Plant Diversity ›› 2022, Vol. 44 ›› Issue (04): 335-339.DOI: 10.1016/j.pld.2022.05.005
• Short communication • Next Articles
Yi Jina, Hong Qianb
Received:
2022-04-27
Revised:
2022-05-18
Online:
2022-08-13
Published:
2022-07-25
Contact:
Yi Jin,E-mail:codon@126.com;Hong Qian,E-mail:hong.qian@illinoisstatemuseum.org
Supported by:
Yi Jina, Hong Qianb
通讯作者:
Yi Jin,E-mail:codon@126.com;Hong Qian,E-mail:hong.qian@illinoisstatemuseum.org
基金资助:
Yi Jin, Hong Qian. V.PhyloMaker2:An updated and enlarged R package that can generate very large phylogenies for vascular plants[J]. Plant Diversity, 2022, 44(04): 335-339.
Yi Jin, Hong Qian. V.PhyloMaker2:An updated and enlarged R package that can generate very large phylogenies for vascular plants[J]. Plant Diversity, 2022, 44(04): 335-339.
Angiosperm Phylogeny Group, 2016. An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG IV. Bot. J. Linn. Soc. 181, 1-20. Beaulieu, J.M., Ree, R.H., Cavender-Bares, J., et al., 2012. Synthesizing phylogenetic knowledge for ecological research. Ecology 93, S4-S13. Cornwell, W.K., Westoby, M., Falster, D.S., et al., 2014. Functional distinctiveness of major plant lineages. J. Ecol. 102, 345-356. Edwards, E.J., Smith, S.A., 2010. Phylogenetic analyses reveal the shady history of C4 grasses. Proc. Natl. Acad. Sci. U.S.A. 107, 2532-2537. Flora of North America Editorial Committee, 2016. Flora of North America North of Mexico, vol. 12. Oxford University Press, Oxford, New York. Freiberg, M., Winter, M., Gentile, A., et al., 2020. LCVP, the Leipzig catalogue of vascular plants, a new taxonomic reference list for all known vascular plants. Sci. Data 7, 416. Jin, Y., Qian, H., 2019. V.PhyloMaker: an R package that can generate very large phylogenies for vascular plants. Ecography 42, 1353-1359. Kinlock, N.L., Dehnen-Schmutz, K., Essl, F., et al., 2022. Introduction history mediates naturalization and invasiveness of cultivated plants. Glob. Ecol. Biogeogr. https://doi.org/10.1111/geb.13486. Paradis, E., Claude, J., Strimmer, K., 2004. APE: analyses of phylogenetics and evolution in R language. Bioinformatics 20, 289-290. Qian, H., Jin, Y., 2016. An updated megaphylogeny of plants, a tool for generating plant phylogenies and an analysis of phylogenetic community structure. J. Plant Ecol. 9, 233-239. Qian, H., Jin, Y., 2021. Are phylogenies resolved at the genus level appropriate for studies on phylogenetic structure of species assemblages? Plant Divers. 43, 255-263. Qian, H., Deng, T., Ricklefs, R.E., 2022. Evolutionary assembly of the Arctic flora. Glob. Ecol. Biogeogr. 31, 396-404. Qian, H., Deng, T., Jin, Y., et al., 2019. Phylogenetic dispersion and diversity in regional assemblages of seed plants in China. Proc. Natl. Acad. Sci. U.S.A. 116, 23192-23201. R Core Team, 2016. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria. URL. http://www.Rproject.org/. RStudio Team, 2015. RStudio. Integrated Development for R. RStudio, Inc., Boston, MA, USA. URL. http://www.rstudio.com/. Smith, S.A., Brown, J.W., 2018. Constructing a broadly inclusive seed plant phylogeny. Am. J. Bot. 105, 302-314. Smith, S.A., Beaulieu, J.M., Donoghue, M.J., 2009. Mega-phylogeny approach for comparative biology: an alternative to supertree and supermatrix approaches. BMC Evol. Biol. 9, 37. Smith, S.A., Beaulieu, J.M., Stamatakis, A., et al., 2011. Understanding angiosperm diversification using small and large phylogenetic trees. Am. J. Bot. 98, 404-414. Swanepoel, W., Chase, M.W., Christenhusz, M.J.M., et al., 2020. From the frying pan:an unusual dwarf shrub from Namibia turns out to be a new brassicalean family. Phytotaxa 439, 171-185. Webb, C.O., 2000. Exploring the phylogenetic structure of ecological communities:an example for rain forest trees. Am. Nat. 156, 145-155. Wickham, H., Hester, J., Chang, W., 2018. devtools: tools to Make Developing R Packages Easier. R package version 1.13.6. https://CRAN.R-project.org/package=devtools. Zanne, A.E., Tank, D.C., Cornwell, W.K., et al., 2014. Three keys to the radiation of angiosperms into freezing environments. Nature 506, 89-92. |
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