Argemone mexicana 植物（SRR287649）的全新转录组分析和次生代谢物产生基因的注释

IF 0.2 Q4 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Research Journal of Biotechnology Pub Date : 2024-01-31 DOI:10.25303/1903rjbt086092

Raghunath Satpathy

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引用次数: 0

摘要

Argemone mexicana（木犀科）是一种重要的药用植物，可产生多种次级代谢产物。本研究从 NCBI SRA 数据库（SRR287649）中获取了 Argemone mexicana 植物茎干的 RNA-seq 数据。使用 FastQC、Cutadapt 和 Trimmomatic 0.39 软件对原始数据进行了质量检查和修剪。此外，利用 Trinity 软件包进行的去重建序列组装共产生了 29591 个等位基因序列。作为后续工作，使用 Blast2GO 和 WEGO2 工具对所有等位基因进行 BLASTX 和注释，产生了 19780 个注释基因和 44440 个基因本体（GO）术语。此外，通过对等位基因序列进行功能分配，还预测了参与墨西哥刺芹次生代谢物生产的基因。

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De novo transcriptome analysis of Argemone mexicana plant (SRR287649) and annotation for secondary metabolite producing genes

Argemone mexicana (family: Papaveraceae) is an important medicinal plant that produces a wide range of secondary metabolites. In this study, the RNA-seq data of Argemone mexicana plant stem was retrieved from the NCBI SRA database (SRR287649). The quality checking and trimming of the raw data were performed by using FastQC, Cutadapt and Trimmomatic 0.39 software. Further, de-novo sequence assembly by Trinity software package generated a total 29591 number of contig sequences. As subsequent work, BLASTX and annotation of all the contig by using Blast2GO and WEGO2 tool produced 19780 annotated genes with 44440 gene ontology (GO) terms. Further, the genes involved in secondary metabolite production of the Argemone mexicana plant were predicted by functional assignment of the contig sequences.

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来源期刊

Research Journal of Biotechnology BIOTECHNOLOGY & APPLIED MICROBIOLOGY-

CiteScore

0.60

自引率

0.00%

发文量

192

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