De novo genome assembly and comparative genome analysis of the novel human fungal pathogen Trichosporon austroamericanum type-strain CBS 17435

De novo genome assembly and comparative genome analysis of the novel human fungal pathogen Trichosporon austroamericanum type-strain CBS 17435 | Research Square window.SnipcartSettings = { analytics: { enabled: false } }; (function() { var accessVector = localStorage.getItem('access_vector') || ''; window.dataLayer = window.dataLayer || []; if (accessVector) { window.dataLayer.push({ user: { profile: { profileInfo: { snid: accessVector } } } }); } })(); (function(w,d,s,l,i){w[l]=w[l]||[];w[l].push({'gtm.start':new Date().getTime(),event:'gtm.js'});var f=d.getElementsByTagName(s)[0],j=d.createElement(s),dl=l!='dataLayer'?'&l='+l:'';j.async=true;j.src='https://www.googletagmanager.com/gtm.js?id='+i+dl;f.parentNode.insertBefore(j,f);})(window,document,'script','dataLayer','GTM-K279D39R'); Browse Preprints In Review Journals COVID-19 Preprints AJE Video Bytes Research Tools Research Promotion AJE Professional Editing AJE Rubriq About Preprint Platform In Review Editorial Policies Our Team Advisory Board Help Center Sign In Submit a Preprint Cite Share Download PDF Research Article De novo genome assembly and comparative genome analysis of the novel human fungal pathogen Trichosporon austroamericanum type-strain CBS 17435 Elaine C. Francisco, Marie Desnos-Ollivier, Bert Gerrits van den Ende, and 1 more This is a preprint; it has not been peer reviewed by a journal. https://doi.org/ 10.21203/rs.3.rs-5795608/v1 This work is licensed under a CC BY 4.0 License Status: Published Journal Publication published 04 Apr, 2025 Read the published version in Mycopathologia → Version 1 posted 6 You are reading this latest preprint version Abstract Trichosporon austroamericanum is a recently described species recognized for its emerging clinical significance in invasive trichosporonosis. In this study, we present the nanopore long-read-based de novo genome assembly of the type-strain CBS 17435. Additionally, we performed genomic comparative analyses with its closest relative, Trichosporon inkin . rare yeasts emerging pathogen nanopore sequencing genome assembly Trichosporon austroamericanum Trichosporon inkin Fulltext Trichosporon austroamericanum is a recently recognized emerging pathogen, noted for its clinical relevance in causing a range of infections, including both superficial and invasive trichosporonosis [1]. The first case of T. austroamericanum was identified during an epidemiological survey in 2013, when it was isolated from a urine sample of a Brazilian kidney transplant recipient. However, sequence analyses from retrospective studies and genomic databases have documented the presence of this species in Europe, Asia, and Latin America [1,2]. Phylogenetic analyses indicated that this species is most closely related to Trichosporon inkin. Notably, T. austroamericanum exhibits a range of physiological characteristics, including the ability to grow at 45 °C, that differentiates it from other Trichosporon species [1]. We aimed to perform long-read nanopore sequencing and genomic analysis of the T. austroamericanum type-strain CBS 17435. This strain was subcultured onto 2% glucose, 50% yeast-extract water, 0.5% bacteriological peptone, 2% technical agar #2 (GYPA), supplemented with 0.5M sodium chloride to reduce the excessive formation of extracellular polysaccharides, which otherwise negatively impact genomic DNA purification. The previously reported detailed protocol for high-quality genomic DNA purification