{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,6]],"date-time":"2026-01-06T05:25:52Z","timestamp":1767677152467,"version":"3.48.0"},"reference-count":73,"publisher":"MDPI AG","issue":"1","license":[{"start":{"date-parts":[[2026,1,3]],"date-time":"2026-01-03T00:00:00Z","timestamp":1767398400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["IJMS"],"abstract":"<jats:p>The recently described genus Candolleomyces (Basidiomycota, Agaricales, Psathyrellaceae) is now recognized as a distinct taxonomic group separate from Psathyrella. Currently, no fully assembled and accurately annotated genomes of Candolleomyces species are available, limiting our understanding of their physiological traits and biotechnological potential. Numerous tools exist for fungal genome assembly and annotation, each using different algorithms, resulting in substantial variation in gene content and distribution within the same genome. In this work, a hybrid assembly and annotation of the genome of strain CMU-8613 were performed using pipelines that combine different assembly and annotation tools. Phylogenetic analysis showed that the analyzed strain CMU-8613 belongs to Candolleomyces candolleanus. The assembled genome size ranged from 46.8 Mb (NECAT + Racon) to 59.3 Mb (Canu + Coprinellus micaceus genome assembly), depending on the assembly and polishing strategy. The analysis identified 15\u201325 secondary metabolite gene clusters (BGCs), depending on the genome assembly and the tools used for BGC prediction. In strain CMU-8613, CAZyme-encoding genes varied across assemblies: 494 genes were detected in the Flye assembly and 453 in NECAT; in both cases, the AA (Auxiliary Activities) and GH (Glycoside Hydrolases) families were the most represented. The diversity of CAZymes observed among Candolleomyces species suggests differences in their saprophytic capacities. Analysis of the MAT-A\/MAT-B loci revealed that C. candolleanus possesses a tetrapolar mating system. This study provides the first annotated genome of C. candolleanus, highlighting its enzymatic potential to degrade plant biomass and its capacity to synthesize diverse secondary metabolites. The combination of assembly and annotation tools employed here offers robust alternative strategies for characterizing non-model fungi or species lacking high-quality reference genomes.<\/jats:p>","DOI":"10.3390\/ijms27010509","type":"journal-article","created":{"date-parts":[[2026,1,5]],"date-time":"2026-01-05T13:35:47Z","timestamp":1767620147000},"page":"509","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Hybrid Genome Assembly and Annotation of the Basidiomycete Fungus Candolleomyces candolleanus Strain CMU-8613 Using a Cost-Effective Iterative Pipeline"],"prefix":"10.3390","volume":"27","author":[{"ORCID":"https:\/\/orcid.org\/0009-0009-7424-7229","authenticated-orcid":false,"given":"Edgar Manuel","family":"Villa-Villa","sequence":"first","affiliation":[{"name":"Centro Multidisciplinario de Estudios en Biotecnolog\u00eda, Facultad de Medicina Veterinaria y Zootecnia, Universidad Michoacana de San Nicol\u00e1s de Hidalgo, Km 9.5 Carretera Morelia-Zinap\u00e9cuaro, Col. La Palma, Tar\u00edmbaro CP 58893, Mexico"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0655-1503","authenticated-orcid":false,"given":"Ma. Soledad","family":"V\u00e1zquez-Garcidue\u00f1as","sequence":"additional","affiliation":[{"name":"Divisi\u00f3n de Estudios de Posgrado, Facultad de Ciencias M\u00e9dicas y Biol\u00f3gicas \u201cDr. Ignacio Ch\u00e1vez\u201d, Universidad Michoacana de San Nicol\u00e1s de Hidalgo, Ave. Rafael Carrillo esq. Dr. Salvador Gonz\u00e1lez Herrej\u00f3n, Col. Cuauht\u00e9moc, Morelia CP 