Scots pine genotypes from Finland, code and supplementary data for the paper: "Does the seed fall far from the tree? Weak fine-scale genetic structure in a continuous Scots pine population", Niskanen et al. 2024, Peer Community Journal

Supplementary data for the manuscript:
Does the seed fall far from the tree? Weak fine-scale genetic structure in a continuous Scots pine population
Alina K. Niskanen1,3, Sonja T. Kujala2, Katri Kärkkäinen2, Outi Savolainen1, Tanja Pyhäjärvi3

1Ecology and Genetics Research Unit, University of Oulu, 90014 University of Oulu, Finland
2Natural Resources Institute Finland (Luke), University of Oulu, 90014 University of Oulu, Finland
3Department of Forest Sciences, University of Helsinki, 00014 University of Helsinki, Finland
Inquiries about the data:
Alina Niskanen, [e-mail]

Files included in the dataset:
1. & 2. "Genotypes.ped" & Genotypes.map": PLINK genotype file in .ped format and SNP position file in .map format including filtered genotype data for 469 individuals and 65 498 SNPs used for principal component analysis (PCA) and estimating pairwise relatedness.
3. "MAF_01_pine_426inds_23623_loci.raw" : Plink Genotype file in .raw format including 23 623 SNPs for 426 unrelated Scots pines used in the rare allele analyses.
4. "Locations_population.txt" : Location information for 469 Scots pines in Punkaharju research area. The sampling site ("Ranta-Halola" or "Mäkrä") is given.

Command files included:
5. "Spatial_R_commands_fighsare.R": Main R commands of the PCA, FST and Mantel analyses.
6. "GCTA_commands_figshare.txt": Main GCTA commands for estimating relatedness and inbreeding.

Supplementary data file:
7. "Niskanen_etal_2024_Supplements.pdf": Includes Supplementary figures S1-S6 and tables S1-S2.

本论文配套补充数据：《种子离树有多远？连续分布欧洲赤松种群的微弱精细遗传结构》
作者：Alina K. Niskanen1,3、Sonja T. Kujala2、Katri Kärkkäinen2、Outi Savolainen1、Tanja Pyhäjärvi3

1. 奥卢大学生态学与遗传学研究组，芬兰奥卢，邮编90014
2. 芬兰自然资源研究所（Luke），奥卢大学，芬兰奥卢，邮编90014
3. 赫尔辛基大学森林科学系，芬兰赫尔辛基，邮编00014

数据咨询联系人：Alina Niskanen，邮箱：[e-mail]

本数据集包含以下文件：
1. 与2. "Genotypes.ped" 及 "Genotypes.map"：PLINK 基因型文件（.ped 格式）与SNP位置文件（.map 格式），包含469个个体的过滤后基因型数据与65498个单核苷酸多态性（Single Nucleotide Polymorphism, SNP）位点，用于主成分分析（Principal Component Analysis，PCA）与两两亲缘关系估计。
3. "MAF_01_pine_426inds_23623_loci.raw"：PLINK 基因型文件（.raw 格式），包含用于稀有等位基因分析的426个无亲缘关系欧洲赤松的23623个SNP位点。
4. "Locations_population.txt"：Punkaharju研究区域内469株欧洲赤松的位置信息，包含采样点信息（"Ranta-Halola" 或 "Mäkrä"）。

附带命令行文件：
5. "Spatial_R_commands_fighsare.R"：主成分分析（PCA）、FST检验与Mantel分析的核心R脚本命令。
6. "GCTA_commands_figshare.txt"：用于亲缘关系与近交系数估计的核心GCTA命令脚本。

补充数据文件：
7. "Niskanen_etal_2024_Supplements.pdf"：包含补充图S1-S6与补充表S1-S2。