was followed, with the modification of using proteinase K from Roche Diagnostics (Mannheim, Germany) [3]. The quality and quantity of genomic DNA was assessed using the Qubit in combination with the High Sensitivity kit (ThermoFisher, Waltham, MA, U.S.A.), and by 0.8% agarose gel electrophoresis. One microgram of gDNA was used as starting point for the library preparation using the multiplex native ligation kit (SQK-NBD114.24; ONT, Oxford, United Kingdom) following the manufacturer’s instructions (protocol version NBE_9169_v114_revQ_15Sep2022, last updated February 16, 2024). The library was loaded onto a MinION R10.4.1 flow cell and raw data was collected using the GridION platform (software release 24.02.16; ONT). Basecalling was performed using Dorado ( [email protected] ; ONT). Reads with a length ≥1000bp and a quality-score (Q) of ≥10 were collected into a single FASTQ file for downstream analyses. FASTQ data was subjected to an additional quality check using chopper v0.7.0 to collect reads with a length of ≥1100bp and a ≥Q10, followed by removal of an arbitrary 50bp from the 5’- and 3’-ends [4]. Thereafter Flye v2.9.3-b1797 was used to generate the de novo genome assembly which was subsequently manually curated [5]. The haploid nuclear genome was found to be 20,968,827 bp in size, comprising eight fragments measuring 3,928,915; 3,876,917; 3,401,721; 2,954,482; 2,383,423; 2,186,886; 1,418,410; and 818,073 bp in length. The circular mitochondrial genome was 35,357 bp in length. Coverage of the nuclear genome was 79X, while the mitochondrial genome had a coverage of 3,479X. The haploid genome size of T. austroamericanum CBS 17435 closely matches that of T. inkin JCM 9195 (= CBS 5585), which has a haploid genome size of 20.35 Mbp long [6]. Both species have a rather decreased genome size compared to other haploid species in the Trichosporonales , which have an average genome size of 23.73 Mbp (±4.38 Mbp; range 17.23–36.62 Mbp) [6]. The mitochondrial genome of T. inkin was recently determined to be 39,466 bp in length, and that of the more distantly related Trichosporonales species Apiotrichum gamsii and Apiotrichum gracile were 38,096 and 34,648 bp in length, respectively [7,8]. The mitochondrial genome length of 35,357 bp reported here for T. austroamericanum is within the observed range of Trichosporonales species. To assess the quality of the de novo genome sequence, a BUSCO v5.8.0 analysis was performed, that yield with the eukaryota_odb10 database 96.5% complete (95.7% single, 0.8% duplicated), 2.7% fragmented, and 0.8% missing BUSCO’s among 255 tested, with the tremellomycetes_odb10 database this was 92.7% (92.3%, 0.4%), 1.4%, and 6.0%, respectively, of the 4,284 BUSCO’s tested [9]. As a comparison, similar BUSCO analysis was done for the T. inkin reference genome of JCM 9195 (= CBS 5585) that was retrieved from NCBI Genome (accession number GCA_040365635.1, version April 4, 2024). This yielded comparable values, for the eukaryota_odb10 database 96.9% complete (96.1% single, 0.8% duplicated), 2.4% fragmented, and 0.8% missing genes, and for the tremellomycetes_odb10 database 92.4% (92.0%, 0.4%), 1.5%, and 6.1%, respectively. Additionally, compleasm v0.2.6 was run for the tremellomycetes_odb10 database and resulted in higher completeness scores, with 94.31% complete (94.19% single, 0.12% duplicated), 1% fragmented, and 4.69% missing BUSCO’s for the genome of T. austroamericanum CBS 17435, and 94% complete (93.84% single, 0.16% duplicated), 1.07% fragmented, and 4.93% missing BUSCO’s for the genome of T. inkin JCM 9195 [10]. We used