58020, Mexico"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4683-699X","authenticated-orcid":false,"given":"Gerardo","family":"V\u00e1zquez-Marrufo","sequence":"additional","affiliation":[{"name":"Centro Multidisciplinario de Estudios en Biotecnolog\u00eda, Facultad de Medicina Veterinaria y Zootecnia, Universidad Michoacana de San Nicol\u00e1s de Hidalgo, Km 9.5 Carretera Morelia-Zinap\u00e9cuaro, Col. La Palma, Tar\u00edmbaro CP 58893, Mexico"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1968","published-online":{"date-parts":[[2026,1,3]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"1151","DOI":"10.1007\/s11557-020-01606-3","article-title":"Proposal for a subdivision of the family Psathyrellaceae based on a taxon-rich phylogenetic analysis with iterative multigene guide tree","volume":"19","author":"Melzer","year":"2020","journal-title":"Mycol. Prog."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"165","DOI":"10.3897\/mycokeys.112.141766","article-title":"Phylogenetic studies on the genus Candolleomyces (Psathyrellaceae, Basidiomycota) occurring in the bed of the Indus River, Punjab, Pakistan, reveal three new species","volume":"112","author":"Li","year":"2025","journal-title":"MycoKeys"},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"415","DOI":"10.1016\/j.ympev.2007.11.004","article-title":"The mushroom family Psathyrellaceae: Evidence for large-scale polyphyly of the genus Psathyrella","volume":"46","author":"Padamsee","year":"2008","journal-title":"Mol. Phylogenet. Evol."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"941","DOI":"10.1093\/femsre\/fux049","article-title":"Lignin degradation: Microorganisms, enzymes involved, genomes analysis and evolution","volume":"41","author":"Janusz","year":"2017","journal-title":"FEMS Microbiol. Rev."},{"key":"ref_5","doi-asserted-by":"crossref","unstructured":"Cicero, I., Mirabile, G., and Venturella, G. (2025). Potential medicinal fungi from freshwater environments as resources of bioactive compounds. J. Fungi, 11.","DOI":"10.3390\/jof11010054"},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"437","DOI":"10.1111\/lam.12576","article-title":"Investigation of Hungarian mushrooms for antibacterial activity and synergistic effects with standard antibiotics against resistant bacterial strains","volume":"62","author":"Hohmann","year":"2016","journal-title":"Lett. Appl. Microbiol."},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"3130","DOI":"10.1080\/14786419.2019.1607335","article-title":"Chemical and activity investigation on metabolites produced by an endophytic fungi Psathyrella candolleana from the seed of Ginkgo biloba","volume":"34","author":"Pan","year":"2020","journal-title":"Nat. Prod. Res."},{"key":"ref_8","first-page":"1934578X19850958","article-title":"Psathyrellanic acid, a monocyclic diterpenoid from the Basidiomycete Psathyrella candolleana","volume":"14","author":"Liu","year":"2019","journal-title":"Nat. Prod. Commun."},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"1725","DOI":"10.1021\/acs.jnatprod.0c00269","article-title":"Psathyrins: Antibacterial diterpenoids from Psathyrella candolleana","volume":"83","author":"Liu","year":"2020","journal-title":"J. Nat. Prod."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"447","DOI":"10.1007\/s13659-021-00316-x","article-title":"Psathyrellins A\u2013E, antibacterial guanacastane diterpenoids from mushroom Psathyrella candolleana","volume":"11","author":"Wu","year":"2021","journal-title":"Nat. Prod. Bioprospect."},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"5345","DOI":"10.1021\/acs.orglett.3c01924","article-title":"Biochemical and genetic basis of guanacastane diterpene biosynthesis in basidiomycete fungi","volume":"25","author":"He","year":"2023","journal-title":"Org. Lett."