Alignment of mitogenome sequences (FASTA file) for a paleogenomic investigation of overharvest implications in an endemic wild reindeer subspecies

Overharvest can severely reduce the abundance and distribution of a species and thereby impact its genetic diversity and threaten its future viability. Overharvest remains an ongoing issue for Arctic mammals, which due to climate change now also confront one of the fastest changing environments on Earth. The high-Arctic Svalbard reindeer (Rangifer tarandus platyrhynchus), endemic to Svalbard, experienced a harvest-induced demographic bottleneck that occurred during the 17–20th centuries. Here we investigate changes in genetic diversity, population structure, and gene-specific differentiation during and after this overharvesting event. Using whole-genome shotgun sequencing, we generated the first ancient and historical nuclear (n = 11) and mitochondrial (n = 18) genomes from Svalbard reindeer (up to 4000 BP) and integrated these data with a large collection of modern genome sequences (n = 90), to infer temporal changes. We show that hunting resulted in major genetic changes and restructu..., , , # Alignment of mitogenome sequences (FASTA file)

The FASTA file provides the final multiple sequence alignment of mitochondrial genome haplotypes used in the phylogenetic analyses in our study.

## Description of the data and file structure

The multiple sequence alignment is in FASTA format. The FASTA identifier is consistent with the sample names used in our study and those from which we accessed public data.

## Sharing/Access information

Data was derived from the following sources:

* European Nucleotide Archive accession code PRJEB57293

过度猎捕会严重降低物种种群丰度与分布范围，进而影响其遗传多样性，威胁其未来生存存续能力。过度猎捕仍是北极哺乳动物面临的长期问题，而受气候变化影响，这些动物如今还要直面地球上变化速度最快的环境之一。
高北极地区的斯瓦尔巴德驯鹿（Rangifer tarandus platyrhynchus）是斯瓦尔巴群岛特有物种，在17至20世纪经历了因猎捕引发的种群瓶颈事件。本研究旨在探究此次过度猎捕事件发生期间及之后，该种群的遗传多样性、种群结构以及基因特异性分化的变化情况。
采用全基因组鸟枪测序技术，本研究首次获取了年代可追溯至4000年前的斯瓦尔巴德驯鹿的古代及历史基因组（核基因组样本量n=11，线粒体基因组样本量n=18），并将这些数据与90组现代基因组序列数据集整合，以推断遗传特征随时间的变化。研究结果表明，猎捕行为引发了显著的遗传变化与种群结构重构……
# 线粒体基因组序列比对文件（FASTA格式）
本研究的系统发育分析所用的线粒体基因组单倍型最终多重比对结果存储于该FASTA文件中。

## 数据与文件结构说明
该多重比对文件采用FASTA格式，文件中的FASTA标识符与本研究使用的样本名称以及我们获取公开数据的来源样本名称保持一致。

## 共享与获取说明
本研究数据来源于以下资源：
* 欧洲核苷酸档案馆（European Nucleotide Archive）登录号PRJEB57293