the web-based deep learning tool Helixer v0.3.4 to predict the number of genes for CBS 17435 and JCM 9195, which were found to be 8,275 and 8,395 genes, respectively [11]. The latter represents a 9–24.1% increase compared to the previously reported 6,766–7,700 predicted genes, which were obtained using the tools Augustus and GeneMark-ES based on data from the Cryptococcus neoformans reference genome [6,12]. The GC% of the nuclear genome of T. austroamericanum CBS 17435 was calculated to be 61.38%, comparable to the 63% of T. inkin JCM 9195. The GC% of the mitochondrial genome of CBS 17435 was found to be 27.11%, nearly similar to the 27.56% of that of JCM 9195 [8]. The average nucleotide identity (ANI) between the genomes of the T. austroamericanum and T. inkin type strains was calculated by OrthoANI using the USEARCH algorithm [13]. This analysis returned an OrthoANI value of 84.6472% between the genomes of CBS 17435 and JCM 9195. The ANI between this two Trichosporon species is comparable to the ~82% previously reported for members of the genus Cutaneotrichosporon , as well as to the ANI of 84.73% between Cutaneotrichosporon oleaginosus and Apiotrichum akiyoshidainum [14,15]. These ANI values fall well below the 95% threshold recently proposed for species delineation in bacteria based on genome data, which correlates with the historical species delineation criterion of 70% similarity in DNA-DNA hybridization. The ANI reported here for the closely related siblings T. austroamericanum and T. inkin further supports their distinction as separate species. Declarations Data availability Genomic data has been deposited in NCBI repositories under the following accession numbers: BioProject PRJNA1124242, BioSample SAMN41846244, Sequence Read Archive SRR30989370, and Genome JBIEOS000000000. Funding This study was supported by a grant received from Fundação de Amparo à Pesquisa do Estado de São Paulo – FAPESP (Project number: 2021/10599-3), and from Conselho Nacional de Desenvolvimento Científico e Tecnológico (Project number: 383955/2024-6). Competing Interests The authors have no relevant financial or non-financial interests to disclose. References Francisco EC, Desnos-Ollivier M, Dieleman C, Boekhout T, Santos DWCL, Medina-Pestana JO, Colombo AL, Hagen F. Unveiling Trichosporon austroamericanum sp. nov.: A novel emerging opportunistic basidiomycetous yeast species. Mycopathologia. 2024;189:43. https://doi.org/10.1007/s11046-024-00851-4 . Normand AC, Blaize M, Desnos-Olivier M, Goldstein V, Leprince P, Lebreton G, Mahieu R, Bouglé A, Luyt CE, Nabet C, Jabet A, Bonnal C, Kerneis S, Goulenok T, Imbert S, Sanchez Romero I, Vazirani Ballesteros R, Botterel F, Sendid B, Forest N, Martiny D, De Groote E, Robert J, Fournier S, Zaragoza Hernandez O, Packeu A, Lanternier F, Piarroux R, Fekkar A. Emergence of invasive infections due to the rare yeast Trichosporon austroamericanum sp. nov. (formerly T. inkin sensu lato) in patients undergoing cardio-vascular surgery in three European countries. Barcelona, Spain: ESCMID Global; 2024. pp. 26–30. Poster abstract P2822 session 6A Fungal Disease Epidemiology. Navarro-Muñoz JC, de Jong AW, van den Gerrits B, Haas PJ, Then ER, Mohd Tap R, Collemare J, Hagen F. The high-quality complete genome sequence of the opportunistic fungal pathogen Candida vulturna CBS 14366T. Mycopathologia. 2019;184:731–4. https://doi.org/10.1007/s11046-019-00404-0 . De Coster W, Rademakers R. NanoPack2: population-scale evaluation of long-read sequencing data. Bioinformatics. 