},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"W575","DOI":"10.1093\/nar\/gkt289","article-title":"OrganellarGenomeDRAW: A suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets","volume":"41","author":"Lohse","year":"2013","journal-title":"Nucleic Acids Res."},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"115","DOI":"10.2144\/btn-2023-0023","article-title":"A practical approach to genome assembly and annotation of Basidiomycota using the example of Armillaria","volume":"75","author":"Wingfield","year":"2023","journal-title":"BioTechniques"},{"key":"ref_14","doi-asserted-by":"crossref","unstructured":"Schafhauser, T., Wibberg, D., Binder, A., R\u00fcckert, C., Busche, T., Wohlleben, W., and Kalinowski, J. (2022). Genome assembly and genetic traits of the pleuromutilin-producer Clitopilus passeckerianus DSM1602. J. Fungi, 8.","DOI":"10.3390\/jof8080862"},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"e01423-24","DOI":"10.1128\/mbio.01423-24","article-title":"Comparative genomics and stable isotope analysis reveal the saprotrophic-pathogenic lifestyle of a neotropical fungus","volume":"15","author":"Cardoso","year":"2024","journal-title":"mBio"},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"10520","DOI":"10.1038\/s41598-024-60713-3","article-title":"Whole-genome sequencing of Ganoderma boninense, the causal agent of basal stem rot disease in oil palm, via combined short- and long-read sequencing","volume":"14","author":"Utomo","year":"2024","journal-title":"Sci. Rep."},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"103485","DOI":"10.1016\/j.fgb.2020.103485","article-title":"Chromosome-level de novo assembly of Coprinopsis cinerea A43mut B43mut pab1-1# 326 and genetic variant identification of mutants using Nanopore MinION sequencing","volume":"146","author":"Xie","year":"2021","journal-title":"Fungal Genet. Biol."},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"104005","DOI":"10.1016\/j.fgb.2025.104005","article-title":"Nearly telomere-to-telomere genome assembly of the L. edodes diploid genome","volume":"179","author":"Yoshitake","year":"2025","journal-title":"Fungal Genet. Biol."},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"1337","DOI":"10.1007\/s00253-017-8097-8","article-title":"Biology, dynamics, and applications of transposable elements in basidiomycete fungi","volume":"101","author":"Castanera","year":"2017","journal-title":"Appl. Microbiol. Biotechnol."},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"60","DOI":"10.1038\/s41467-020-20236-7","article-title":"Efficient assembly of nanopore reads via highly accurate and intact error correction","volume":"12","author":"Chen","year":"2021","journal-title":"Nat. Commun."},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"540","DOI":"10.1038\/s41587-019-0072-8","article-title":"Assembly of long, error-prone reads using repeat graphs","volume":"37","author":"Kolmogorov","year":"2019","journal-title":"Nat. Biotechnol."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"677","DOI":"10.12688\/wellcomeopenres.23349.1","article-title":"The genome sequence of the glistening inkcap, Coprinellus micaceus Coprinellus; Coprinellus micaceus ((Bull.) Vilgalys, Hopple & Jacq. Johnson, 2001)","volume":"9","author":"Wright","year":"2024","journal-title":"Wellcome Open Res."},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"FUNK-0055-2016","DOI":"10.1128\/microbiolspec.FUNK-0055-2016","article-title":"Fungal genomes and insights into the evolution of the kingdom","volume":"5","author":"Stajich","year":"2017","journal-title":"Microbiol. Spectr."