作为参考基因组,用GBS-SNP标记比较分析4种石斛(霍山石斛,铁皮石斛,细茎石斛,梵净山石斛)的差异和亲缘关系,以期为这4种石斛的研究提供参考.结果表明:4种石斛每个样本产生的clean reads值分别为1390262,1286162,1380009,1170337;每个样本的单核苷酸多态性位点(SNP)数目分别为1507746,893333,1364605和1227006个;Admixture...
1.基于GBS技术获取白菜类作物全基因组高密度SNP位点构建指纹图谱的方法,其特征在于,包括以下步骤: (1)按照表1的酶切方案,预测单酶切或双酶切白菜类材料基因组所获得的酶切片段分布情况; (2)根据酶切片段分布特点设计条形码接头及PCR扩增引物; (3)构建简化基因组测序文库; (4)利用步骤(3)构建的文库进行上机测序...
1、利用GBS技术开发烟草SNP标记及遗传多样性分析p 摘要:研究烟草种质资的遗传背景,为烟草种质资的高效利用提供依据。采用GBS(genotyping-by-sequencing)技术,挖掘92份烟草种质资的SNP位点,并进行遗传多样性和遗传结构分析p 。结果表明,测序共获得了147.165 Gb数据,平均每个样本1.599 Gb,筛选后共获得93 685个高质量的SN...
filtering SNPs based on LD and HWE status. Contribute to laninsky/GBS_SNP_filter development by creating an account on GitHub.
filtering SNPs based on LD and HWE status. Contribute to laninsky/GBS_SNP_filter development by creating an account on GitHub.
This study was conducted to develop an SNP set that can be useful for marker-assisted breeding (MAB) in watermelon (Citrullus. lanatus L) using Genotyping-bysequencing (GBS) analysis of 20 commercial elite watermelon inbreds. The result of GBS showed that 77% of approximately 1.1 billion raw...
SNP的开发依赖于第二代测序技术(next generation sequencing,NGS)。随着测序技术的迅猛发展,诸多植物基因组序列得到公布,扩大了SNP分子标记的检测范围。第二代测序技术通常使用高通量测序平台,具有检测速度快、精确度高和高通量等特点,又称为高通量测序技术。其中,简化基因组测序(GBS)技术逐渐成为国内外研究热点,最近在...
严重制约着GBS-SNP在林木分子育种中的应用价值,因此,采取合适的质控流程过滤处理所获SNP以提升其SNP开发质量,是应用GBS开发林木高通量SNP中应重点考虑的问题.本论文以70个马尾松GBS测序样本数据分别与三套不同来源马尾松参考本开发获得的三套 SNP(ddSNP,dmSNP,drSNP),在 R,shell,perl 等语言编程处理下,采用技术性...
采用GBS(genotyping-by-sequencing)技术,挖掘92份烟草种质资源的SNP位点,并进行遗传多样性和遗传结构分析。结果表明,测序共获得了147.165 Gb数据,平均每个样本1.599 Gb,筛选后共获得93 685个高质量的SNP位点;不同地理来源烟草群体等位基因数(Na)为1.27~1.93,观测杂合度(Ho)变化范围为0.22~0.76,期望杂合度(He)为...
GBS_SNP_filter v1.17 bug notice: GBS_SNP_filter is not curently filtering for missingness correctly. The current workaround is to use VCF tools to do this in a stand-alone step. Thanks to Didier for pointing out this issue. Summary After you get your ddRADseq/GBS variant dataset through...