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A New High-Quality Draft Genome Assembly of the Chinese Cordyceps Ophiocordyceps sinensis

https://doi.org/10.1093/gbe/evaa112
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Using Repeat Masker to Identify Repetitive Elements in Genomic Sequences
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Using RepeatMasker to Identify Repetitive Elements in Genomic Sequences
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Non‐Coding RNA Analysis Using the Rfam Database
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Metabolic Pathway Gene Clusters in Filamentous Fungi
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Genome survey uncovers the secrets of sex and lifestyle in caterpillar fungus
inferredcites →https://doi.org/10.1016/j.biocon.2016.12.023openalex-snapshot
Range shifts in response to climate change of Ophiocordyceps sinensis, a fungus endemic to the Tibetan Plateau
inferredcites →https://doi.org/10.1016/j.fgb.2010.06.003openalex-snapshot
SMURF: Genomic mapping of fungal secondary metabolite clusters
inferredcites →https://doi.org/10.1016/j.jep.2018.02.028openalex-snapshot
High altitude organic gold: The production network for Ophiocordyceps sinensis from far-western Nepal
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Vegetative development and host immune interaction of Ophiocordyceps sinensis within the hemocoel of the ghost moth larva, Thitarodes xiaojinensis
inferredcites →https://doi.org/10.1016/j.mimet.2016.06.025openalex-snapshot
Comparison of different sequencing and assembly strategies for a repeat-rich fungal genome, Ophiocordyceps sinensis
inferredcites →https://doi.org/10.1016/s2225-4110(16)30164-xopenalex-snapshot
A Systematic Review of the Mysterious Caterpillar Fungus Ophiocordyceps sinensis in DongChongXiaCao (冬蟲夏草 Dōng Chóng Xià Cǎo) and Related Bioactive Ingredients
inferredcites →https://doi.org/10.1038/nmeth.2474openalex-snapshot
Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data
inferredcites →https://doi.org/10.1038/nmeth.4197openalex-snapshot
Salmon provides fast and bias-aware quantification of transcript expression
inferredcites →https://doi.org/10.1038/s41587-019-0201-4openalex-snapshot
Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype
inferredcites →https://doi.org/10.1038/s41598-017-01869-zopenalex-snapshot
The caterpillar fungus, Ophiocordyceps sinensis, genome provides insights into highland adaptation of fungal pathogenicity
inferredcites →https://doi.org/10.1039/c4np00054dopenalex-snapshot
Discovering the secondary metabolite potential encoded within entomopathogenic fungi
inferredcites →https://doi.org/10.1073/pnas.1811591115openalex-snapshot
The demise of caterpillar fungus in the Himalayan region due to climate change and overharvesting
inferredcites →https://doi.org/10.1080/21501203.2011.654354openalex-snapshot
Ophiocordyceps sinensis , the flagship fungus of China: terminology, life strategy and ecology
inferredcites →https://doi.org/10.1080/21501203.2018.1442132openalex-snapshot
Obstacles and approaches in artificial cultivation of Chinese cordyceps
inferredcites →https://doi.org/10.1093/bioinformatics/btt509openalex-snapshot
Infernal 1.1: 100-fold faster RNA homology searches
inferredcites →https://doi.org/10.1093/bioinformatics/btu031openalex-snapshot
InterProScan 5: genome-scale protein function classification
inferredcites →https://doi.org/10.1093/gbe/evu241openalex-snapshot
Comparative Genomics and Transcriptomics Analyses Reveal Divergent Lifestyle Features of Nematode Endoparasitic Fungus Hirsutella minnesotensis