2023;39:btad311. https://doi.org/10.1093/bioinformatics/btad311 . Kolmogorov M, Yuan J, Lin Y, Pevzner PA. Assembly of long, error-prone reads using repeat graphs. Nat Biotechnol. 2019;37:540–6. https://doi.org/10.1038/s41587-019-0072-8 . Takashima M, Sriswasdi S, Manabe RI, Ohkuma M, Sugita T, Iwasaki W. A Trichosporonales genome tree based on 27 haploid and three evolutionarily conserved 'natural' hybrid genomes. Yeast. 2018;35:99–111. https://doi.org/10.1002/yea.3284 . Li Q, Xiao W, Wu P, Zhang T, Xiang P, Wu Q, Zou L, Gui M. The first two mitochondrial genomes from Apiotrichum reveal mitochondrial evolution and different taxonomic assignment of Trichosporonales . IMA Fungus. 2023;14:7. https://doi.org/10.1186/s43008-023-00112-x . Liu Q, Wang X. Characterization and phylogenetic analysis of the complete mitochondrial genome of pathogen Trichosporon inkin ( Trichosporonales : Trichosporonaceae ). Mitochondrial DNA B Resour. 2021;6:803–5. https://doi.org/10.1080/23802359.2021.1882912 . Manni M, Berkeley MR, Seppey M, Simão FA, Zdobnov EM. BUSCO Update: Novel and streamlined workflows along with broader and deeper phylogenetic coverage for scoring of eukaryotic, prokaryotic, and viral genomes. Mol Biol Evol. 2021;38:4647–54. https://doi.org/10.1093/molbev/msab199 . Huang N, Li H. compleasm: a faster and more accurate reimplementation of BUSCO. Bioinformatics. 2023. btad595. Stiehler F, Steinborn M, Scholz S, Dey D, Weber APM, Denton AK. Helixer: cross-species gene annotation of large eukaryotic genomes using deep learning. Bioinformatics. 2021;36:5291–8. https://doi.org/10.1093/bioinformatics/btaa1044 . Aliyu H, Gorte O, de Maayer P, Neumann A, Ochsenreither K. Genomic insights into the lifestyles, functional capacities and oleagenicity of members of the fungal family Trichosporonaceae . Sci Rep. 2020;10:2780. https://doi.org/10.1038/s41598-020-59672-2 . Yoon SH, Ha SM, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie Van Leeuwenhoek. 2017;110:1281–6. https://doi.org/10.1007/s10482-017-0844-4 . Kobayashi Y, Kayamori A, Aoki K, Shiwa Y, Matsutani M, Fujita N, Sugita T, Iwasaki W, Tanaka N, Takashima M. Chromosome-level genome assemblies of Cutaneotrichosporon spp. ( Trichosporonales , Basidiomycota ) reveal imbalanced evolution between nucleotide sequences and chromosome synteny. BMC Genomics. 2023;24:609. https://doi.org/10.1186/s12864-023-09718-2 Bulacio Gil NM, Pajot HF, Rosales Soro MDM, de Figueroa LIC, Kurth D. Genome-wide overview of Trichosporon akiyoshidainum HP-2023, new insights into its mechanism of dye discoloration. 3 Biotech. 2018;8:440. https://doi.org/10.1007/s13205-018-1465-y . Cite Share Download PDF Status: Published Journal Publication published 04 Apr, 2025 Read the published version in Mycopathologia → Version 1 posted Editorial decision: Accept 05 Mar, 2025 Reviewers agreed at journal 17 Jan, 2025 Reviewers invited by journal 14 Jan, 2025 Editor invited by journal 11 Jan, 2025 Editor assigned by journal 10 Jan, 2025 First submitted to journal 09 Jan, 2025 You are reading this latest preprint version Research Square lets you share your work early, gain feedback from the community, and start making changes to your manuscript prior to peer review in a journal. As a division of Research Square Company, we’re committed to making research communication faster, fairer, and more useful. We do this by developing innovative software and high quality services for the global research community. Our growing team is made up of researchers and industry professionals working together to solve the most critical problems facing scientific publishing. Also discoverable on Platform About