ] Lancaster Environment Centre, Lancaster University , Lancaster LA1 4YQ, UK
                [2 ] Ecology and Evolutionary Biology, School of Biosciences, University of Sheffield , Sheffield S10 2TN, UK
                [3 ] Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences , Xingke Road 723, Guangzhou 510650, China
                Author notes
                Author information
                https://orcid.org/0000-0002-5080-2904
                https://orcid.org/0000-0002-4776-9568
                https://orcid.org/0000-0003-4027-499X
                https://orcid.org/0000-0002-2390-1763
                https://orcid.org/0000-0002-2489-3646
                Article
                erac113
                10.1093/jxb/erac113
                9126736
                35293994
                41c1129b-cbf4-4736-9eb8-692803695d3b
                © The Author(s) 2022. Published by Oxford University Press on behalf of the Society for Experimental Biology.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( https://creativecommons.org/licenses/by/4.0/), which ­permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 30 October 2021
                : 09 March 2022
                : 12 March 2022
                : 23 May 2022
                Page count
                Pages: 19
                Funding
                Funded by: Natural Environment Research Council Envision Doctoral Training Partnership studentship ;
                Award ID: NE/S007423/1
                Funded by: Leverhulme Early Career Fellowship;
                Award ID: ECF–2018-302
                Funded by: UKRI Future Leaders Fellowship;
                Award ID: MR/T043970/1
                Funded by: Natural Environment Research Council Independent Research Fellowship;
                Award ID: NE/T011025/1
                Categories
                Research Papers
                AcademicSubjects/SCI01210

                Plant science & Botany
                biogeography,c4 photosynthesis,chamaesyce,euphorbia,euphorbiaceae,trees
                Plant science & Botany
                biogeography, c4 photosynthesis, chamaesyce, euphorbia, euphorbiaceae, trees

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