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Next-Generation Sequencing of Ancient and Recent Fungarium Specimens

https://doi.org/10.3390/jof8090932
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What this work says

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

inferredcites →https://doi.org/10.1002/aps3.11508openalex-snapshot
Applying a modified metabarcoding approach for the sequencing of macrofungal specimens from fungarium collections
inferredcites →https://doi.org/10.1007/978-1-4612-4318-2openalex-snapshot
Ancient DNA
inferredcites →https://doi.org/10.1007/s11557-020-01639-8openalex-snapshot
Studies in Gyromitra I: the Gyromitra gigas species complex
inferredcites →https://doi.org/10.1007/s11557-022-01832-xopenalex-snapshot
Studies in Gyromitra II: cryptic speciation in the Gyromitra gigas species complex; rediscovery of G. ussuriensis and G. americanigigas sp. nov.
inferredcites →https://doi.org/10.1016/b978-0-12-372180-8.50042-1openalex-snapshot
AMPLIFICATION AND DIRECT SEQUENCING OF FUNGAL RIBOSOMAL RNA GENES FOR PHYLOGENETICS
inferredcites →https://doi.org/10.1016/j.funeco.2012.09.003openalex-snapshot
Comparison of ITS1 and ITS2 rDNA in 454 sequencing of hyperdiverse fungal communities
inferredcites →https://doi.org/10.1016/s0022-2836(05)80360-2openalex-snapshot
Basic Local Alignment Search Tool
inferredcites →https://doi.org/10.1016/s0022-5193(05)80104-3openalex-snapshot
The general stochastic model of nucleotide substitution
inferredcites →https://doi.org/10.1038/nmeth.2109openalex-snapshot
jModelTest 2: more models, new heuristics and parallel computing
inferredcites →https://doi.org/10.1038/nmeth.3869openalex-snapshot
DADA2: High-resolution sample inference from Illumina amplicon data
inferredcites →https://doi.org/10.1080/00275514.2018.1515456openalex-snapshot
A three-locus phylogeny of Gyromitra (Discinaceae, Pezizales) and discovery of two cryptic species
inferredcites →https://doi.org/10.1080/10635150390235520openalex-snapshot
A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
inferredcites →https://doi.org/10.1080/10635150490522304openalex-snapshot
Model Selection and Model Averaging in Phylogenetics: Advantages of Akaike Information Criterion and Bayesian Approaches Over Likelihood Ratio Tests
inferredcites →https://doi.org/10.1093/bioinformatics/12.6.543openalex-snapshot
SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny
inferredcites →https://doi.org/10.1093/molbev/msp259openalex-snapshot
SeaView Version 4: A Multiplatform Graphical User Interface for Sequence Alignment and Phylogenetic Tree Building
inferredcites →https://doi.org/10.1093/sysbio/42.2.182openalex-snapshot
An Empirical Test of Bootstrapping as a Method for Assessing Confidence in Phylogenetic Analysis
inferredcites →https://doi.org/10.1094/phyto-04-20-0139-peropenalex-snapshot
Sequencing Herbarium Specimens of a Common Detrimental Plant Disease (Powdery Mildew)
inferredcites →https://doi.org/10.1098/rstb.2017.0392openalex-snapshot
Fungarium specimens: a largely untapped source in global change biology and beyond
inferredcites →https://doi.org/10.1101/cshperspect.a012567openalex-snapshot
Ancient DNA Damage
inferredcites →https://doi.org/10.1111/1755-0998.12031openalex-snapshot
Back to basics: an evaluation of N a OH and alternative rapid DNA extraction protocols for DNA barcoding, genotyping, and disease diagnostics from fungal and oomycete samples
inferredcites →https://doi.org/10.1111/1755-0998.12065openalex-snapshot
ITS 1 versus ITS 2 as DNA metabarcodes for fungi
inferredcites →https://doi.org/10.1111/1755-0998.13663openalex-snapshot
DNA barcoding of fungal specimens using PacBio long‐read high‐throughput sequencing
inferredcites →https://doi.org/10.1111/bij.12553openalex-snapshot
Tales from the crypt: genome mining from fungarium specimens improves resolution of the mushroom tree of life
inferredcites →https://doi.org/10.1111/j.1365-294x.1993.tb00005.xopenalex-snapshot
ITS primers with enhanced specificity for basidiomycetes ‐ application to the identification of mycorrhizae and rusts
inferredcites →https://doi.org/10.1111/j.1574-6941.2012.01437.xopenalex-snapshot
New primers to amplify the fungal ITS2 region - evaluation by 454-sequencing of artificial and natural communities
inferredcites →https://doi.org/10.1111/j.1755-0998.2009.02825.xopenalex-snapshot
Rapid and reliable high‐throughput methods of DNA extraction for use in barcoding and molecular systematics of mushrooms
inferredcites →https://doi.org/10.1146/annurev.genet.37.110801.143214openalex-snapshot
Genetic Analyses from Ancient DNA
inferredcites →https://doi.org/10.1186/s43008-020-00033-zopenalex-snapshot
Unambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding?
inferredcites →https://doi.org/10.1371/journal.pone.0062419openalex-snapshot
Filling Gaps in Biodiversity Knowledge for Macrofungi: Contributions and Assessment of an Herbarium Collection DNA Barcode Sequencing Project
inferredcites →https://doi.org/10.25664/art-0196openalex-snapshot
Typification of Gyromitra perlata, type-species of the subgenus Discina (Discinaceae)
inferredcites →https://doi.org/10.25664/art-0241openalex-snapshot
Preliminary phylogenetic and morphological studies in the Gyromitra gigas lineage (Pezizales): Epitypification of Gyromitra gigas and G. ticiniana
inferredcites →https://doi.org/10.32614/r.manualsopenalex-snapshot
R: A Language and Environment for Statistical Computing
inferredcites →https://doi.org/10.32614/rj-2016-025openalex-snapshot
Using DECIPHER v2.0 to Analyze Big Biological Sequence Data in R
inferredcites →https://doi.org/10.3389/fevo.2018.00129openalex-snapshot
Next Generation Sequencing of Ancient Fungal Specimens: The Case of the Saccardo Mycological Herbarium
inferredcites →https://doi.org/10.3390/microorganisms6020046openalex-snapshot
The Genus Wallemia—From Contamination of Food to Health Threat
inferredcites →https://doi.org/10.3390/microorganisms9030666openalex-snapshot
Taxonomic Re-Examination of Nine Rosellinia Types (Ascomycota, Xylariales) Stored in the Saccardo Mycological Collection
inferredcites →https://doi.org/10.3852/12-397openalex-snapshot
A molecular phylogenetic assessment of the genus Gyromitra in North America
inferredcites →https://doi.org/10.4137/ebo.s653openalex-snapshot
Intraspecific ITS Variability in the Kingdom Fungi as Expressed in the International Sequence Databases and Its Implications for Molecular Species Identification

