Phylogenetic diversity and endemism of the vascular flora of the páramo ecoregion

The páramo ecoregion is known for its remarkable biodiversity and evolutionary histories shaped by complex biogeographical processes. To protect and conserve the ecological diversity and evolutionary lineages in this hotspot requires analyzing spatial patterns of phylogenetic diversity and endemism. This study uses spatial phylogenetic methods, combining georeferenced occurrence data with a genus-level phylogeny of the region’s entire vascular flora to investigate the spatial distributions of phylogenetic diversity and endemism. In this study, we assembled a comprehensive dataset of 361 equal-area grid cells covering the páramo biome and compiled occurrence records for 567 vascular plant genera. A phylogeny of vascular plants in the páramo was generated by combining publicly available genetic sequence data with novel genetic data from Colombian herbarium collections. This study examined the vascular plant diversity in the páramo ecosystem and identified distinct centers of neo- and pale..., , # Phylogenetic diversity and endemism of the vascular flora of the páramo ecoregion

Dataset DOI: [10.5061/dryad.2v6wwq02k](https://doi.org/10.5061/dryad.2v6wwq02k)

## Description of the data and file structure

***DNA sequence collection and generation via herbarium genomics.***\
In order to create a phylogenetic tree containing all the taxa found in the páramo region, representative sequence data were sourced from the public repository NCBI GenBank [(Benson et al., 2018)](https://paperpile.com/c/HQ3xa5/jcoGo). For this, the highly conserved chloroplast-genome maturase K gene (*matK*), chloroplast NADH dehydrogenase F gene (*ndhF*), RuBisCO large subunit gene (*rbcL*), and *trnF(GAA)* gene, as well as the internal transcribed spacer of the nuclear ribosomal DNA (*ITS*), were selected. From the initial list of 1833 taxa,  available sequences from at least one of the selected markers were found for about 1670 genera. These sequences were identified and downloaded from NCBI using the Pyt...,

帕拉莫生态区（páramo ecoregion）以其非凡的生物多样性及受复杂生物地理过程塑造的演化历史而闻名。保护这一生物热点区域内的生态多样性与演化支系，需分析系统发育多样性与特有性的空间分布格局。本研究采用空间系统发育方法（spatial phylogenetic methods），将地理参考出现数据与该区域全部维管植物区系的属级系统发育（genus-level phylogeny）相结合，以探究系统发育多样性与特有性的空间分布特征。本研究构建了覆盖帕拉莫生物群区（páramo biome）的361个等面积网格单元的综合数据集，并汇编了567个维管植物属的出现记录。本研究通过整合公开可得的遗传序列数据与哥伦比亚标本馆馆藏的新型遗传数据，构建了帕拉莫区域维管植物的系统发育树。本研究对帕拉莫生态系统的维管植物多样性进行了分析，并识别出新生与古生（原文未完整表述）的特有分布中心……

# 帕拉莫生态区维管植物的系统发育多样性与特有性

数据集数字对象标识符（DOI）：[10.5061/dryad.2v6wwq02k](https://doi.org/10.5061/dryad.2v6wwq02k)

## 数据与文件结构说明

***基于标本馆基因组学的DNA序列采集与构建***

为构建包含帕拉莫区域所有类群的系统发育树，研究从公共数据库NCBI GenBank（National Center for Biotechnology Information GenBank）[(Benson et al., 2018)](https://paperpile.com/c/HQ3xa5/jcoGo)获取了代表性序列数据。本研究选取了高度保守的叶绿体基因组成熟酶K基因（*matK*）、叶绿体NADH脱氢酶F基因（*ndhF*）、核酮糖二磷酸羧化酶/加氧酶大亚基基因（*rbcL*）、*trnF(GAA)*基因，以及核核糖体DNA内部转录间隔区（*ITS*）。从最初的1833个类群列表中，约1670个属可获得至少一个所选标记的序列数据。研究人员使用Pyt……（原文未完整表述）从NCBI识别并下载了这些序列。