Chromosome-Scale Genome and Transcriptomic Analyses Reveal Differential Regulation of Terpenoid Secondary Metabolites in <i>Hericium coralloides</i>
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 ge...
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2024-10-01
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| author | Kexin Meng Junyi Lv Tuo Zhang Yuanyuan Liu Peng Zhang Yue Zhang Banghui Hu Qianhui Huang Baogui Xie Junsheng Fu |
| author_facet | Kexin Meng Junyi Lv Tuo Zhang Yuanyuan Liu Peng Zhang Yue Zhang Banghui Hu Qianhui Huang Baogui Xie Junsheng Fu |
| author_sort | Kexin Meng |
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| description | 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. |
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| issn | 2309-608X |
| language | English |
| publishDate | 2024-10-01 |
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| series | Journal of Fungi |
| spelling | doaj-art-beb9653d67ef4fc29fe993da2d5ec7b72025-08-20T02:10:54ZengMDPI AGJournal of Fungi2309-608X2024-10-01101070410.3390/jof10100704Chromosome-Scale Genome and Transcriptomic Analyses Reveal Differential Regulation of Terpenoid Secondary Metabolites in <i>Hericium coralloides</i>Kexin Meng0Junyi Lv1Tuo Zhang2Yuanyuan Liu3Peng Zhang4Yue Zhang5Banghui Hu6Qianhui Huang7Baogui Xie8Junsheng Fu9College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Biological Sciences and Engineering, Ningde Normal University, Ningde 352100, ChinaMycological Research Center, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaCollege of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, ChinaConstruction 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.https://www.mdpi.com/2309-608X/10/10/704<i>Hericium coralloides</i>genome and transcriptometerpenoidscluster gene |
| spellingShingle | Kexin Meng Junyi Lv Tuo Zhang Yuanyuan Liu Peng Zhang Yue Zhang Banghui Hu Qianhui Huang Baogui Xie Junsheng Fu Chromosome-Scale Genome and Transcriptomic Analyses Reveal Differential Regulation of Terpenoid Secondary Metabolites in <i>Hericium coralloides</i> Journal of Fungi <i>Hericium coralloides</i> genome and transcriptome terpenoids cluster gene |
| title | Chromosome-Scale Genome and Transcriptomic Analyses Reveal Differential Regulation of Terpenoid Secondary Metabolites in <i>Hericium coralloides</i> |
| title_full | Chromosome-Scale Genome and Transcriptomic Analyses Reveal Differential Regulation of Terpenoid Secondary Metabolites in <i>Hericium coralloides</i> |
| title_fullStr | Chromosome-Scale Genome and Transcriptomic Analyses Reveal Differential Regulation of Terpenoid Secondary Metabolites in <i>Hericium coralloides</i> |
| title_full_unstemmed | Chromosome-Scale Genome and Transcriptomic Analyses Reveal Differential Regulation of Terpenoid Secondary Metabolites in <i>Hericium coralloides</i> |
| title_short | Chromosome-Scale Genome and Transcriptomic Analyses Reveal Differential Regulation of Terpenoid Secondary Metabolites in <i>Hericium coralloides</i> |
| title_sort | chromosome scale genome and transcriptomic analyses reveal differential regulation of terpenoid secondary metabolites in i hericium coralloides i |
| topic | <i>Hericium coralloides</i> genome and transcriptome terpenoids cluster gene |
| url | https://www.mdpi.com/2309-608X/10/10/704 |
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