Chromosome-Scale Genome and Transcriptomic Analyses Reveal Differential Regulation of Terpenoid Secondary Metabolites in Hericium coralloides.

IF 4.2 2区 生物学 Q2 MICROBIOLOGY Journal of Fungi Pub Date : 2024-10-09 DOI:10.3390/jof10100704
Kexin Meng, Junyi Lv, Tuo Zhang, Yuanyuan Liu, Peng Zhang, Yue Zhang, Banghui Hu, Qianhui Huang, Baogui Xie, Junsheng Fu
{"title":"Chromosome-Scale Genome and Transcriptomic Analyses Reveal Differential Regulation of Terpenoid Secondary Metabolites in <i>Hericium coralloides</i>.","authors":"Kexin Meng, Junyi Lv, Tuo Zhang, Yuanyuan Liu, Peng Zhang, Yue Zhang, Banghui Hu, Qianhui Huang, Baogui Xie, Junsheng Fu","doi":"10.3390/jof10100704","DOIUrl":null,"url":null,"abstract":"<p><p>Construction of the genome of <i>Hericium coralloides</i>, a species of edible mushroom, and identification of the genes involved in terpenoid biosynthesis can determine the biology and genetics of terpenoids. The present study describes the assembly of a high-quality chromosome-scale genome of <i>H. coralloides</i> using Pacbio HiFi sequencing and Hi-C technology. This genome consisted of 13 chromosomes, a total size of 43.6 Mb, contigs of N50 3.6 Mb, GC content at 54%, and BUSCOs integrity of 96.9%. Genes associated with terpenoid biosynthesis were predicted by KEGG enrichment analysis and homologous alignment. The <i>Her011461</i> and <i>Her008335</i> genes, encoding proteins in the terpenoid backbone synthesis pathway, were found to encode geranylgeranyl pyrophosphate and farnesyl diphosphate synthases, key enzymes in the biosynthesis of geranylgeranyl diphosphate, a precursor of several diterpenoids. <i>Her011463</i> was found to be involved in regulating diterpene cyclase. The <i>Her005433</i>, <i>Her006724</i>, <i>Her010605</i>, and <i>Her010608</i> genes were found to encode sesquiterpene synthesis. Most of these genes were more highly expressed in dikaryotic mycelia than in the primordium and fruiting bodies, indicating that terpenoids may be more abundant in dikaryotic mycelia. To our knowledge, this study is the first to assemble the <i>H. coralloides</i> genome at the chromosome scale and to identify the genes involved in terpenoid biosynthesis.</p>","PeriodicalId":15878,"journal":{"name":"Journal of Fungi","volume":"10 10","pages":""},"PeriodicalIF":4.2000,"publicationDate":"2024-10-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11508549/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Fungi","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.3390/jof10100704","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"MICROBIOLOGY","Score":null,"Total":0}
引用次数: 0

Abstract

Construction of the genome of Hericium coralloides, a species of edible mushroom, and identification of the genes involved in terpenoid biosynthesis can determine the biology and genetics of terpenoids. The present study describes the assembly of a high-quality chromosome-scale genome of H. coralloides using Pacbio HiFi sequencing and Hi-C technology. This genome consisted of 13 chromosomes, a total size of 43.6 Mb, contigs of N50 3.6 Mb, GC content at 54%, and BUSCOs integrity of 96.9%. Genes associated with terpenoid biosynthesis were predicted by KEGG enrichment analysis and homologous alignment. The Her011461 and Her008335 genes, encoding proteins in the terpenoid backbone synthesis pathway, were found to encode geranylgeranyl pyrophosphate and farnesyl diphosphate synthases, key enzymes in the biosynthesis of geranylgeranyl diphosphate, a precursor of several diterpenoids. Her011463 was found to be involved in regulating diterpene cyclase. The Her005433, Her006724, Her010605, and Her010608 genes were found to encode sesquiterpene synthesis. Most of these genes were more highly expressed in dikaryotic mycelia than in the primordium and fruiting bodies, indicating that terpenoids may be more abundant in dikaryotic mycelia. To our knowledge, this study is the first to assemble the H. coralloides genome at the chromosome scale and to identify the genes involved in terpenoid biosynthesis.

查看原文
分享 分享
微信好友 朋友圈 QQ好友 复制链接
本刊更多论文
染色体尺度的基因组和转录组分析揭示了珊瑚虫萜类次生代谢物的差异调控。
构建一种食用菌 Hericium coralloides 的基因组并鉴定参与萜类化合物生物合成的基因可以确定萜类化合物的生物学和遗传学。本研究介绍了利用 Pacbio HiFi 测序和 Hi-C 技术组装的高质量珊瑚菇染色体级基因组。该基因组由 13 条染色体组成,总大小为 43.6 Mb,等位基因 N50 为 3.6 Mb,GC 含量为 54%,BUSCOs 完整性为 96.9%。通过 KEGG 富集分析和同源比对预测了与萜类化合物生物合成相关的基因。发现编码萜类化合物骨架合成途径中蛋白质的 Her011461 和 Her008335 基因编码香叶基焦磷酸酯和法呢基二磷酸酯合成酶,它们是生物合成香叶基二磷酸酯(多种二萜类化合物的前体)的关键酶。研究发现,Her011463 参与调节二萜环化酶。发现 Her005433、Her006724、Her010605 和 Her010608 基因编码倍半萜合成。与原基和子实体相比,这些基因在二核菌丝体中的表达量更高,表明二核菌丝体中的萜类化合物可能更丰富。据我们所知,这项研究首次在染色体尺度上组装了珊瑚虫基因组,并确定了参与萜类化合物生物合成的基因。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 去求助
来源期刊
Journal of Fungi
Journal of Fungi Medicine-Microbiology (medical)
CiteScore
6.70
自引率
14.90%
发文量
1151
审稿时长
11 weeks
期刊介绍: Journal of Fungi (ISSN 2309-608X) is an international, peer-reviewed scientific open access journal that provides an advanced forum for studies related to pathogenic fungi, fungal biology, and all other aspects of fungal research. The journal publishes reviews, regular research papers, and communications in quarterly issues. Our aim is to encourage scientists to publish their experimental and theoretical results in as much detail as possible. Therefore, there is no restriction on paper length. Full experimental details must be provided so that the results can be reproduced.
期刊最新文献
Characterization of a High-Affinity Copper Transporter CTR1a in the White-Nose Syndrome Causing Fungal Pathogen Pseudogymnoascus destructans. Diversity and Antifungal Susceptibilities of Yeasts from Mangroves in Hong Kong, China-A One Health Aspect. Recent Advances in Diagnostic Approaches for Mucormycosis. Exogenous Nitric Oxide Induces Pathogenicity of Alternaria alternata on Huangguan Pear Fruit by Regulating Reactive Oxygen Species Metabolism and Cell Wall Modification. Three New Species of Mytilinidioid Fungi (Dothideomycetes, Ascomycota) from Mexico.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
0
微信
客服QQ
Book学术公众号 扫码关注我们
反馈
×
意见反馈
请填写您的意见或建议
请填写您的手机或邮箱
已复制链接
已复制链接
快去分享给好友吧!
我知道了
×
扫码分享
扫码分享
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术
文献互助 智能选刊 最新文献 互助须知 联系我们:info@booksci.cn
Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。
Copyright © 2023 Book学术 All rights reserved.
ghs 京公网安备 11010802042870号 京ICP备2023020795号-1