A Chromosome-Scale Genome of <i>Trametes versicolor</i> and Transcriptome-Based Screening for Light-Induced Genes That Promote Triterpene Biosynthesis
<i>Trametes versicolor</i> is an important fungus with medicinal properties and a significant role in lignocellulose degradation. In this study, we constructed a high-quality chromosome-level genome of <i>T. versicolor</i> using Illumina, PacBio HiFi, and Hi-C sequencing tech...
Saved in:
| Main Authors: | , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2025-01-01
|
| Series: | Journal of Fungi |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2309-608X/11/1/81 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1832588206518829056 |
|---|---|
| author | Yang Yang Xuebo Hu |
| author_facet | Yang Yang Xuebo Hu |
| author_sort | Yang Yang |
| collection | DOAJ |
| description | <i>Trametes versicolor</i> is an important fungus with medicinal properties and a significant role in lignocellulose degradation. In this study, we constructed a high-quality chromosome-level genome of <i>T. versicolor</i> using Illumina, PacBio HiFi, and Hi-C sequencing technologies. The assembled genome is 47.42 Mb in size and contains 13,307 protein-coding genes. BUSCO analysis revealed genome and gene completeness results of 95.80% and 95.90%, respectively. Phylogenetic analysis showed that <i>T. versicolor</i> is most closely related to <i>T. pubescens</i>, followed by <i>T. cinnabarina</i> and <i>T. coccinea</i>. Comparative genomic analysis identified 266 syntenic blocks between <i>T. versicolor</i> and <i>Wolfiporia cocos</i>, indicating a conserved evolutionary pattern between the two species. Gene family analysis highlighted the expansion and contraction of genes in functional categories related to the biosynthesis of secondary metabolites, including several <i>T. versicolor</i>-specific genes. Key genes involved in lignocellulose degradation and triterpene production were identified within the CAZyme and CYP450 gene families. Transcriptomic analysis under dark and light conditions revealed significant changes in the expression of genes related to secondary metabolism, suggesting that light signals regulate metabolic pathways. A total of 2577 transporter proteins and 2582 membrane proteins were identified and mapped in the <i>T. versicolor</i> genome, and 33 secondary metabolite gene clusters were identified, including two light-sensitive triterpene biosynthesis clusters. This study offers a comprehensive genomic resource for further investigation into the functional genomics, metabolic regulation, and triterpene biosynthesis of <i>T. versicolor</i>, providing valuable insights into fungal evolution and biotechnological applications. |
| format | Article |
| id | doaj-art-6e8700354fac4030bad6c239159dbf50 |
| institution | Kabale University |
| issn | 2309-608X |
| language | English |
| publishDate | 2025-01-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Journal of Fungi |
| spelling | doaj-art-6e8700354fac4030bad6c239159dbf502025-01-24T13:37:28ZengMDPI AGJournal of Fungi2309-608X2025-01-011118110.3390/jof11010081A Chromosome-Scale Genome of <i>Trametes versicolor</i> and Transcriptome-Based Screening for Light-Induced Genes That Promote Triterpene BiosynthesisYang Yang0Xuebo Hu1Institute for Medicinal Plants, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, ChinaInstitute for Medicinal Plants, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China<i>Trametes versicolor</i> is an important fungus with medicinal properties and a significant role in lignocellulose degradation. In this study, we constructed a high-quality chromosome-level genome of <i>T. versicolor</i> using Illumina, PacBio HiFi, and Hi-C sequencing technologies. The assembled genome is 47.42 Mb in size and contains 13,307 protein-coding genes. BUSCO analysis revealed genome and gene completeness results of 95.80% and 95.90%, respectively. Phylogenetic analysis showed that <i>T. versicolor</i> is most closely related to <i>T. pubescens</i>, followed by <i>T. cinnabarina</i> and <i>T. coccinea</i>. Comparative genomic analysis identified 266 syntenic blocks between <i>T. versicolor</i> and <i>Wolfiporia cocos</i>, indicating a conserved evolutionary pattern between the two species. Gene family analysis highlighted the expansion and contraction of genes in functional categories related to the biosynthesis of secondary metabolites, including several <i>T. versicolor</i>-specific genes. Key genes involved in lignocellulose degradation and triterpene production were identified within the CAZyme and CYP450 gene families. Transcriptomic analysis under dark and light conditions revealed significant changes in the expression of genes related to secondary metabolism, suggesting that light signals regulate metabolic pathways. A total of 2577 transporter proteins and 2582 membrane proteins were identified and mapped in the <i>T. versicolor</i> genome, and 33 secondary metabolite gene clusters were identified, including two light-sensitive triterpene biosynthesis clusters. This study offers a comprehensive genomic resource for further investigation into the functional genomics, metabolic regulation, and triterpene biosynthesis of <i>T. versicolor</i>, providing valuable insights into fungal evolution and biotechnological applications.https://www.mdpi.com/2309-608X/11/1/81<i>Trametes versicolor</i>chromosome-levelphylogenetic evolutionCAZymesCYP450triterpene biosynthesis |
| spellingShingle | Yang Yang Xuebo Hu A Chromosome-Scale Genome of <i>Trametes versicolor</i> and Transcriptome-Based Screening for Light-Induced Genes That Promote Triterpene Biosynthesis Journal of Fungi <i>Trametes versicolor</i> chromosome-level phylogenetic evolution CAZymes CYP450 triterpene biosynthesis |
| title | A Chromosome-Scale Genome of <i>Trametes versicolor</i> and Transcriptome-Based Screening for Light-Induced Genes That Promote Triterpene Biosynthesis |
| title_full | A Chromosome-Scale Genome of <i>Trametes versicolor</i> and Transcriptome-Based Screening for Light-Induced Genes That Promote Triterpene Biosynthesis |
| title_fullStr | A Chromosome-Scale Genome of <i>Trametes versicolor</i> and Transcriptome-Based Screening for Light-Induced Genes That Promote Triterpene Biosynthesis |
| title_full_unstemmed | A Chromosome-Scale Genome of <i>Trametes versicolor</i> and Transcriptome-Based Screening for Light-Induced Genes That Promote Triterpene Biosynthesis |
| title_short | A Chromosome-Scale Genome of <i>Trametes versicolor</i> and Transcriptome-Based Screening for Light-Induced Genes That Promote Triterpene Biosynthesis |
| title_sort | chromosome scale genome of i trametes versicolor i and transcriptome based screening for light induced genes that promote triterpene biosynthesis |
| topic | <i>Trametes versicolor</i> chromosome-level phylogenetic evolution CAZymes CYP450 triterpene biosynthesis |
| url | https://www.mdpi.com/2309-608X/11/1/81 |
| work_keys_str_mv | AT yangyang achromosomescalegenomeofitrametesversicoloriandtranscriptomebasedscreeningforlightinducedgenesthatpromotetriterpenebiosynthesis AT xuebohu achromosomescalegenomeofitrametesversicoloriandtranscriptomebasedscreeningforlightinducedgenesthatpromotetriterpenebiosynthesis AT yangyang chromosomescalegenomeofitrametesversicoloriandtranscriptomebasedscreeningforlightinducedgenesthatpromotetriterpenebiosynthesis AT xuebohu chromosomescalegenomeofitrametesversicoloriandtranscriptomebasedscreeningforlightinducedgenesthatpromotetriterpenebiosynthesis |