Project description:<p>Ganoderma is a class of medicinal fungi with diverse medicinal effects, of which triterpenoids are one of the main pharmacologically active substances. In this study, sporocarps of two Ganoderma species (G. leucocontextum, a newly discovered species, and G. lucidum, a traditional medicinal species) at five different developmental stages were used as test materials for joint transcriptomic and metabolomic analyses. Metabolomic analysis via Ultra-High Performance Liquid Chromatography Tandem Mass Spectrometry (UPLC-MS/MS) identified a total of 514 differential metabolites (screened by VIP 1 and P < 0.05). Among these, triterpenoids were the primary class of differentially abundant metabolites between the two species: G. leucocontextum consistently contained higher levels of ganoleucoin during development, while G. lucidum maintained higher levels of ganoderic acid. Transcriptomic analysis yielded 227.61 Gb of clean data (Q30 base percentage > 93%), with 228,593 significantly differentially expressed genes (DEGs) identified across the five developmental stages. Most genes in the triterpenoid synthesis pathway (including several Ganoderma-specific CYP450 family genes) were more highly expressed in G. lucidum. RT-qPCR validation of 6 key DEGs confirmed that their expression trends were consistent with transcriptomic data. Additionally, 6 putative transcription factors (belonging to HSF and GNAT families) potentially involved in Ganoderma triterpene metabolism were identified. Our findings provide datasets on dynamic gene expression and differential metabolites during the development of the two Ganoderma species, laying a foundation for subsequent in-depth research.</p>
Project description:Two PacBio Hifi sequencing runs from the kidney of a single male NMR sample used to make the mHetGla4.1.primary genome assembly. Specifically, we assembled a second NMR genome from an unrelated male of a separate captive colony in Toronto, Canada, using PacBio HiFi (155.8 Gb, read N50 = 11.45 Kb) and ONT-LSK (299.6 Gb, read N50 = 10.1 Kb) reads (contig N50 = 75.7 Mb, Compleasm S = 98%). This accession stores the Pacbio Hifi data for this independent assembly.
Project description:One PacBio Hifi sequencing run from the kidney of a single male CDMR (Bathyergus suillus) sample used to make the mBatSui1.1.primary genome assembly as an evolutionary comparator to our telomere-to-telomere naked mole-rat genome assembly. Specifically, we assembled a CDMR from a wild-derived sample in South African cape and sequenced in Toronto, Canada, using PacBio HiFi (89 Gb, read N50 = 18 Kb) and ONT-ULK (55 Gb, read N50 = 43 Kb) reads (contig N50 = 33 Mb, Compleasm S = 99%, QV = 71.0). This accession stores the Pacbio Hifi data for this assembly.
Project description:Pacbio library preparation and sequencing was carried-out by BGI on one of the technical samples of the Microcolony-seq experiment (UTI_30). A SMRTbell library was prepared and sequenced in a Pacbio Revio machine. The assembled genome was used for mapping the Microcolony-seq experiment