},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"1428","DOI":"10.1093\/molbev\/msaa301","article-title":"Genomic analysis enlightens Agaricales lifestyle evolution and increasing peroxidase diversity","volume":"38","author":"Barrasa","year":"2021","journal-title":"Mol. Biol. Evol."},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"1564","DOI":"10.1093\/gbe\/evu121","article-title":"Transposable element dynamics among asymbiotic and ectomycorrhizal Amanita fungi","volume":"6","author":"Hess","year":"2014","journal-title":"Genome Biol. Evol."},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"341","DOI":"10.1016\/j.gpb.2018.10.009","article-title":"Genome assembly and pathway analysis of edible mushroom Agrocybe cylindracea","volume":"18","author":"Liang","year":"2020","journal-title":"Genom. Proteom. Bioinform."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"1979","DOI":"10.1080\/23802359.2021.1938717","article-title":"Characterization of the complete mitochondrial genome of Coprinellus micaceus, a wild saprobic mushroom in China","volume":"6","author":"Wang","year":"2021","journal-title":"Mitochondrial DNA Part B"},{"key":"ref_28","doi-asserted-by":"crossref","unstructured":"Li, Z.C., Xie, T.C., Feng, X.L., Wang, Z.X., Lin, C., Li, G.M., and Qi, J. (2023). The first five mitochondrial genomes for the family Nidulariaceae reveal novel gene rearrangements, intron dynamics, and phylogeny of Agaricales. Int. J. Mol. Sci., 24.","DOI":"10.3390\/ijms241612599"},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"26","DOI":"10.1186\/s43008-020-00047-7","article-title":"The 256 kb mitochondrial genome of Clavaria fumosa is the largest among phylum Basidiomycota and is rich in introns and intronic ORFs","volume":"11","author":"Wang","year":"2020","journal-title":"IMA Fungus"},{"key":"ref_30","doi-asserted-by":"crossref","first-page":"11889","DOI":"10.1073\/pnas.1003391107","article-title":"Insights into evolution of multicellular fungi from the assembled chromosomes of the mushroom Coprinopsis cinerea (Coprinus cinereus)","volume":"107","author":"Stajich","year":"2010","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_31","doi-asserted-by":"crossref","unstructured":"Schueller, A., Studt-Reinhold, L., and Strauss, J. (2022). How to completely squeeze a fungus\u2014advanced genome mining tools for novel bioactive substances. Pharmaceutics, 14.","DOI":"10.3390\/pharmaceutics14091837"},{"key":"ref_32","doi-asserted-by":"crossref","first-page":"89","DOI":"10.1039\/D2NP00050D","article-title":"Deciphering chemical logic of fungal natural product biosynthesis through heterologous expression and genome mining","volume":"40","author":"Chiang","year":"2023","journal-title":"Nat. Prod. Rep."},{"key":"ref_33","doi-asserted-by":"crossref","unstructured":"Duan, Y., Han, H., Qi, J., Gao, J.M., Xu, Z., Wang, P., and Liu, C. (2022). Genome sequencing of Inonotus obliquus reveals insights into candidate genes involved in secondary metabolite biosynthesis. BMC Genom., 23.","DOI":"10.1186\/s12864-022-08511-x"},{"key":"ref_34","doi-asserted-by":"crossref","unstructured":"Xie, X., Zhao, L., Song, Y., Qiao, Y., Wang, Z.X., and Qi, J. (2024). Genome-wide characterization and metabolite profiling of Cyathus olla: Insights into the biosynthesis of medicinal compounds. BMC Genom., 25.","DOI":"10.1186\/s12864-024-10528-3"},{"key":"ref_35","doi-asserted-by":"crossref","first-page":"2304","DOI":"10.1016\/j.ijbiomac.2021.11.063","article-title":"Fungal lignocellulolytic enzymes and lignocellulose: A critical review on their contribution to multiproduct biorefinery and global biofuel research","volume":"193","author":"Saini","year":"2021","journal-title":"Int. J. Biol. Macromol."