De Novo Transcriptome Sequencing of Oryza officinalis Wall ex Watt to Identify Disease-Resistance Genes.
De Novo Transcriptome Sequencing of Oryza officinalis Wall ex Watt to Identify Disease-Resistance Genes.
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DOI：
10.3390/ijms161226178
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发表时间：
2015-12-10
影响因子：
5.6
通讯作者：
Zhang Y
中科院分区：
文献类型：
--
作者：
He B;Gu Y;Tao X;Cheng X;Wei C;Fu J;Cheng Z;Zhang Y
药用野生稻（Oryza officinalis Wall ex Watt）是栽培稻最重要的野生近缘种之一，对多种病害具有很高的抗性。它已被用作基因渗入栽培稻的基因来源。然而，有有限的基因组资源和很少的遗传信息公开报道的这一物种。为了更好地了解水稻抗病的途径和影响因素，加快水稻育种的进程，我们对O.药用植物本研究通过对野生稻叶、茎和根的从头组装，获得了137，229个重叠群，其长度在200 - 19，214 bp之间，N50为2331 bp。使用Illumina HiSeq 2000平台对药用植物进行测序。基于对非冗余蛋白质数据库的序列相似性搜索，总共88，249个重叠群用基因描述进行注释，75，589个转录物进一步分配到GO术语。鉴定了植物与病原菌互作的候选基因和植物抗病激素调控途径。进一步的基因表达谱分析表明，大部分与抗病相关的基因都在三种组织中表达。此外，O.包括2个Xa 1基因和3个Xa 26基因。2个Xa 1基因在茎中表达量最高，其中1个Xa 26基因在叶中表达量最高，另外2个Xa 26基因在3种组织中表达量较低。该转录组数据库的建立，为进一步研究O.药用植物和栽培稻的遗传改良。
Oryza officinalis Wall ex Watt is one of the most important wild relatives of cultivated rice and exhibits high resistance to many diseases. It has been used as a source of genes for introgression into cultivated rice. However, there are limited genomic resources and little genetic information publicly reported for this species. To better understand the pathways and factors involved in disease resistance and accelerating the process of rice breeding, we carried out a de novo transcriptome sequencing of O. officinalis. In this research, 137,229 contigs were obtained ranging from 200 to 19,214 bp with an N50 of 2331 bp through de novo assembly of leaves, stems and roots in O. officinalis using an Illumina HiSeq 2000 platform. Based on sequence similarity searches against a non-redundant protein database, a total of 88,249 contigs were annotated with gene descriptions and 75,589 transcripts were further assigned to GO terms. Candidate genes for plant–pathogen interaction and plant hormones regulation pathways involved in disease-resistance were identified. Further analyses of gene expression profiles showed that the majority of genes related to disease resistance were all expressed in the three tissues. In addition, there are two kinds of rice bacterial blight-resistant genes in O. officinalis, including two Xa1 genes and three Xa26 genes. All 2 Xa1 genes showed the highest expression level in stem, whereas one of Xa26 was expressed dominantly in leaf and other 2 Xa26 genes displayed low expression level in all three tissues. This transcriptomic database provides an opportunity for identifying the genes involved in disease-resistance and will provide a basis for studying functional genomics of O. officinalis and genetic improvement of cultivated rice in the future.