De novo assembly of Auricularia polytricha transcriptome and discovery of genes involved in the degradation of lignocellulose,Biotechnology and Applied Biochemistry

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De novo assembly of Auricularia polytricha transcriptome and discovery of genes involved in the degradation of lignocellulose
Biotechnology and Applied Biochemistry ( IF 3.2 ) Pub Date : 2020-08-12 , DOI: 10.1002/bab.2005
Shiyu Jiang ₁ , Xueling Zheng ₁ , Li Li ₁

Affiliation

Auricularia polytricha belonging to Basidiomycota has the ability to degrade lignocellulose. However, there has been no resource in public databases examining the transcriptome of A. polytricha. In this study, high-throughput sequencing platform BGISEQ-500 was used to generate large amount of transcript sequences from A. polytricha for gene discovery and molecular marker development. A total of 28,102 unigenes were discovered from the assembly of clean reads. In addition, functional categorization of the gene ontology (GO) and Kyoto encyclopedia of genes and genomes (KEGG) metabolic pathways revealed several important biological processes. GO annotation analysis presented 47 categories, with the major subcategories being catalytic activity, binding, cellular process, metabolic process, and cell. Among the five functional categories and 21 subcategories of processes discovered from KEGG, global and overview maps, carbohydrate metabolism, transport, and catabolism are the main subcategories. Furthermore, among the unigenes related to lignocellulosic degradation discovered by KEGG pathway enrichment analysis, 2, 5, and 16 unigenes in de novo assembly of A. polytricha transcriptome were found to relate to cellulose, hemicellulose, and lignin degradation, respectively. The study provided valuable information on the degradation of lignocellulose to facilitate research on the degradation mechanism, molecular marker, functional research, gene mapping, and other multigenomic studies of species containing lignocellulose.

中文翻译：

多毛木耳转录组的从头组装和木质纤维素降解相关基因的发现

属于担子菌门的多毛木耳具有降解木质纤维素的能力。然而，在检查A. polytricha转录组的公共数据库中没有资源。在本研究中，高通量测序平台 BGISEQ-500 用于从A. polytricha 中生成大量转录序列用于基因发现和分子标记开发。从干净读取的组装中总共发现了 28,102 个 unigenes。此外，基因本体论 (GO) 和京都基因和基因组百科全书 (KEGG) 代谢途径的功能分类揭示了几个重要的生物过程。GO注释分析呈现47个类别，主要子类别为催化活性、结合、细胞过程、代谢过程和细胞。在 KEGG 发现的过程的 5 个功能类别和 21 个子类别中，全局和概览图、碳水化合物代谢、运输和分解代谢是主要的子类别。此外，在KEGG通路富集分析发现的与木质纤维素降解相关的unigenes中，de novo中的2、5和16个unigenes发现A. polytricha转录组的组装分别与纤维素、半纤维素和木质素降解有关。该研究提供了有关木质纤维素降解的宝贵信息，以促进对含木质纤维素物种的降解机制、分子标记、功能研究、基因定位等多基因组研究的研究。

更新日期：2020-08-12

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