McTavish Emily Jane, Gerbracht Jeff A, Holder Mark T, Iliff Marshall J, Lepage Denis, Rasmussen Pamela C, Redelings Benjamin D, Sánchez Reyes Luna L, Miller Eliot T
Department of Life and Environmental Sciences, School of Natural Sciences, Merced, CA 95343.
Cornell Lab of Ornithology, Cornell University, Ithaca, NY 14850.
Proc Natl Acad Sci U S A. 2025 May 6;122(18):e2409658122. doi: 10.1073/pnas.2409658122. Epub 2025 Apr 29.
We present a complete, time-scaled, evolutionary tree of the world's bird species. This tree unites phylogenetic estimates for 9,239 species from 262 studies published between 1990 and 2024, using the Open Tree synthesis algorithm. The remaining species are placed in the tree based on curated taxonomic information. The tips of this complete tree are aligned to the species in the Clements Taxonomy used by eBird and other resources, and cross-mapped to other taxonomic systems including the Open Tree of Life (Open Tree), National Center for Biotechnology Information, and Global Biodiversity Information Facility. The total number of named bird species varies between 10,824 and 11,017 across the taxonomy versions we applied (v2021, v2022, and v2023). We share complete trees for each taxonomy version. The procedure, software, and data stores we used to generate this tree are public and reproducible. The tree presented here is Aves 1.3 and can be easily updated with new phylogenetic information as new estimates are published. We demonstrate the types of large-scale analyses this data resource enables by linking geographic data with the phylogeny to calculate the regional phylogenetic diversity of birds across the world. We will release updated versions of the phylogenetic synthesis and taxonomic translation tables annually. The procedure we describe here can be applied to developing complete phylogenetic estimates for any taxonomic group of interest.
我们展示了世界鸟类物种的完整、按时间尺度排列的进化树。这棵树结合了1990年至2024年间发表的262项研究中对9239个物种的系统发育估计,使用的是开放树综合算法。其余物种则根据经过整理的分类信息放置在树中。这棵完整树的末端与eBird和其他资源所使用的克莱门茨分类法中的物种对齐,并交叉映射到其他分类系统,包括生命之树开放树(Open Tree)、美国国立生物技术信息中心和全球生物多样性信息设施。在我们应用的分类版本(v2021、v2022和v2023)中,已命名鸟类物种的总数在10824至11017之间变化。我们分享了每个分类版本的完整树。我们用于生成这棵树的程序、软件和数据存储都是公开且可重复的。这里展示的树是鸟类1.3版本,随着新估计的发布,可以很容易地用新的系统发育信息进行更新。我们通过将地理数据与系统发育联系起来,计算全球鸟类的区域系统发育多样性,展示了这个数据资源能够支持的大规模分析类型。我们将每年发布系统发育综合和分类翻译表的更新版本。我们在此描述的程序可应用于为任何感兴趣的分类群开发完整的系统发育估计。