论文标题
下一代测序的UCA Minax转录组的从头组装
De Novo Assembly of Uca minax Transcriptome from Next Generation Sequencing
论文作者
论文摘要
高通量cDNA测序（RNA-Seq）是一种非常有力的技术，可以无偏见的方式量化基因表达。甲壳类家族是当前基因组数据库中稀疏代表的生物群之一。在这里，我们介绍了UCA Minax（红连接的提琴手蟹）的转录组数据，以扩展我们的知识。使用Illumina HISEQ系统，在UCA Minax的六个组织样品上进行了下一代测序。使用Trinity创建了六个转录组库；一个免费的开源软件工具，用于在没有参考基因组的情况下，用于高通量mRNA测序（RNA-SEQ）数据的从头转录组组件（RNA-SEQ）数据。此外，使用了一些有助于数据管理的工具，例如RSEM，Bowtie，Blast和IGV；可视化RNA-seq分析结果的工具。对原始测序文件的快速质量控制（FASTQC）分析表明，备用适配器和PCR引物序列都普遍存在，这可能需要一个预处理步骤。
High-throughput cDNA sequencing (RNA-seq) is a very powerful technique to quantify gene expression in an unbiased way. The Crustacean family is among the groups of organisms sparsely represented in current genomic databases. Here we present transcriptome data from Uca minax (red-jointed fiddler crab) as an opportunity to extend our knowledge. Next generation sequencing was performed on six tissue samples from Uca minax using the Illumina HiSeq system. Six Transcriptome libraries were created using Trinity; a free, open-source software tool for de novo transcriptome assembly of high-throughput mRNA sequencing (RNA-seq) data with the absence of a reference genome. In addition, several tools that aid in management of data were used, such as RSEM, Bowtie, Blast, and IGV; a tool for visualizing RNA-seq analysis results. Fast quality control (FastQC) analysis of the raw sequenced files revealed that both adapter and PCR primer sequences were prevalently present, which may require a preprocessing step.