},{"key":"ref_36","doi-asserted-by":"crossref","unstructured":"Chen, M., Li, Q., Liu, C., Meng, E., and Zhang, B. (2025). Microbial degradation of lignocellulose for sustainable biomass utilization and future research perspectives. Sustainability, 17.","DOI":"10.3390\/su17094223"},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"FUNK-0046-2016","DOI":"10.1128\/microbiolspec.FUNK-0046-2016","article-title":"Fungal sex: The basidiomycota","volume":"5","author":"Coelho","year":"2017","journal-title":"Microbiol. Spectr."},{"key":"ref_38","doi-asserted-by":"crossref","unstructured":"Chu, C., Li, D., Gu, L., Yang, S., and Liu, C. (2025). Evidence for the existence of mating subtypes within the Schizophyllum commune: Mating behavior and genetic divergence. J. Fungi, 11.","DOI":"10.3390\/jof11040277"},{"key":"ref_39","doi-asserted-by":"crossref","first-page":"1119","DOI":"10.5586\/am.1119","article-title":"Isolation and molecular identification of laccase-producing saprophytic\/phytopathogenic mushroom-forming fungi from various ecosystems in Michoacan State, Mexico","volume":"54","author":"Mukhtar","year":"2019","journal-title":"Acta Mycol."},{"key":"ref_40","doi-asserted-by":"crossref","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: A flexible trimmer for Illumina sequence data","volume":"30","author":"Bolger","year":"2014","journal-title":"Bioinformatics"},{"key":"ref_41","doi-asserted-by":"crossref","first-page":"722","DOI":"10.1101\/gr.215087.116","article-title":"Canu: Scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation","volume":"27","author":"Koren","year":"2017","journal-title":"Genome Res."},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"3094","DOI":"10.1093\/bioinformatics\/bty191","article-title":"Minimap2: Pairwise alignment for nucleotide sequences","volume":"34","author":"Li","year":"2018","journal-title":"Bioinformatics"},{"key":"ref_43","doi-asserted-by":"crossref","first-page":"737","DOI":"10.1101\/gr.214270.116","article-title":"Fast and accurate de novo genome assembly from long uncorrected reads","volume":"27","author":"Vaser","year":"2017","journal-title":"Genome Res."},{"key":"ref_44","unstructured":"(2025, August 11). Medaka. Available online: https:\/\/github.com\/nanoporetech\/medaka."},{"key":"ref_45","doi-asserted-by":"crossref","unstructured":"Walker, B.J., Abeel, T., Shea, T., Priest, M., Abouelliel, A., Sakthikumar, S., and Earl, A.M. (2014). Pilon: An integrated tool for comprehensive microbial variant detection and genome assembly improvement. PLoS ONE, 9.","DOI":"10.1371\/journal.pone.0112963"},{"key":"ref_46","doi-asserted-by":"crossref","first-page":"2896","DOI":"10.1093\/bioinformatics\/btaa025","article-title":"Identifying and removing haplotypic duplication in primary genome assemblies","volume":"36","author":"Guan","year":"2020","journal-title":"Bioinformatics"},{"key":"ref_47","doi-asserted-by":"crossref","first-page":"258","DOI":"10.1186\/s13059-022-02823-7","article-title":"Automated assembly scaffolding using RagTag elevates a new tomato system for high-throughput genome editing","volume":"23","author":"Alonge","year":"2022","journal-title":"Genome Biol."},{"key":"ref_48","doi-asserted-by":"crossref","unstructured":"Darling, A.E., Mau, B., and Perna, N.T. (2010). progressiveMauve: Multiple genome alignment with gene gain, loss and rearrangement. PLoS ONE, 5.","DOI":"10.1371\/journal.pone.0011147"},{"key":"ref_49","unstructured":"(2025, August 30). Funannotate. Available online: https:\/\/github.com\/nextgenusfs\/funannotate."