Our Team In Review Editorial Policies Advisory Board Help Center Resources Author Services Accessibility API Access RSS feed Manage Cookie Preferences © Research Square 2026 | ISSN 2693-5015 (online) Privacy Policy Terms of Service Do Not Sell My Personal Information {"props":{"pageProps":{"initialData":{"identity":"rs-5795608","acceptedTermsAndConditions":true,"allowDirectSubmit":false,"archivedVersions":[],"articleType":"Research Article","associatedPublications":[],"authors":[{"id":401982308,"identity":"42f6c54b-88ae-4dc4-aba6-d39176fdf003","order_by":0,"name":"Elaine C. 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The first case of \u003cem\u003eT. austroamericanum\u003c/em\u003e was identified during an epidemiological survey in 2013, when it was isolated from a urine sample of a Brazilian kidney transplant recipient. However, sequence analyses from retrospective studies and genomic databases have documented the presence of this species in Europe, Asia, and Latin America [1,2]. Phylogenetic analyses indicated that this species is most closely related to \u003cem\u003eTrichosporon inkin.\u0026nbsp;\u003c/em\u003eNotably,\u003cem\u003e\u0026nbsp;T. austroamericanum\u0026nbsp;\u003c/em\u003eexhibits a range of physiological characteristics, including the ability to grow at 45 \u0026deg;C, that differentiates it from other \u003cem\u003eTrichosporon\u003c/em\u003e species [1].\u003c/p\u003e\n\u003cp\u003eWe aimed to perform long-read nanopore sequencing and genomic analysis of the \u003cem\u003eT. austroamericanum\u0026nbsp;\u003c/em\u003etype-strain CBS 17435. This strain was subcultured onto 2% glucose, 50% yeast-extract water, 0.5% bacteriological peptone, 2% technical agar #2 (GYPA), supplemented with 0.5M sodium chloride to reduce the excessive formation of extracellular polysaccharides, which otherwise negatively impact genomic DNA purification. The previously reported detailed protocol for high-quality genomic DNA purification was followed, with the modification of using proteinase K from Roche Diagnostics (Mannheim, Germany) [3]. The quality and quantity of genomic DNA was assessed using the Qubit in combination with the High Sensitivity kit (ThermoFisher, Waltham, MA, U.S.A.), and by 0.8% agarose gel electrophoresis.\u0026nbsp;\u003c/p\u003e\n\u003cp\u003eOne microgram of gDNA was used as starting point for the library preparation using the multiplex native ligation kit (SQK-NBD114.24; ONT, Oxford, United Kingdom) following the manufacturer\u0026rsquo;s instructions (protocol version NBE_9169_v114_revQ_15Sep2022, last updated February 16, 2024). The library was loaded onto a MinION R10.4.1 flow cell and raw data was collected using the GridION platform (software release 24.02.16; ONT). Basecalling was performed using Dorado ([email protected]; ONT). Reads with a length \u0026ge;1000bp and a quality-score (Q) of \u0026ge;10 were collected into a single FASTQ file for downstream analyses.\u003c/p\u003e\n\u003cp\u003eFASTQ data was subjected to an additional quality check using chopper v0.7.0 to collect reads with a length of \u0026ge;1100bp and a \u0026ge;Q10, followed by removal of an arbitrary 50bp from the 5\u0026rsquo;- and 3\u0026rsquo;-ends [4]. Thereafter Flye v2.9.3-b1797 was used to generate the \u003cem\u003ede novo\u003c/em\u003e genome assembly which was subsequently manually curated [5]. The haploid nuclear genome was found to be 20,968,827 bp in size, comprising eight fragments measuring 3,928,915; 3,876,917; 3,401,721; 2,954,482; 2,383,423; 2,186,886; 1,418,410; and 818,073 bp in length. The circular mitochondrial