Anolis carolinensis character displacement SNP

Here are six files that provide details for all 44,120 identified single
nucleotide polymorphisms (SNPs) or the 215 outlier SNPs associated with
the evolution of rapid character displacement among replicate islands with
(2Spp) and without competition (1Spp) between two Anolis species. On 2Spp
islands, A. carolinensis occurs higher in trees and have evolved larger
toe pads. Among 1Spp and 2Spp island populations, we identify 44,120 SNPs,
with 215-outlier SNPs with improbably large FST values, low nucleotide
variation, greater linkage than expected, and these SNPs are enriched for
animal walking behavior. Thus, we conclude that these 215-outliers are
evolving by natural selection in response to the phenotypic convergent
evolution of character displacement. There are two, non-mutually exclusive
perspective of these nucleotide variants. One is character displacement is
convergent: all 215 outlier SNPs are shared among 3 out of 5 2Spp island
and 24% of outlier SNPS are shared among all five out of five 2Spp island.
Second, character displacement is genetically redundant because the allele
frequencies in one or more 2Spp are similar to 1Spp islands: among one or
more 2Spp islands 33% of outlier SNPS are within the range of 1Spp MiAF
and 76% of outliers are more similar to 1Spp island than mean MiAF of 2Spp
islands. Focusing on convergence SNP is scientifically more robust, yet it
distracts from the perspective of multiple genetic solutions that enhances
the rate and stability of adaptive change. The six files include: a
description of eight islands, details of 94 individuals, and four files on
SNPs.  The four SNP files include the VCF files for 94
individuals with 44KSNPs and two files (Excel sheet/tab-delimited file)
with FST, p-values and outlier status for all 44,120 identified single
nucleotide polymorphisms (SNPs) associated with the evolution of rapid
character displacement. The sixth file is a detailed file on the 215
outlier SNPs. Complete sequence data is available at Bioproject
PRJNA833453, which including samples not included in this study. 
The 94 individuals used in this study are described
in “Supplemental_Sample_description.txt”

本数据集包含6份文件，涵盖了针对两种安乐蜥属物种，在存在种间竞争（2Spp）与无种间竞争（1Spp）的重复岛屿中，与快速性状替换演化相关的全部44120个已鉴定单核苷酸多态性（single nucleotide polymorphisms, SNPs）以及215个异常SNPs的详细信息。在2Spp岛屿上，卡罗莱纳安乐蜥（Anolis carolinensis）的栖息高度更高，且演化出了更大的趾垫。本研究在1Spp与2Spp岛屿种群中共鉴定出44120个SNPs，其中215个异常SNPs表现出异常高的固定指数（Fixation Index, FST）值、较低的核苷酸多样性、高于预期的连锁程度，且这些SNPs显著富集于动物行走行为相关的基因区域。据此我们推断，这215个异常位点受到自然选择的驱动，以响应性状替换的表型趋同演化过程。针对这些核苷酸变异，存在两种并不互斥的研究视角：其一，性状替换具有趋同性：215个异常SNPs中，有3/5的变异在5个2Spp岛屿中的3个种群中共享，且24%的异常SNPs在全部5个2Spp岛屿种群中均存在；其二，性状替换在遗传上具有冗余性：一个或多个2Spp岛屿种群的等位基因频率与1Spp岛屿种群相似——在一个或多个2Spp岛屿中，33%的异常SNPs的等位基因频率处于1Spp种群的最小等位基因频率（Minor Allele Frequency, MiAF）区间内，且76%的异常SNPs相较于2Spp种群的平均MiAF，更接近1Spp种群的MiAF。聚焦于趋同SNPs的分析在科学上更为严谨，但却会忽略“多种遗传解决方案可提升适应性演化的速率与稳定性”这一视角。本数据集的6份文件具体包括：8个岛屿的相关说明、94个个体的详细信息，以及4份与SNPs相关的文件。其中4份SNP文件包含了94个个体（对应44K个SNPs）的变体调用格式（Variant Call Format, VCF）文件，以及2份记录了全部44120个已鉴定SNPs的FST值、P值及异常位点状态的文件（Excel表格/制表符分隔文件），这些SNPs均与快速性状替换的演化过程相关。第6份文件则是针对215个异常SNPs的详细说明文件。完整的序列数据可在生物项目（BioProject）PRJNA833453中获取，该数据库包含本研究未纳入的样本。本研究使用的94个个体的详细信息可参见"Supplemental_Sample_description.txt"