Genome wide allele frequency fingerprints (GWAFFs) of populations via genotyping by sequencing.
Genome wide allele frequency fingerprints (GWAFFs) of populations via genotyping by sequencing.
复制标题
通过测序进行基因分型，获得群体的全基因组等位基因频率指纹 (GWAFF)。
DOI：
10.1371/journal.pone.0057438
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发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Asp T
中科院分区：
文献类型：
--
作者：
Byrne S;Czaban A;Studer B;Panitz F;Bendixen C;Asp T
基因型测序（GBS）是一种很好的工具来表征植物基因组之间的遗传变异。迄今为止，仅报道了其用于单个个体的基因分型。然而，在全基因组范围内解决群体内的等位基因频率将是非常强大的应用，例如远交物种的育种，远交物种的品种保护，监测群体等位基因频率的变化。这促使我们测试使用GBS评估群体内等位基因频率的潜力。多年生黑麦草是远交种，育种计划是基于种群选择。我们测试了两种限制性内切酶在降低多年生黑麦草基因组复杂性方面的效率。由此产生的配置文件已被称为全基因组等位基因频率指纹（GWAFF），我们已经展示了如何使用这些指纹来区分植物种群。即使以目前的成本和通量，使用测序直接评估全基因组规模的群体也是可行的。GWAFF应该有许多应用，从远系繁殖物种的品种开发到保护植物育种者的权利。
Genotyping-by-Sequencing (GBS) is an excellent tool for characterising genetic variation between plant genomes. To date, its use has been reported only for genotyping of single individuals. However, there are many applications where resolving allele frequencies within populations on a genome-wide scale would be very powerful, examples include the breeding of outbreeding species, varietal protection in outbreeding species, monitoring changes in population allele frequencies. This motivated us to test the potential to use GBS to evaluate allele frequencies within populations. Perennial ryegrass is an outbreeding species, and breeding programs are based upon selection on populations. We tested two restriction enzymes for their efficiency in complexity reduction of the perennial ryegrass genome. The resulting profiles have been termed Genome Wide Allele Frequency Fingerprints (GWAFFs), and we have shown how these fingerprints can be used to distinguish between plant populations. Even at current costs and throughput, using sequencing to directly evaluate populations on a genome-wide scale is viable. GWAFFs should find many applications, from varietal development in outbreeding species right through to playing a role in protecting plant breeders’ rights.
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