genome was 35,357 bp in length. Coverage of the nuclear genome was 79X, while the mitochondrial genome had a coverage of 3,479X. The haploid genome size of \u003cem\u003eT. austroamericanum\u003c/em\u003e CBS 17435 closely matches that of \u003cem\u003eT. inkin\u003c/em\u003e JCM 9195 (= CBS 5585), which has a haploid genome size of 20.35 Mbp long [6]. Both species have a rather decreased genome size compared to other haploid species in the \u003cem\u003eTrichosporonales\u003c/em\u003e, which have an average genome size of 23.73 Mbp (\u0026plusmn;4.38 Mbp; range 17.23\u0026ndash;36.62 Mbp) [6]. The mitochondrial genome of \u003cem\u003eT. inkin\u003c/em\u003e was recently determined to be 39,466 bp in length, and that of the more distantly related \u003cem\u003eTrichosporonales\u003c/em\u003e species \u003cem\u003eApiotrichum gamsii\u003c/em\u003e and \u003cem\u003eApiotrichum gracile\u003c/em\u003e were 38,096 and 34,648 bp in length, respectively [7,8]. The mitochondrial genome length of 35,357 bp reported here for \u003cem\u003eT. austroamericanum\u003c/em\u003e is within the observed range of \u003cem\u003eTrichosporonales\u003c/em\u003e species.\u003c/p\u003e\n\u003cp\u003eTo assess the quality of the \u003cem\u003ede novo\u003c/em\u003e genome sequence, a BUSCO v5.8.0 analysis was performed, that yield with the eukaryota_odb10 database 96.5% complete (95.7% single, 0.8% duplicated), 2.7% fragmented, and 0.8% missing BUSCO\u0026rsquo;s among 255 tested, with the tremellomycetes_odb10 database this was 92.7% (92.3%, 0.4%), 1.4%, and 6.0%, respectively, of the 4,284 BUSCO\u0026rsquo;s tested [9]. As a comparison, similar BUSCO analysis was done for the \u003cem\u003eT. inkin\u0026nbsp;\u003c/em\u003ereference genome of JCM 9195 (= CBS 5585) that was retrieved from NCBI Genome (accession number GCA_040365635.1, version April 4, 2024). This yielded comparable values, for the eukaryota_odb10 database 96.9% complete (96.1% single, 0.8% duplicated), 2.4% fragmented, and 0.8% missing genes, and for the tremellomycetes_odb10 database 92.4% (92.0%, 0.4%), 1.5%, and 6.1%, respectively. Additionally, compleasm v0.2.6 was run for the tremellomycetes_odb10 database and resulted in higher completeness scores, with 94.31% complete (94.19% single, 0.12% duplicated), 1% fragmented, and 4.69% missing BUSCO\u0026rsquo;s for the genome of \u003cem\u003eT. austroamericanum\u0026nbsp;\u003c/em\u003eCBS 17435, and 94% complete (93.84% single, 0.16% duplicated), 1.07% fragmented, and 4.93% missing BUSCO\u0026rsquo;s for the genome of \u003cem\u003eT. inkin\u0026nbsp;\u003c/em\u003eJCM 9195 [10].\u0026nbsp;\u003c/p\u003e\n\u003cp\u003eWe used the web-based deep learning tool Helixer v0.3.4 to predict the number of genes for CBS 17435 and JCM 9195, which were found to be 8,275 and 8,395 genes, respectively [11]. The latter represents a 9\u0026ndash;24.1% increase compared to the previously reported 6,766\u0026ndash;7,700 predicted genes, which were obtained using the tools Augustus and GeneMark-ES based on data from the \u003cem\u003eCryptococcus neoformans\u003c/em\u003e reference genome [6,12].