Whole-Transcriptome Sequencing Reveals That mRNA and ncRNA Levels Correlate with Pleurotus cornucopiae Color Formation

IF 3.1 3区农林科学 Q1 HORTICULTURE

Horticulturae Pub Date : 2024-01-07 DOI:10.3390/horticulturae10010060

Yingjie Zhang, Chenyang Huang, Mengran Zhao, Guangyu Li, Zeyin Wu, Jie Zhang, Lijiao Zhang

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引用次数: 0

Abstract

Pleurotus cornucopiae cap color is an important commercial trait. The roles of non-coding RNA molecules (ncRNAs) in fungal fruiting body color formation are unclear. Whole-transcriptome analyses were performed, identifying messenger RNA (mRNA) and ncRNA (including long stranded non-coding RNA (lncRNA), micro RNA-like (milRNA), and circular RNA (circRNA)) molecules in three P. cornucopiae strains with different cap colors (grayish-black, grayish-white, and white), to investigate their roles in cap color formation. Differentially expressed mRNAs (n = 3604), lncRNAs (n = 520), milRNAs (n = 56), and circRNAs (n = 20) were identified among the three different color strains. Differentially expressed mRNAs and ncRNAs target genes were mainly involved in tyrosine, arachidonic acid, and histidine metabolism, plus other pathways potentially important in color formation. A competitive endogenous RNA (ceRNA) network and three mRNA and ncRNA co-expression networks were constructed, revealing relationships contributing to cap color formation, involving genes with roles in protein phosphorylation, and phenylalanine, tyrosine, and tryptophan biosynthesis. qRT-PCR analysis confirmed that mRNA and ncRNA levels were related to P. cornucopiae color. These regulatory networks may be crucial in P. cornucopiae color formation. Our data provide a new perspective to support further study of the mechanisms underlying P. cornucopiae color formation.

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全转录组测序揭示了 mRNA 和 ncRNA 水平与褐藻颜色形成的关系

蘑菇菌盖的颜色是一种重要的商业特征。非编码 RNA 分子（ncRNA）在真菌子实体颜色形成中的作用尚不清楚。研究人员对具有不同子实体颜色（灰黑色、灰白色和白色）的三个玉米赤霉菌品系进行了全转录组分析，鉴定了信使 RNA（mRNA）和 ncRNA（包括长链非编码 RNA（lncRNA）、类微 RNA（milRNA）和环状 RNA（circRNA））分子，以研究它们在子实体颜色形成中的作用。在三个不同颜色的菌株中鉴定了不同表达的 mRNAs（n = 3604）、lncRNAs（n = 520）、milRNAs（n = 56）和 circRNAs（n = 20）。差异表达的 mRNAs 和 ncRNAs 目标基因主要涉及酪氨酸、花生四烯酸和组氨酸代谢，以及其他可能对颜色形成很重要的途径。构建了一个竞争性内源 RNA（ceRNA）网络以及三个 mRNA 和 ncRNA 共表达网络，揭示了有助于蘑菇伞颜色形成的关系，其中涉及在蛋白质磷酸化以及苯丙氨酸、酪氨酸和色氨酸生物合成中发挥作用的基因。这些调控网络可能对玉米螟颜色的形成至关重要。我们的数据为进一步研究矢车菊颜色形成的机制提供了新的视角。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Horticulturae HORTICULTURE-

CiteScore

3.50

自引率

19.40%

发文量

998

期刊介绍： Horticulturae (ISSN 2311-7524) is an international, multidisciplinary, peer-reviewed, open access journal focusing on all areas and aspects of temperate to tropical horticulture. It publishes original empirical and theoretical research articles, short communications, reviews, and opinion articles. We intend to encourage scientists to publish and communicate their results concerning all branches of horticulture in a timely manner and in an open venue, after being evaluated by the journal editors and randomly selected independent expert reviewers, so that all articles will never be judged in relation to how much they confirm or criticize the opinions of other researchers.