Spatial patterns of phylogenetic and species diversity of Fennoscandian vascular plants in protected areas

Protected areas are one of the main strategic means for conserving biodiversity. Yet, the design of protected areas usually neglects phylogenetic diversity, an important diversity measure. In this paper, we assess the phylogenetic diversity and species richness of vascular plants in Fennoscandian protected areas. We evaluate how much species richness and phylogenetic diversity is found within and outside protected areas, and the differences in diversity between different categories of protected areas. We also assess the differences in the diversity-area relationship of the different protected area categories in terms of both species richness and phylogenetic diversity. We build a multi-locus phylogeny of 1,519 native vascular plants of Norway, Sweden, and Finland. We estimate the phylogenetic diversity and species richness by combining the phylogeny with publicly available occurrence data and the currently protected area system of Fennoscandia. Our results indicate that protected areas ..., Generation of sequence data:
We generated 264 new nuclear ribosomal internal transcribed spacer (ITS) sequences from specimens deposited in the herbaria O (Natural History Museum, Oslo) and TRH (NTNU University Museum, Trondheim). DNA extraction, amplification of the ITS region, and Sanger sequencing of the resulting PCR product followed the procedures described by Mienna et al. (2020), with two notable exceptions. Firstly, for all specimens collected before the year 2000, DNA was extracted and prepared for PCR amplification in the NTNU University Museum’s dedicated, UV-sterilised, positively pressurised paleogenomics laboratory facility. Secondly, herbarium specimens yielding degraded DNA extracts, from which we could not amplify the entire ITS region using the primer pair ITS5a/ITS4 (Stanford et al., 2000; White et al., 1990), were subjected to additional attempts amplifying the region in two shorter fragments, targeting ITS1 and ITS2, respectively, using the primer pairs ITS-p2/ITS-p..., , # Spatial patterns of phylogenetic and species diversity of Fennoscandian vascular plants in protected areas

[https://doi.org/10.5061/dryad.n8pk0p303](https://doi.org/10.5061/dryad.n8pk0p303)

Author Information
Principal Investigator Contact Information
Name: Damaris M. Matten
Institution: Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU); Trondheim, Norway
Email: [e-mail]

## Description of the data and file structure

fasta\_file\_of\_newly\_generated\_sequences\_for\_data\_dryad.txt - sequences for all newly generated taxa
Fennoscandia\_final\_alignment.fasta - multi-sequence alignment of native Fennoscandian flora

保护区是生物多样性保护的核心战略手段之一。然而，当前保护区的规划设计通常忽略了系统发育多样性（phylogenetic diversity）——这一重要的多样性衡量指标。本研究针对芬诺斯坎底亚保护区内的维管植物（vascular plants），评估其系统发育多样性与物种丰富度。本研究对比了保护区内外的物种丰富度与系统发育多样性水平，并分析了不同类别保护区之间的多样性差异。同时，本研究还针对不同保护区类别，分别基于物种丰富度与系统发育多样性，探究其多样性-面积关系的差异。本研究构建了涵盖挪威、瑞典、芬兰三国共1519种本土维管植物的多基因座系统发育树。通过将该系统发育树与公开可得的物种出现数据，以及芬诺斯坎底亚现行保护区体系相结合，本研究估算了样地的系统发育多样性与物种丰富度。本研究结果显示，保护区……

### 序列数据生成
我们从收藏于奥斯陆自然历史博物馆标本馆（O）以及特隆赫姆NTNU大学博物馆标本馆（TRH）的标本中，新获取了264条核糖体核内转录间隔区（ITS）序列。本研究的DNA提取、ITS区域扩增，以及对PCR产物进行桑格测序（Sanger sequencing）的流程，均遵循Mienna等人（2020）所述的实验方法，仅存在两处显著例外。其一，所有2000年之前采集的标本，其DNA提取与PCR扩增前的制备工作，均在NTNU大学博物馆专属的紫外灭菌正压古基因组学实验室中完成。其二，对于DNA降解严重、无法通过引物对ITS5a/ITS4（Stanford等，2000；White等，1990）扩增得到完整ITS区域的标本馆标本，本研究改用两对引物分别靶向ITS1和ITS2区域，尝试扩增该区域的两段短片段，使用引物对ITS-p2/ITS-p……

# 芬诺斯坎底亚保护区内维管植物系统发育与物种多样性的空间格局
[https://doi.org/10.5061/dryad.n8pk0p303](https://doi.org/10.5061/dryad.n8pk0p303)

## 作者信息
### 项目负责人联系方式
姓名：达玛丽斯·M·马滕（Damaris M. Matten）
任职机构：挪威科技大学（NTNU）NTNU大学博物馆自然历史系；挪威特隆赫姆
电子邮箱：[e-mail]

## 数据与文件结构说明
fasta_file_of_newly_generated_sequences_for_data_dryad.txt - 所有新生成类群的序列文件
Fennoscandia_final_alignment.fasta - 芬诺斯坎底亚本土维管植物区系的多序列比对文件