\u003c/p\u003e\n\u003cp\u003eThe GC% of the nuclear genome of \u003cem\u003eT. austroamericanum\u0026nbsp;\u003c/em\u003eCBS 17435 was calculated to be 61.38%, comparable to the 63% of \u003cem\u003eT. inkin\u0026nbsp;\u003c/em\u003eJCM 9195. The GC% of the mitochondrial genome of CBS 17435 was found to be 27.11%, nearly similar to the 27.56% of that of JCM 9195 [8]. The average nucleotide identity (ANI) between the genomes of the \u003cem\u003eT. austroamericanum\u003c/em\u003e and \u003cem\u003eT. inkin\u003c/em\u003e type strains was calculated by OrthoANI using the USEARCH algorithm [13]. This analysis returned an OrthoANI value of 84.6472% between the genomes of CBS 17435 and JCM 9195. The ANI between this two \u003cem\u003eTrichosporon\u003c/em\u003e species is comparable to the ~82% previously reported for members of the genus \u003cem\u003eCutaneotrichosporon\u003c/em\u003e, as well as to the ANI of 84.73% between \u003cem\u003eCutaneotrichosporon oleaginosus\u003c/em\u003e and \u003cem\u003eApiotrichum akiyoshidainum\u003c/em\u003e [14,15]. These ANI values fall well below the 95% threshold recently proposed for species delineation in bacteria based on genome data, which correlates with the historical species delineation criterion of 70% similarity in DNA-DNA hybridization. The ANI reported here for the closely related siblings \u003cem\u003eT. austroamericanum\u003c/em\u003e and \u003cem\u003eT. inkin\u003c/em\u003e further supports their distinction as separate species.\u003c/p\u003e"},{"header":"Declarations","content":"\u003cp\u003e\u003cstrong\u003eData availability\u003c/strong\u003e\u003c/p\u003e\n\u003cp\u003eGenomic data has been deposited in NCBI repositories under the following accession numbers:\u003c/p\u003e\n\u003cp\u003eBioProject PRJNA1124242, BioSample SAMN41846244, Sequence Read Archive SRR30989370, and Genome JBIEOS000000000.\u003c/p\u003e\n\u003cp\u003e\u003cstrong\u003eFunding\u003c/strong\u003e\u003c/p\u003e\n\u003cp\u003eThis study was supported by a grant received from Funda\u0026ccedil;\u0026atilde;o de Amparo \u0026agrave; Pesquisa do Estado de S\u0026atilde;o Paulo \u0026ndash; FAPESP (Project number: 2021/10599-3), and from Conselho Nacional de Desenvolvimento Cient\u0026iacute;fico e Tecnol\u0026oacute;gico (Project number: 383955/2024-6).\u003c/p\u003e\n\u003cp\u003e\u003cstrong\u003eCompeting Interests\u003c/strong\u003e\u003c/p\u003e\n\u003cp\u003eThe authors have no relevant financial or non-financial interests to disclose.\u003c/p\u003e"},{"header":"References","content":"\u003col\u003e\u003cli\u003e\u003cspan\u003eFrancisco EC, Desnos-Ollivier M, Dieleman C, Boekhout T, Santos DWCL, Medina-Pestana JO, Colombo AL, Hagen F. 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Genome-wide overview of \u003cem\u003eTrichosporon akiyoshidainum\u003c/em\u003e HP-2023, new insights into its mechanism of dye discoloration. 3 Biotech. 2018;8:440. \u003cspan class=\"ExternalRef\"\u003e\u003cspan class=\"RefSource\"\u003ehttps://doi.org/10.1007/s13205-018-1465-y\u003c/span\u003e\u003cspan address=\"10.1007/s13205-018-1465-y\" targettype=\"DOI\" class=\"RefTarget\"\u003e\u003c/span\u003e\u003c/span\u003e.\u003c/span\u003e\u003c/li\u003e\u003c/ol\u003e"}],"fulltextSource":"","fullText":"","funders":[],"hasAdminPriorityOnWorkflow":false,"hasManuscriptDocX":true,"hasOptedInToPreprint":true,"hasPassedJournalQc":"","hasAnyPriority":false,"hideJournal":false,"highlight":"","institution":"","isAcceptedByJournal":true,"isAuthorSuppliedPdf":false,"isDeskRejected":"","isHiddenFromSearch":false,"isInQc":false,"isInWorkflow":false,"isPdf":false,"isPdfUpToDate":true,"isWithdrawnOrRetracted":false,"journal":{"display":true,"email":"[email protected]","identity":"mycopathologia","isNatureJournal":false,"hasQc":true,"allowDirectSubmit":false,"externalIdentity":"myco","sideBox":"Learn more about [Mycopathologia](https://www.springer.com/journal/11046)","snPcode":"11046","submissionUrl":"https://submission.nature.com/new-submission/11046/3","title":"Mycopathologia","twitterHandle":"","acdcEnabled":true,"dfaEnabled":true,"editorialSystem":"em","reportingPortfolio":"Springer