},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"W32","DOI":"10.1093\/nar\/gkaf334","article-title":"antiSMASH 8.0: Extended gene cluster detection capabilities and analyses of chemistry, enzymology, and regulation","volume":"53","author":"Blin","year":"2025","journal-title":"Nucleic Acids Res."},{"key":"ref_51","first-page":"99","article-title":"Global genome mining in fungi using FunBGCeX","volume":"717","author":"Matsuda","year":"2025","journal-title":"Methods Enzymol."},{"key":"ref_52","doi-asserted-by":"crossref","unstructured":"Uliano-Silva, M., Ferreira, J.G.R., Krasheninnikova, K., Formenti, G., Abueg, L., Torrance, J., and McCarthy, S.A. (2023). MitoHiFi: A python pipeline for mitochondrial genome assembly from PacBio high fidelity reads. BMC Bioinform., 24.","DOI":"10.1186\/s12859-023-05385-y"},{"key":"ref_53","doi-asserted-by":"crossref","first-page":"892","DOI":"10.1111\/1755-0998.13160","article-title":"MitoFinder: Efficient automated large-scale extraction of mitogenomic data in target enrichment phylogenomics","volume":"20","author":"Allio","year":"2020","journal-title":"Mol. Ecol. Resour."},{"key":"ref_54","doi-asserted-by":"crossref","first-page":"W115","DOI":"10.1093\/nar\/gkad328","article-title":"dbCAN3: Automated carbohydrate-active enzyme and substrate annotation","volume":"51","author":"Zheng","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"ref_55","first-page":"176","article-title":"Candolleomyces asiaticus sp. nov. (Psathyrellaceae, Agaricales), a novel species from Punjab, Pakistan","volume":"826","author":"Asif","year":"2022","journal-title":"Eur. J. Taxon."},{"key":"ref_56","doi-asserted-by":"crossref","first-page":"472","DOI":"10.1139\/cjb-2023-0066","article-title":"New species and new record of Candolleomyces (Psathyrellaceae) from India","volume":"101","author":"Nayana","year":"2023","journal-title":"Botany"},{"key":"ref_57","doi-asserted-by":"crossref","unstructured":"Yang, K.L., Lin, J.Y., Li, G.M., and Yang, Z.L. (2023). Mushrooms adapted to seawater: Two new species of Candolleomyces (Basidiomycota, Agaricales) from China. J. Fungi, 9.","DOI":"10.3390\/jof9121204"},{"key":"ref_58","doi-asserted-by":"crossref","first-page":"40","DOI":"10.1007\/s00606-023-01876-w","article-title":"Introducing two new members of the genus Candolleomyces (Agaricales) from Punjab, Pakistan","volume":"309","author":"Izhar","year":"2023","journal-title":"Plant Syst. Evol."},{"key":"ref_59","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1007\/s11557-015-1047-x","article-title":"Molecular phylogenetics and taxonomy in Psathyrellaceae (Agaricales) with focus on psathyrelloid species: Introduction of three new genera and 18 new species","volume":"14","author":"Ryberg","year":"2015","journal-title":"Mycol. Prog."},{"key":"ref_60","first-page":"79","article-title":"Candolleomyces eurysporus, a new Psathyrellaceae (Agaricales) species from the tropical C\u00fac Ph\u01b0\u01a1ng National Park, Vietnam","volume":"28","author":"Karich","year":"2020","journal-title":"Austrian J. Mycol."},{"key":"ref_61","doi-asserted-by":"crossref","first-page":"34","DOI":"10.1007\/s11557-015-1057-8","article-title":"Another lineage of secotioid fungi is discovered: Psathyrella secotioides sp. nov. from Mexico","volume":"14","author":"Moreno","year":"2015","journal-title":"Mycol. Prog."