What points at this work

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

inferred← citeshttps://doi.org/10.11646/phytotaxa.644.1.7zenodo-depositor-declared
Gyromitra persicula sp. nov. (Discinaceae, Pezizales), a novel discoid Gyromitra from Northwestern North America
inferred← citeshttps://doi.org/10.3897/imafungus.16.156231zenodo-depositor-declared
Hidden treasures of herbaria - even small collections contain a wealth of diversity: the powdery mildews of the North Carolina State Larry F. Grand Mycological Herbarium
inferred← citeshttps://doi.org/10.5091/plecevo.128682zenodo-depositor-declared
Palliocystidium, a new genus in the family Hydnodontaceae (Trechisporales)
inferred← citeshttps://doi.org/10.1002/aps3.11508openalex-snapshot
Applying a modified metabarcoding approach for the sequencing of macrofungal specimens from fungarium collections
inferred← citeshttps://doi.org/10.1007/s10453-026-09912-1openalex-snapshot
Drones and fungal spores: comparisons of low-cost sampling methods
inferred← citeshttps://doi.org/10.1007/s11557-022-01832-xopenalex-snapshot
Studies in Gyromitra II: cryptic speciation in the Gyromitra gigas species complex; rediscovery of G. ussuriensis and G. americanigigas sp. nov.
inferred← citeshttps://doi.org/10.1007/s11557-024-02026-3openalex-snapshot
Studies in Gyromitra III: the Gyromitra brunnea lineage including G. japonica sp. nov.
inferred← citeshttps://doi.org/10.1016/j.isci.2025.112904openalex-snapshot
From herbarium to life: Implications of reviving historical fungi for modern plant pathology and agriculture
inferred← citeshttps://doi.org/10.1016/j.ympev.2025.108286openalex-snapshot
Phylogenomic Insights into the Taxonomy, Ecology, and Mating Systems of the Lorchel Family Discinaceae (Pezizales, Ascomycota)
inferred← citeshttps://doi.org/10.1080/00275514.2024.2364567openalex-snapshot
Recent fieldwork and fungarium studies double known diversity of Chlorosplenium and improve understanding of species distributions
inferred← citeshttps://doi.org/10.1080/00275514.2025.2516370openalex-snapshot
A revised circumscription of Marthamycetales based on a complete sampling of the types of genera, Propoliaceae, fam. nov., and placement of Cryptomycina pteridis in Leotiomycetes
inferred← citeshttps://doi.org/10.1111/nph.70472openalex-snapshot
Whole genome sequencing of historical specimens from the world's largest fungal collection yields high‐quality assemblies
inferred← citeshttps://doi.org/10.1186/s43008-023-00137-2openalex-snapshot
Singleton-based species names and fungal rarity: Does the number really matter?
inferred← citeshttps://doi.org/10.3390/jof9080788openalex-snapshot
Does One Size Fit All? Variations in the DNA Barcode Gaps of Macrofungal Genera
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