|
Author:
Date:
2016-08-20
[Abstract] Establishing a reservoir of polymorphic markers is an important key for marker-assisted breeding. Many crops are still lack of such genomic infrastructure. Single nucleotide polymorphisms (SNPs) and simple sequence repeats (SSRs) are useful as markers because they are widespread over the genome and many technologies were developed for high throughput genotyping. We present here a pipeline for developing a reservoir of SNP and SSR markers for Mangifera indica L. as an example for fruit tree crops having no genomic information available. Our pipeline includes de novo assembly of reference transcriptome with MIRA and CAP3 based on reads produced by 454-GS FLX technology; Polymorphic loci discovery by alignment of Illumina resequencing to the transcriptome reference; ...
[摘要] 建立多态性标记的储库是标记辅助育种的重要关键。许多作物仍然缺乏这样的基因组学基础设施。单核苷酸多态性（SNP）和简单序列重复（SSR）可用作标记，因为它们在基因组上广泛存在，并且开发了许多技术用于高通量基因分型。我们在这里提出了用于开发Mangifera indica的SNP和SSR标记库的管道，作为没有基因组信息的果树作物的实例。我们的管道包括基于由454-GS FLX技术产生的读数的具有MIRA和CAP3的参考转录组的 de novo 装配;通过Illumina重排序到转录组参考的比对的多态性基因座发现;通过用Fluidigm技术进行基因分型，鉴定整个种质资源集合中多态的基因座子集。 [背景] ...
|