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Abstract：
Gardenia jasminoides is a species of Chinese medicinal plant, which has high medicinal and economic value and rich genetic diversity, but the study on its genetic diversity is far not enough.
In this study, one wild and one cultivated gardenia materials were resequenced using IlluminaHiSeq sequencing platform and the data were evaluated to understand the genomic characteristics of G. jasminoides.
After data analysis, the results showed that clean data of 11.77G, Q30 reached 90.96%. The average comparison rate between the sample and reference genome was 96.08%, the average coverage depth was 15X, and the genome coverage was 85.93%. The SNPs of FD and YP1 were identified, and 3,087,176 and 3,241,416 SNPs were developed, respectively. In addition, SNP non-synonymous mutation, InDel mutation, SV mutation and CNV mutation were also detected between the sample and the reference genome, and KEGG, GO and COG database annotations were made for genes with DNA level variation. The structural gene variation in the biosynthetic pathway of crocin and gardenia, the main medicinal substance of G. jasminoides was further explored, which provided basic data for molecular breeding and genetic diversity of G. jasminoides in the future.
In this study, one wild and one cultivated gardenia materials were resequenced using IlluminaHiSeq sequencing platform and the data were evaluated to understand the genomic characteristics of G. jasminoides.
After data analysis, the results showed that clean data of 11.77G, Q30 reached 90.96%. The average comparison rate between the sample and reference genome was 96.08%, the average coverage depth was 15X, and the genome coverage was 85.93%. The SNPs of FD and YP1 were identified, and 3,087,176 and 3,241,416 SNPs were developed, respectively. In addition, SNP non-synonymous mutation, InDel mutation, SV mutation and CNV mutation were also detected between the sample and the reference genome, and KEGG, GO and COG database annotations were made for genes with DNA level variation. The structural gene variation in the biosynthetic pathway of crocin and gardenia, the main medicinal substance of G. jasminoides was further explored, which provided basic data for molecular breeding and genetic diversity of G. jasminoides in the future.
摘要：
■栀子是一种中国药用植物，具有很高的药用和经济价值以及丰富的遗传多样性，但是对其遗传多样性的研究还远远不够。
■在这项研究中，使用IlluminaHiSeq测序平台对一种野生和一种栽培的栀子材料进行了重新测序，并对数据进行了评估，以了解G.jasminoides的基因组特征。
■经过数据分析，结果表明，11.77G的清洁数据，Q30达到90.96%。样本与参考基因组的平均比较率为96.08%,平均覆盖深度为15X,基因组覆盖率为85.93%。鉴定FD和YP1的SNP，开发了3,087,176和3,241,416个SNP，分别。此外,SNP非同义突变,InDel突变,在样品和参考基因组之间还检测到SV突变和CNV突变，和KEGG,GO和COG数据库注解均取得了具有DNA程度变异的基因。藏红花、栀子生物合成途径的结构基因变异,进一步探索了茉莉的主要药用物质，为今后山茱萸的分子育种和遗传多样性提供了基础数据。
■在这项研究中，使用IlluminaHiSeq测序平台对一种野生和一种栽培的栀子材料进行了重新测序，并对数据进行了评估，以了解G.jasminoides的基因组特征。
■经过数据分析，结果表明，11.77G的清洁数据，Q30达到90.96%。样本与参考基因组的平均比较率为96.08%,平均覆盖深度为15X,基因组覆盖率为85.93%。鉴定FD和YP1的SNP，开发了3,087,176和3,241,416个SNP，分别。此外,SNP非同义突变,InDel突变,在样品和参考基因组之间还检测到SV突变和CNV突变，和KEGG,GO和COG数据库注解均取得了具有DNA程度变异的基因。藏红花、栀子生物合成途径的结构基因变异,进一步探索了茉莉的主要药用物质，为今后山茱萸的分子育种和遗传多样性提供了基础数据。
