Extirpated species in Berlin, dates of last detections, habitats, and number of Berlin’s inhabitants

Species loss is highly scale-dependent, following the species-area relationship. We analysed spatio-temporal patterns of species’ extirpation on a multitaxonomic level using Berlin, the capital city of Germany. Berlin is one of the largest cities in Europe and has experienced a strong urbanisation trend since the late 19th century. We expected species’ extirpation to be exceptionally high due to the long history of urbanisation. Analysing regional Red Lists of Threatened Plants, Animals, and Fungi of Berlin (covering 9498 species), we found that 16 % of species were extirpated, a rate 5.9 times higher than at the German scale, and 47.1 times higher than at the European scale. Species’ extirpation in Berlin is comparable to that of another German city with a similarly broad taxonomic coverage, but much higher than in regional areas with less human impact. The documentation of species’ extirpation started in the 18th century and is well documented for the 19th and 20th centuries. We found..., Data extraction:
To determine the proportion of extirpated species for Germany, we manually summarised the numbers of species classified in category 0 ‘extinct or extirpated’ and calculated the percentage in relation to the total number of species listed in the Red Lists of Threatened Species for Germany, taken from the website of the Red List Centre of Germany (Rote Liste Zentrum, 2024a). For Berlin, we used the 37 current Red Lists of Threatened Plants, Animals, and Fungi from the city-state of Berlin, covering the years from 2004 to 2023, taken from the official capital city portal of the Berlin Senate Department for Mobility, Transport, Climate Protection and Environment (SenMVKU, 2024a; see overview of Berlin Red Lists used in Table 1). We extracted all species that are listed as extinct/extirpated, i.e. classified in category 0, and additionally, if available, the date of the last record of the species in Berlin. The Red List of macrofungi of the order Boletales by Schmidt (2017) ..., , # Extirpated species in Berlin, dates of last detections, habitats, and number of Berlin’s inhabitants

[https://doi.org/10.5061/dryad.n5tb2rc4k](https://doi.org/10.5061/dryad.n5tb2rc4k)

#### **Description of the data and file structure**

Data on extirpated species (category 0) in Berlin, Germany, their dates of last detections, habitats, and the number of Berlin’s inhabitants used in Keinath et al. 2024 ‘High levels of species’ extirpation in an urban environment – A case study from Berlin, Germany, covering 1700-2023’. Data were extracted from 37 Red Lists of Threatened Species from the federal state Berlin, Germany.

**Sharing/Access information**

Links to codes developed and used for extracting extirpated species from the Berlin Red Lists of Threatened Species:

[https://github.com/Zzzhenya/Berlin-red-list ](https://github.com/Zzzhenya/Berlin-red-list)

Links to the used Red Lists of Threatened Species from the federal state of Berlin, Germany:

[https://www.berlin.de/sen/uvk/nat...

物种丧失具有显著的尺度依赖性，符合物种-面积关系（species-area relationship）。本研究以德国首都柏林为研究区域，在多分类群层面分析了物种局域灭绝（extirpation）的时空格局。柏林是欧洲规模最大的城市之一，自19世纪末以来经历了剧烈的城市化进程。鉴于其漫长的城市化历史，我们推测柏林的物种局域灭绝率会异常偏高。通过分析柏林地区的受威胁植物、动物和真菌红色名录（Red List，涵盖9498个物种），我们发现有16%的物种已发生局域灭绝，该比例是德国尺度下的5.9倍，是欧洲尺度下的47.1倍。柏林的物种局域灭绝率与另一个分类群覆盖范围相近的德国城市相当，但远高于人类影响较弱的区域。物种局域灭绝的记录始于18世纪，19世纪和20世纪的记录尤为完备。我们发现……
数据提取：为统计德国的局域灭绝物种占比，我们手动汇总了被归类为“灭绝或局域灭绝”的0类物种数量，并以德国红色名录中心（Rote Liste Zentrum, 2024a）官网发布的德国受威胁物种红色名录总物种数为基准计算占比。针对柏林，我们使用了柏林市州发布的37份最新受威胁植物、动物和真菌红色名录，时间跨度为2004年至2023年，数据取自柏林参议院交通、气候保护与环境部（SenMVKU, 2024a）的官方首都门户平台（详见表1中所用柏林红色名录概况）。我们提取了所有被列为灭绝/局域灭绝（即归类为0类）的物种，若有相关记录，还一并提取了该物种在柏林的最后观测日期。施密特（2017）发布的牛肝菌目大型真菌红色名录……
# 柏林局域灭绝物种、最后检出日期、栖息地及柏林人口数量
[https://doi.org/10.5061/dryad.n5tb2rc4k](https://doi.org/10.5061/dryad.n5tb2rc4k)
#### **数据与文件结构说明**
本数据集包含德国柏林的局域灭绝物种（0类）信息、其最后检出日期、栖息地信息，以及Keinath等人2024年发表的论文《城市环境中极高的物种局域灭绝率——以德国柏林为例（1700-2023）》中所用的柏林人口数据。数据源自德国柏林州发布的37份受威胁物种红色名录。
**共享与获取信息**
用于从柏林受威胁物种红色名录中提取局域灭绝物种的代码链接：
[https://github.com/Zzzhenya/Berlin-red-list](https://github.com/Zzzhenya/Berlin-red-list)
所用德国柏林州受威胁物种红色名录链接：
[https://www.berlin.de/sen/uvk/nat...