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本文引用的文献

1
Datasets of essential oils from naturally formed and synthetically induced agarwoods.天然形成和人工诱导沉香木的精油数据集。
Data Brief. 2019 Dec 12;28:104987. doi: 10.1016/j.dib.2019.104987. eCollection 2020 Feb.
2
The Scent of Stress: Evidence From the Unique Fragrance of Agarwood.压力的气味：来自沉香独特香气的证据。
Front Plant Sci. 2019 Jul 16;10:840. doi: 10.3389/fpls.2019.00840. eCollection 2019.
3
Agarwood Induction: Current Developments and Future Perspectives.沉香诱导：当前进展与未来展望。
Front Plant Sci. 2019 Feb 7;10:122. doi: 10.3389/fpls.2019.00122. eCollection 2019.
4
Trunk surface agarwood-inducing technique with Rigidoporus vinctus: An efficient novel method for agarwood production.利用硬孔菌诱导沉香树干表面结香：一种生产沉香的高效新方法。
PLoS One. 2018 Jun 1;13(6):e0198111. doi: 10.1371/journal.pone.0198111. eCollection 2018.
5
Transcriptome Sequencing of Chemically Induced Aquilaria sinensis to Identify Genes Related to Agarwood Formation.化学诱导白木香转录组测序以鉴定与沉香形成相关的基因
PLoS One. 2016 May 16;11(5):e0155505. doi: 10.1371/journal.pone.0155505. eCollection 2016.
6
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs.BUSCO：利用单拷贝同源基因评估基因组组装和注释的完整性。
Bioinformatics. 2015 Oct 1;31(19):3210-2. doi: 10.1093/bioinformatics/btv351. Epub 2015 Jun 9.
7
Evaluation of comprehensive two-dimensional gas chromatography with accurate mass time-of-flight mass spectrometry for the metabolic profiling of plant-fungus interaction in Aquilaria malaccensis.利用精确质量飞行时间质谱联用的全二维气相色谱法对沉香属植物与真菌相互作用的代谢谱进行评估。
J Chromatogr A. 2015 Mar 27;1387:104-15. doi: 10.1016/j.chroma.2015.01.096. Epub 2015 Feb 9.
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Trimmomatic: a flexible trimmer for Illumina sequence data.Trimmomatic：一款适用于 Illumina 测序数据的灵活修剪工具。
Bioinformatics. 2014 Aug 1;30(15):2114-20. doi: 10.1093/bioinformatics/btu170. Epub 2014 Apr 1.
9
De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis.利用 Trinity 平台从 RNA-seq 进行从头转录序列重建，用于参考生成和分析。
Nat Protoc. 2013 Aug;8(8):1494-512. doi: 10.1038/nprot.2013.084. Epub 2013 Jul 11.
10
Identification of genes related to agarwood formation: transcriptome analysis of healthy and wounded tissues of Aquilaria sinensis.鉴定与沉香形成相关的基因：白木香健康和受伤组织的转录组分析。
BMC Genomics. 2013 Apr 8;14:227. doi: 10.1186/1471-2164-14-227.

沉香（Aquilaria malaccensis）天然结香与人工诱导结香的转录组分析

Transcriptome of Aquilaria malaccensis containing agarwood formed naturally and induced artificially.

机构信息

Department of Biological Sciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, UKM, 43600, Bangi, Selangor, Malaysia.

Institute of Systems Biology (INBIOSIS), Universiti Kebangsaan Malaysia, UKM, 43600, Bangi, Selangor, Malaysia.

出版信息

BMC Res Notes. 2021 Mar 25;14(1):117. doi: 10.1186/s13104-021-05532-9.

DOI:10.1186/s13104-021-05532-9
PMID:33766087
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7992328/
Abstract

OBJECTIVES

Agarwood is the aromatic heartwood formed upon wounding of Aquilaria trees either naturally formed due to physical wound sustained from natural phenomena followed by microbial infection, or artificially induced using different inoculation methods. Different induction methods produce agarwoods with different aromas which have impacts on their commercial values. In lieu of elucidating the molecular mechanisms of agarwood formation under different treatment conditions, the transcriptome profiles of trunk tissues from healthy A. malaccensis tree, and naturally and artificially induced trees were obtained.

DATA DESCRIPTION

The transcriptome of trunk tissues from healthy A. malaccensis, and naturally and artificially induced trees were sequenced using Illumina HiSeq™ 4000 platform which resulted in a total of 38.4 Gb clean reads with Q30 rate of at least 91%. The transcriptome consists of 85,986 unigenes containing 1305 bases on average which were annotated against several databases. From this, 44,654 unigenes were mapped to 290 metabolic pathways in the Kyoto Encyclopedia of Genes and Genomes database. These transcriptome data represent considerable contribution towards Aquilaria transcriptome data and enhance current knowledge in comprehending the molecular mechanisms underlying agarwood formation in Aquilaria spp.

摘要

目的

沉香木是由沉香树在自然条件下（由于自然现象导致的物理损伤，随后受到微生物感染）或通过不同的接种方法（人工诱导）形成的芳香心材。不同的诱导方法会产生具有不同香气的沉香木，从而影响其商业价值。为了阐明不同处理条件下沉香木形成的分子机制，我们获得了健康的白木香树以及自然和人工诱导的树木的树干组织的转录组图谱。

数据描述

使用 Illumina HiSeq™ 4000 平台对健康的白木香树、自然和人工诱导的树木的树干组织进行转录组测序，共获得 38.4GB 的清洁读数，Q30 率至少为 91%。转录组由 85986 条平均包含 1305 个碱基的 unigene 组成，这些 unigene 被注释到几个数据库中。其中，44654 条 unigene 被映射到京都基因与基因组百科全书数据库中的 290 条代谢途径。这些转录组数据为沉香属的转录组数据做出了重要贡献，并增强了我们对沉香属树木中沉香木形成的分子机制的理解。