Plant Diversity ›› 2022, Vol. 44 ›› Issue (04): 335-339.DOI: 10.1016/j.pld.2022.05.005

• Short communication •     Next Articles

V.PhyloMaker2:An updated and enlarged R package that can generate very large phylogenies for vascular plants

Yi Jina, Hong Qianb   

  1. a Key Laboratory of National Forestry and Grassland Administration on Biodiversity Conservation in Karst Mountainous Areas of Southwestern China, Guizhou Normal University, Guiyang, 550025, China;
    b Research and Collections Center, Illinois State Museum, 1011 East Ash Street, Springfield, IL, 62703, USA
  • Received:2022-04-27 Revised:2022-05-18 Online:2022-07-25 Published:2022-08-13
  • Contact: Yi Jin,;Hong Qian,
  • Supported by:
    We are grateful to anonymous reviewers for their constructive comments on the manuscript and V.PhyloMaker2. This work was supported by the Natural Science and Technology Foundation of Guizhou Province [[2020]1Z013] (to Y.J.); and the Joint Fund of the National Natural Science Foundation of China and the Karst Science Research Center of Guizhou Province [U1812401] (to Y.J.).

Abstract: An earlier version of V.PhyloMaker has been broadly used to generate phylogenetic trees of vascular plants for botanical, biogeographical and ecological studies. Here, we update and enlarge this package, which is now called 'V.PhyloMaker2'. With V.PhyloMaker2, one can generate a phylogenetic tree for vascular plants based on one of three different botanical nomenclature systems. V.PhyloMaker2 can generate phylogenies for very large species lists (the largest species list that we tested included 365,198 species). V.PhyloMaker2 generates phylogenies at a fast speed. We provide an example (including a sample species list and an R script to run it) in this paper to show how to use V.PhyloMaker2 to generate phylogenetic trees.

Key words: Community phylogenetics, Global plants, Phylogeny, Species list, Vascular plants, V.PhyloMaker