inferredcites →https://doi.org/10.1093/molbev/msx319openalex-snapshot
BUSCO Applications from Quality Assessments to Gene Prediction and Phylogenomics
inferredcites →https://doi.org/10.1093/nar/27.2.573openalex-snapshot
Tandem repeats finder: a program to analyze DNA sequences
inferredcites →https://doi.org/10.1093/nar/gkh379openalex-snapshot
AUGUSTUS: a web server for gene finding in eukaryotes
inferredcites →https://doi.org/10.1093/nar/gkx319openalex-snapshot
antiSMASH 4.0—improvements in chemistry prediction and gene cluster boundary identification
inferredcites →https://doi.org/10.1093/nar/gky1085openalex-snapshot
eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses
inferredcites →https://doi.org/10.1101/gr.113985.110openalex-snapshot
Adaptive seeds tame genomic sequence comparison
inferredcites →https://doi.org/10.1101/gr.1865504openalex-snapshot
GeneWise and Genomewise
inferredcites →https://doi.org/10.1101/gr.215087.116openalex-snapshot
Canu: scalable and accurate long-read assembly via adaptive k -mer weighting and repeat separation
inferredcites →https://doi.org/10.1111/j.1365-2672.2005.02640.xopenalex-snapshot
Nutritional requirements of mycelial growth of Cordyceps sinensis in submerged culture
inferredcites →https://doi.org/10.1126/science.1153917openalex-snapshot
Synteny and Collinearity in Plant Genomes
inferredcites →https://doi.org/10.1155/2015/120981openalex-snapshot
Fucoidans Disrupt Adherence ofHelicobacter pylorito AGS CellsIn Vitro
inferredcites →https://doi.org/10.1155/2015/575063openalex-snapshot
The Chemical Constituents and Pharmacological Actions ofCordyceps sinensis
inferredcites →https://doi.org/10.1186/1471-2105-10-421openalex-snapshot
BLAST+: architecture and applications
inferredcites →https://doi.org/10.1186/1471-2105-13-134openalex-snapshot
Primer-BLAST: A tool to design target-specific primers for polymerase chain reaction
inferredcites →https://doi.org/10.1186/s13059-014-0550-8openalex-snapshot
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
inferredcites →https://doi.org/10.1186/s13100-015-0041-9openalex-snapshot
Repbase Update, a database of repetitive elements in eukaryotic genomes
inferredcites →https://doi.org/10.1371/journal.pone.0112963openalex-snapshot
Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement
inferredcites →https://doi.org/10.1615/intjmedmushr.v10.i3.30openalex-snapshot
Medicinal Value of the Caterpillar Fungi Species of the Genus Cordyceps (Fr.) Link (Ascomycetes). A Review
inferredcites →https://doi.org/10.2144/btn-2018-0057openalex-snapshot
A Bioinformatics Approach to Identify Telomere Sequences
inferredcites →https://doi.org/10.3389/fmicb.2017.01422openalex-snapshot
SMRT Sequencing Revealed Mitogenome Characteristics and Mitogenome-Wide DNA Modification Pattern in Ophiocordyceps sinensis
inferredcites →https://doi.org/10.3390/ijms160817482openalex-snapshot
Development of Ophiocordyceps sinensis through Plant-Mediated Interkingdom Host Colonization

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.3897/mycokeys.117.144875zenodo-depositor-declared
Three new species of Ophiocordyceps (Hypocreales, Ophiocordycipitaceae) and a new host record for Hirsutella vermicola from China
inferred← citeshttps://doi.org/10.1007/978-3-031-41648-4_13openalex-snapshot
Genetics and Infection Biology of the Entomopathogenic Fungi
inferred← citeshttps://doi.org/10.1016/j.fbio.2024.105249openalex-snapshot
Integrated metabolomics and transcriptomics reveal metabolic alterations of Ophiocordyceps sinensis from different geographical regions
inferred← citeshttps://doi.org/10.1016/j.foodres.2022.112275openalex-snapshot