},{"key":"ref_62","doi-asserted-by":"crossref","unstructured":"Haqnawaz, M., Niazi, A.R., and Khalid, A.N. (2023). A study on the genus Candolleomyces (Agaricales: Psathyrellaceae) from Punjab, Pakistan. BMC Microbiol., 23.","DOI":"10.1186\/s12866-023-02938-2"},{"key":"ref_63","doi-asserted-by":"crossref","unstructured":"Han, X.X., Phurbu, D., Ma, G.F., Li, Y.Z., Mei, Y.J., Liu, D.M., and Cao, B. (2024). A taxonomic study of Candolleomyces specimens from China revealed seven new species. J. Fungi, 10.","DOI":"10.3390\/jof10070499"},{"key":"ref_64","doi-asserted-by":"crossref","first-page":"149","DOI":"10.3897\/mycokeys.80.67166","article-title":"Two new rare species of Candolleomyces with pale spores from China","volume":"80","author":"Bau","year":"2021","journal-title":"MycoKeys"},{"key":"ref_65","doi-asserted-by":"crossref","first-page":"85","DOI":"10.3897\/mycokeys.33.24704","article-title":"The Northeast Chinese species of Psathyrella (Agaricales, Psathyrellaceae)","volume":"33","author":"Yan","year":"2018","journal-title":"MycoKeys"},{"key":"ref_66","first-page":"171","article-title":"Morphological characterisation and phylogenetic placement of the very rare species Psathyrella sulcatotuberculosa","volume":"66","author":"Battistin","year":"2014","journal-title":"Sydowia"},{"key":"ref_67","doi-asserted-by":"crossref","first-page":"1165","DOI":"10.1016\/j.mycres.2008.04.003","article-title":"Fourteen coprophilous species of Psathyrella identified in the Nordic countries using morphology and nuclear rDNA sequence data","volume":"112","author":"Larsson","year":"2008","journal-title":"Mycol. Res."},{"key":"ref_68","doi-asserted-by":"crossref","unstructured":"Nie, C., Wang, S.N., Tkal\u010dec, Z., Yan, J.Q., Hu, Y., Ge, Y., and Me\u0161i\u0107, A. (2022). Coprinus leucostictus rediscovered after a century, epitypified, and its generic position in Hausknechtia resolved by multigene phylogenetic analysis of Psathyrellaceae. Diversity, 14.","DOI":"10.3390\/d14090699"},{"key":"ref_69","doi-asserted-by":"crossref","first-page":"1160","DOI":"10.1093\/bib\/bbx108","article-title":"MAFFT online service: Multiple sequence alignment, interactive sequence choice and visualization","volume":"20","author":"Katoh","year":"2019","journal-title":"Brief. Bioinform."},{"key":"ref_70","doi-asserted-by":"crossref","first-page":"268","DOI":"10.1093\/molbev\/msu300","article-title":"IQ-TREE: A fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies","volume":"32","author":"Nguyen","year":"2015","journal-title":"Mol. Biol. Evol."},{"key":"ref_71","doi-asserted-by":"crossref","first-page":"W232","DOI":"10.1093\/nar\/gkw256","article-title":"W-IQ-TREE: A fast online phylogenetic tool for maximum likelihood analysis","volume":"44","author":"Trifinopoulos","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"ref_72","doi-asserted-by":"crossref","first-page":"539","DOI":"10.1093\/sysbio\/sys029","article-title":"MrBayes 3.2: Efficient Bayesian phylogenetic inference and model choice across a large model space","volume":"61","author":"Ronquist","year":"2012","journal-title":"Syst. Biol."},{"key":"ref_73","doi-asserted-by":"crossref","first-page":"W293","DOI":"10.1093\/nar\/gkab301","article-title":"Interactive Tree Of Life (iTOL) v5: An online tool for phylogenetic tree display and annotation","volume":"49","author":"Letunic","year":"2021","journal-title":"Nucleic Acids Res."}],"container-title":["International Journal of Molecular Sciences"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/1422-0067\/27\/1\/509\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,1,6]],"date-time":"2026-01-06T05:15:40Z","timestamp":1767676540000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/1422-0067\/27\/1\/509"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,1,3]]},"references-count":73,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2026,1]]}},"alternative-id":["ijms27010509"],"URL":"https:\/\/doi.org\/10.3390\/ijms27010509","relation":{},"ISSN":["1422-0067"],"issn-type":[{"type":"electronic","value":"1422-0067"}],"subject":[],"published":{"date-parts":[[2026,1,3]]}}}