Hybrid","inReviewEnabled":true,"inReviewRevisionsEnabled":false},"keywords":"rare yeasts, emerging pathogen, nanopore sequencing, genome assembly, Trichosporon austroamericanum, Trichosporon inkin","lastPublishedDoi":"10.21203/rs.3.rs-5795608/v1","lastPublishedDoiUrl":"https://doi.org/10.21203/rs.3.rs-5795608/v1","license":{"name":"CC BY 4.0","url":"https://creativecommons.org/licenses/by/4.0/"},"manuscriptAbstract":"\u003cp\u003e \u003cem\u003eTrichosporon austroamericanum\u003c/em\u003e is a recently described species recognized for its emerging clinical significance in invasive trichosporonosis. In this study, we present the nanopore long-read-based \u003cem\u003ede novo\u003c/em\u003e genome assembly of the type-strain CBS 17435. Additionally, we performed genomic comparative analyses with its closest relative, \u003cem\u003eTrichosporon inkin\u003c/em\u003e.\u003c/p\u003e","manuscriptTitle":"De novo genome assembly and comparative genome analysis of the novel human fungal pathogen Trichosporon austroamericanum type-strain CBS 17435","msid":"","msnumber":"","nonDraftVersions":[{"code":1,"date":"2025-01-16 05:48:00","doi":"10.21203/rs.3.rs-5795608/v1","editorialEvents":[{"type":"communityComments","content":0},{"type":"decision","content":"Accept","date":"2025-03-06T04:11:29+00:00","index":"","fulltext":""},{"type":"reviewerAgreed","content":"","date":"2025-01-17T13:58:06+00:00","index":0,"fulltext":""},{"type":"reviewersInvited","content":"","date":"2025-01-14T11:30:10+00:00","index":"","fulltext":""},{"type":"editorInvited","content":"Mycopathologia","date":"2025-01-11T14:38:46+00:00","index":"","fulltext":""},{"type":"editorAssigned","content":"","date":"2025-01-10T05:39:21+00:00","index":"","fulltext":""},{"type":"submitted","content":"Mycopathologia","date":"2025-01-09T05:31:28+00:00","index":"","fulltext":""}],"status":"published","journal":{"display":true,"email":"[email protected]","identity":"mycopathologia","isNatureJournal":false,"hasQc":true,"allowDirectSubmit":false,"externalIdentity":"myco","sideBox":"Learn more about [Mycopathologia](https://www.springer.com/journal/11046)","snPcode":"11046","submissionUrl":"https://submission.nature.com/new-submission/11046/3","title":"Mycopathologia","twitterHandle":"","acdcEnabled":true,"dfaEnabled":true,"editorialSystem":"em","reportingPortfolio":"Springer Hybrid","inReviewEnabled":true,"inReviewRevisionsEnabled":false}}],"origin":"","ownerIdentity":"a76b2ee4-3614-44cf-b08d-0471586ace6b","owner":[],"postedDate":"January 16th, 2025","published":true,"recentEditorialEvents":[],"rejectedJournal":[],"revision":"","amendment":"","status":"published-in-journal","subjectAreas":[],"tags":[],"updatedAt":"2025-04-07T16:00:35+00:00","versionOfRecord":{"articleIdentity":"rs-5795608","link":"https://doi.org/10.1007/s11046-025-00942-w","journal":{"identity":"mycopathologia","isVorOnly":false,"title":"Mycopathologia"},"publishedOn":"2025-04-04 15:57:21","publishedOnDateReadable":"April 4th, 2025"},"versionCreatedAt":"2025-01-16 05:48:00","video":"","vorDoi":"10.1007/s11046-025-00942-w","vorDoiUrl":"https://doi.org/10.1007/s11046-025-00942-w","workflowStages":[]},"version":"v1","identity":"rs-5795608","journalConfig":"researchsquare"},"__N_SSP":true},"page":"/article/[identity]/[[...version]]","query":{"redirect":"/article/rs-5795608","identity":"rs-5795608","version":["v1"]},"buildId":"8U1c8b4HqxoKbykW_rLl7","isFallback":false,"isExperimentalCompile":false,"dynamicIds":[84888],"gssp":true,"scriptLoader":[]}