Integrated metabolomics and transcriptomics reveal metabolites difference between wild and cultivated Ophiocordyceps sinensis
inferred← citeshttps://doi.org/10.1016/j.isci.2022.105545openalex-snapshot
The genome of a hadal sea cucumber reveals novel adaptive strategies to deep-sea environments
inferred← citeshttps://doi.org/10.1021/acs.jafc.3c03073openalex-snapshot
Characterization of the Biosynthetic Gene Cluster for the Ribosomally Synthesized Cyclic Peptide Epichloëcyclins in Epichloë festucae
inferred← citeshttps://doi.org/10.1038/s41598-023-36261-7openalex-snapshot
Transcriptome and metabonomics combined analysis revealed the energy supply mechanism involved in fruiting body initiation in Chinese cordyceps
inferred← citeshttps://doi.org/10.1093/gbe/evac033openalex-snapshot
Genomic Sequence and Transcriptome Analysis of the Medicinal Fungus Keithomyces neogunnii
inferred← citeshttps://doi.org/10.1101/2022.12.02.518814openalex-snapshot
Isolation of strains and their genome sequencing to analyze the mating system of Ophiocordyceps robertsii
inferred← citeshttps://doi.org/10.1101/2022.12.09.519819openalex-snapshot
Genetic and phylogenetic features of the repetitive ITS copies in the Hirsutella sinensis genome and the genomically independent AT-biased Ophiocordyceps sinensis genotypes
inferred← citeshttps://doi.org/10.1101/2025.06.26.661214openalex-snapshot
Altered stereostructures of the DNA-binding domains in the mutant mating proteins of Ophiocordyceps sinensis and the Cordyceps sinensis insect‒fungal complex
inferred← citeshttps://doi.org/10.1109/icitbe54178.2021.00076openalex-snapshot
Differential expression of mating-type genes in Hirsutella sinensis and natural Cordyceps sinensis
inferred← citeshttps://doi.org/10.1111/cla.70064openalex-snapshot
Sequential evolution drives range expansion of Chinese caterpillar fungus across the Qinghai‐Tibet Plateau
inferred← citeshttps://doi.org/10.1177/1096620x251380195openalex-snapshot
Wild Cordyceps Polysaccharides Alleviate Atherosclerosis by Attenuating Macrophage Cholesterol Accumulation Through the PPARγ-LXRα-ABCA1/ABCG1 Pathway
inferred← citeshttps://doi.org/10.1186/s12864-025-12177-6openalex-snapshot
Whole genome sequencing and resequencing provide insight into the genetic structure of wild Ophiocordyceps sinensis
inferred← citeshttps://doi.org/10.1186/s12864-026-12599-wopenalex-snapshot
Telomere-to-telomere genome assembly of Metarhizium acridum provides insights into Metarhizium genome evolution
inferred← citeshttps://doi.org/10.1371/journal.pone.0270776openalex-snapshot
Differential coexistence of multiple genotypes of Ophiocordyceps sinensis in the stromata, ascocarps and ascospores of natural Cordyceps sinensis
inferred← citeshttps://doi.org/10.1371/journal.pone.0284978openalex-snapshot
Isolation of strains and their genome sequencing to analyze the mating system of Ophiocordyceps robertsii
inferred← citeshttps://doi.org/10.1371/journal.pone.0286865openalex-snapshot
Altered GC- and AT-biased genotypes of Ophiocordyceps sinensis in the stromal fertile portions and ascospores of natural Cordyceps sinensis
inferred← citeshttps://doi.org/10.1371/journal.pone.0287882openalex-snapshot
Selection and validation of reference genes for RT-qPCR in ophiocordyceps sinensis under different experimental conditions
inferred← citeshttps://doi.org/10.14218/erhm.2023.00040openalex-snapshot
Ophiocordyceps sinensis: A Potential Caterpillar Fungus for the Production of Bioactive Compounds
inferred← citeshttps://doi.org/10.1615/intjmedmushrooms.2025059733openalex-snapshot
