Bergenia crassifolia（L.）新转录组的组装和特征描述

IF 1.6 4区生物学 Q4 BIOCHEMICAL RESEARCH METHODS

Plant Molecular Biology Reporter Pub Date : 2024-08-16 DOI:10.1007/s11105-024-01483-0

Shiping Cheng, Guomiao Zhao

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引用次数: 0

摘要

禾本科植物禾本科植物禾本科（Bergenia crassifolia (L.) Fritsch）在中国分布广泛，被广泛应用于中药和园林。该研究获得了约5.44亿高质量序列读数和75,115个单基因，其中40,102个（53.39%）被NR注释，27,769个（36.97%）被Swiss-Prot注释，27,266个（36.30%）被GO注释，12,644个（16.83%）被KEGG注释，37,808个（50.33%）被eggNOG数据库注释。共获得 1 495 个 DEUs，并将这些 DEUs 的表达模式归纳为 8 个类别，在 KEGG 通路中分析了每个类别中基因的功能。研究结果可满足B. crassifolia及其近缘植物碳氮代谢、适应气候变化和次生代谢产物积累等方面研究的需要。

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De Novo Transcriptome Assembly and Characterization for Bergenia crassifolia (L.)

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De Novo Transcriptome Assembly and Characterization for Bergenia crassifolia (L.)

Bergenia crassifolia (L.) Fritsch, of the family Bergenia Moench, has a broad distribution in China and has been used in Chinese medicine and Chinese gardens extensively. Approximately 544 million high-quality sequence reads and 75,115 unigenes were obtained, among which 40,102 (53.39%) were annotated in NR, 27,769 (36.97%) were annotated in Swiss-Prot, 27,266 (36.30%) were annotated in GO, 12,644 (16.83%) were annotated in KEGG, and 37,808 (50.33%) were annotated in eggNOG database. A total of 1,495 DEUs were obtained, and the expression patterns of these DEUs were gathered into eight categories, and the functions of genes in each categories were analyzed in KEGG pathway. The results may meet the needs for carbon–nitrogen metabolism, adaptation to climate change, and accumulation of secondary metabolites’ studies in B. crassifolia and its relatives.

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来源期刊

Plant Molecular Biology Reporter 生物-生化研究方法

CiteScore

4.20

自引率

0.00%

发文量

审稿时长

2.7 months

期刊介绍： The scope of the journal of Plant Molecular Biology Reporter has expanded to keep pace with new developments in molecular biology and the broad area of genomics. The journal now solicits papers covering myriad breakthrough technologies and discoveries in molecular biology, genomics, proteomics, metabolomics, and other ‘omics’, as well as bioinformatics.