Three haplotype-resolved pentaploid Rosa assemblies with assembled and extracted single copy orthologue (SCO) sequences from Rosa canina genome, diploid Rosa species, and sect. Caninae pollen

This dataset was created to analyze nuclear single copy regions in Rosa canina genome assembly based on single copy orthologue (SCO) tags (Debray et al. 2019). We used 24 diploid rose species, pollen data from sekt. Caninae roses, Rosa canina subgenome specific SCO sequences, and outgroup species from the Rosaceae family. Target capturing baits were designed by Agilent Technologies covered exons, UTRs, and small introns.
The raw reads of target capturer sequencing were processed with GATK to obtain a sample specific reference for each SCO locus and each sample. Additionally, single copy loci for all whole genome assemblies (Rosa canina, Rubus idaeus, and Fragaria species) were extracted and concatenated into subgenome-specific sequences and together with sample specific SCO references used for alignment analysis.
The dataset also includes haplotype-resolved genome assemblies of Rosa canina S27, Rosa canina (DToL), and Rosa agrestis (DToL). All three Rosa samples are pentaploid..., , , # Three haplotype-resolved pentaploid Rosa assemblies with assembled and extracted single copy orthologue (SCO) sequences from Rosa canina genome, diploid Rosa species and sect. Caninae pollen

[https://doi.org/10.5061/dryad.cc2fqz6fh](https://doi.org/10.5061/dryad.cc2fqz6fh)

This dataset was created to analyze nuclear single copy regions in *Rosa canina* genome assembly based on single copy orthologue (SCO) tags (Debray et al. 2019). We used 24 diploid rose species, pollen data from sekt. *Caninae* roses, *Rosa canina* subgenome specific SCO sequences and outgroup species from the *Rosaceae* family. Target capturing baits were designed by Agilent Technologies covered exons, UTRs, and small introns.

The raw reads from target  capturer sequencing were processed with GATK to obtain a sample specific reference for each SCO locus and each sample. Additionaly, single copy loci for all whole genome assemblies (*Rosa canina*, *Rubus idaeus* and *Fragaria* species) were extracted and concaten...,

本数据集旨在基于单拷贝同源基因（single copy orthologue, SCO）标签，分析犬蔷薇（Rosa canina）基因组组装中的核单拷贝区域（参考Debray等人2019年的研究）。本研究使用了24个二倍体蔷薇物种、犬蔷薇组（sect. Caninae）蔷薇的花粉数据、犬蔷薇亚基因组特异性SCO序列，以及蔷薇科（Rosaceae）的外类群物种。安捷伦科技（Agilent Technologies）设计的目标捕获探针覆盖外显子、非翻译区（untranslated region, UTR）以及小型内含子。

目标捕获测序的原始读段经基因组分析工具包（Genome Analysis Toolkit, GATK）处理，以获得每个SCO位点与每个样本的样本特异性参考序列。此外，对所有全基因组组装结果（犬蔷薇、树莓（Rubus idaeus）以及草莓属（Fragaria）物种）中的单拷贝位点进行提取并拼接为亚基因组特异性序列，随后与样本特异性SCO参考序列一同用于比对分析。

本数据集还包含犬蔷薇S27、犬蔷薇（DToL）以及野蔷薇（Rosa agrestis，DToL）的单倍型解析基因组组装结果。这3份蔷薇样本均为五倍体……
# 本数据集包含3份单倍型解析的五倍体蔷薇组装结果，其中包含从犬蔷薇基因组、二倍体蔷薇物种及犬蔷薇组花粉中组装并提取的单拷贝同源基因（SCO）序列。
https://doi.org/10.5061/dryad.cc2fqz6fh

本数据集旨在基于单拷贝同源基因（SCO）标签，分析犬蔷薇基因组组装中的核单拷贝区域（参考Debray等人2019年的研究）。本研究使用了24个二倍体蔷薇物种、犬蔷薇组蔷薇的花粉数据、犬蔷薇亚基因组特异性SCO序列，以及蔷薇科的外类群物种。安捷伦科技设计的目标捕获探针覆盖外显子、UTR以及小型内含子。

目标捕获测序的原始读段经GATK处理，以获得每个SCO位点与每个样本的样本特异性参考序列。此外，对所有全基因组组装结果（犬蔷薇、树莓及草莓属物种）中的单拷贝位点进行提取并拼接为……