Molecular Identification Technologies in Authentication of Chinese Caterpillar Mushroom Ophiocordyceps sinensis (Ascomycota) and Related Species: A Review
inferred← citeshttps://doi.org/10.20944/preprints202403.1854.v1openalex-snapshot
Mutations and Differential Transcription of Mating-Type and Pheromone Receptor Genes in Hirsutella sinensis and Natural Cordyceps sinensis
inferred← citeshttps://doi.org/10.3389/fmicb.2022.1055055openalex-snapshot
Medium optimization for high mycelial soluble protein content of Ophiocordyceps sinensis using response surface methodology
inferred← citeshttps://doi.org/10.3389/fmicb.2022.974323openalex-snapshot
The invasion process of the entomopathogenic fungus Ophiocordyceps sinensis into the larvae of ghost moths (Thitarodes xiaojinensis) using a GFP-labeled strain
inferred← citeshttps://doi.org/10.3390/biology13080632openalex-snapshot
Mutations and Differential Transcription of Mating-Type and Pheromone Receptor Genes in Hirsutella sinensis and the Natural Cordyceps sinensis Insect-Fungi Complex
inferred← citeshttps://doi.org/10.3390/biology15020186openalex-snapshot
Altered Stereostructures of the DNA-Binding Domains of Variant Mating Proteins of Ophiocordyceps sinensis and the Wild Insect–Fungal Complex
inferred← citeshttps://doi.org/10.3390/cimb46090629openalex-snapshot
Establishment of an Agrobacterium tumefaciens-Mediated Transformation System for Hirsutella sinensis
inferred← citeshttps://doi.org/10.3390/ijms252011178openalex-snapshot
Translation of Mutant Repetitive Genomic Sequences in Hirsutella sinensis and Changes in the Secondary Structures and Functional Specifications of the Encoded Proteins
inferred← citeshttps://doi.org/10.3390/ijms27125241openalex-snapshot
Integrative Multi-Omics Reveals Microbiome and Genome Streamlining Underlie Ecological Divergence in Chinese and Xinjiang Cordyceps: A Preliminary Study
inferred← citeshttps://doi.org/10.3390/ijms27167191openalex-snapshot
Structural Diversity and Differential Natural Pairings of MAT1-1-1 and MAT1-2-1 Proteins Essential for Sexual Reproduction in Ophiocordyceps sinensis Strains
inferred← citeshttps://doi.org/10.3390/jof11040244openalex-snapshot
Three-Dimensional Structural Heteromorphs of Mating-Type Proteins in Hirsutella sinensis and the Natural Cordyceps sinensis Insect–Fungal Complex
inferred← citeshttps://doi.org/10.3390/jof11060422openalex-snapshot
A Review of Genomic, Transcriptomic, and Proteomic Applications in Edible Fungi Biology: Current Status and Future Directions
inferred← citeshttps://doi.org/10.3390/jof11090621openalex-snapshot
Haplotype-Phased Chromosome-Level Genome Assembly of Floccularia luteovirens Provides Insights into Its Taxonomy, Adaptive Evolution, and Biosynthetic Potential
inferred← citeshttps://doi.org/10.3390/jof11120854openalex-snapshot
Research Progress on the Regulation and Developmental Utilization of Bioactive Metabolites Synthesis in Floccularia luteovirens
inferred← citeshttps://doi.org/10.3390/life10120356openalex-snapshot
An Overview of Genomics, Phylogenomics and Proteomics Approaches in Ascomycota
inferred← citeshttps://doi.org/10.3390/toxins13110820openalex-snapshot
Lipid-Binding Aegerolysin from Biocontrol Fungus Beauveria bassiana
inferred← citeshttps://doi.org/10.57056/ajb.v4i1.104openalex-snapshot
The Hunt for Himalayan Traditional Medicine Parasitic Treasure: ‘Caterpillar Fungi’
inferred← citeshttps://doi.org/10.64898/2026.02.16.706022openalex-snapshot
Heteromorphic tertiary structures of MAT1-1-1 and MAT1-2-1 protein variants simultaneously produced in pairs by Ophiocordyceps sinensis strains
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