Taxonomy and systematics of micro-fungi associated with Coffea in southern China and northern Thailand

Taxonomy and systematics of micro-fungi associated with Coffea in southern China and northern Thailand | 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 Taxonomy and systematics of micro-fungi associated with Coffea in southern China and northern Thailand Li Lu, Samantha C. Karunarathna, Yin-Ru Xiong, Li-Su Han, Xue-Mei Chen, and 8 more This is a preprint; it has not been peer reviewed by a journal. https://doi.org/ 10.21203/rs.3.rs-6462360/v1 This work is licensed under a CC BY 4.0 License Status: Published Journal Publication published 25 Nov, 2025 Read the published version in Fungal Diversity → Version 1 posted 5 You are reading this latest preprint version Abstract Yunnan, China, and Chiang Rai, Thailand, are located in the northern part of the Greater Mekong Subregion (GMS), characterized by its warm climate and rich ecological diversity, harboring an abundance of unique fungal resources. This comprehensive study investigated the saprobes associated with the economic crop coffee in Yunnan, China, and Chiang Rai, Thailand. A total of 360 collections were obtained from eight locations: Baoshan, Dali, Dehong, Jinghong, Lincang, Nujiang, and Pu'er in Yunnan in China and Chiang Rai in Thailand, and initial ITS analyses revealed that they belong to seven classes, 37 orders, 83 families, and 137 genera; the life modes of these genera are discussed based on prior studies. The fungal diversity and specificity of the above-mentioned eight collection places are also compared and discussed. Out of the 360 collections, 100 were selected for further morphological and multi-locus phylogenetic analyses based on well-preserved samples, abundant fruiting bodies, and fully matured morphological structures that can be used for morphological observation. The 100 collections belong to three classes, 23 orders, 51 families, and 64 genera. Halotthicoffea , Loculimurus , Neoamorocoelophoma , Similroussoella , and Vaginomyces were identified as new genera. Fifty-one new species, one species with new sequence data, 39 new records, and four new collections are also reviewed. Acrocalymma daliense , Pseudohelminthosporium clematidis , Tubeufia coffeae , and Menisporopsis dinemasporioides are reported in their sexual and asexual morphs from different collection sites, and the taxonomic status of P. clematidis is confirmed based on both morphological characteristics. In addition, two new combinations ( Neoamorocoelophoma camelliae and Similroussoella jinghongensis ) are introduced in this study based on evidence from morphology and multi-locus phylogeny. Detailed descriptions, illustrations, Scanning Electron Microscopy (SEM) images, and phylogenetic analysis results are provided for all the species. 56 new taxa Coffee-associated saprobes Fungal diversity Multi-gene Phylogeny Taxonomy Full Text Supplementary Files SupplementaryTable1.docx SupplementaryFigure1ITS.pdf SupplementaryFigure2LSU.pdf SupplementaryFigure3SSU.pdf Cite Share Download PDF Status: Published Journal Publication published 25 Nov, 2025 Read the published version in Fungal Diversity → Version 1 posted Reviewers agreed at journal 09 May, 2025 Reviewers invited by journal 09 May, 2025 Editor invited by journal 29 Apr, 2025 Editor assigned by journal 23 Apr, 2025 First submitted to journal 18 Apr, 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. 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This comprehensive study investigated the saprobes associated with the economic crop coffee in Yunnan, China, and Chiang Rai, Thailand. A total of 360 collections were obtained from eight locations: Baoshan, Dali, Dehong, Jinghong, Lincang, Nujiang, and Pu'er in Yunnan in China and Chiang Rai in Thailand, and initial ITS analyses revealed that they belong to seven classes, 37 orders, 83 families, and 137 genera; the life modes of these genera are discussed based on prior studies. The fungal diversity and specificity of the above-mentioned eight collection places are also compared and discussed. Out of the 360 collections, 100 were selected for further morphological and multi-locus phylogenetic analyses based on well-preserved samples, abundant fruiting bodies, and fully matured morphological structures that can be used for morphological observation. The 100 collections belong to three classes, 23 orders, 51 families, and 64 genera. \u003cem\u003eHalotthicoffea\u003c/em\u003e, \u003cem\u003eLoculimurus\u003c/em\u003e, \u003cem\u003eNeoamorocoelophoma\u003c/em\u003e, \u003cem\u003eSimilroussoella\u003c/em\u003e, and \u003cem\u003eVaginomyces\u003c/em\u003e were identified as new genera. Fifty-one new species, one species with new sequence data, 39 new records, and four new collections are also reviewed. \u003cem\u003eAcrocalymma daliense\u003c/em\u003e, \u003cem\u003ePseudohelminthosporium clematidis\u003c/em\u003e, \u003cem\u003eTubeufia coffeae\u003c/em\u003e, and \u003cem\u003eMenisporopsis dinemasporioides\u003c/em\u003e are reported in their sexual and asexual morphs from different collection sites, and the taxonomic status of \u003cem\u003eP. clematidis\u003c/em\u003e is confirmed based on both morphological characteristics. In addition, two new combinations (\u003cem\u003eNeoamorocoelophoma camelliae\u003c/em\u003e and \u003cem\u003eSimilroussoella jinghongensis\u003c/em\u003e) are introduced in this study based on evidence from morphology and multi-locus phylogeny. Detailed descriptions, illustrations, Scanning Electron Microscopy (SEM) images, and phylogenetic analysis results are provided for all the species.\u003c/p\u003e","manuscriptTitle":"Taxonomy and systematics of micro-fungi associated with Coffea in southern China and northern Thailand","msid":"","msnumber":"","nonDraftVersions":[{"code":1,"date":"2025-05-15 06:33:25","doi":"10.21203/rs.3.rs-6462360/v1","editorialEvents":[{"type":"communityComments","content":0},{"type":"reviewerAgreed","content":"","date":"2025-05-09T12:49:57+00:00","index":0,"fulltext":""},{"type":"reviewersInvited","content":"","date":"2025-05-09T12:22:19+00:00","index":"","fulltext":""},{"type":"editorInvited","content":"Fungal Diversity","date":"2025-04-29T23:09:49+00:00","index":"","fulltext":""},{"type":"editorAssigned","content":"","date":"2025-04-23T10:35:29+00:00","index":"","fulltext":""},{"type":"submitted","content":"Fungal Diversity","date":"2025-04-18T04:23:32+00:00","index":"","fulltext":""}],"status":"published","journal":{"display":true,"email":"[email protected]","identity":"fungal-diversity","isNatureJournal":false,"hasQc":true,"allowDirectSubmit":false,"externalIdentity":"fudi","sideBox":"Learn more about [Fungal Diversity](https://www.springer.com/journal/13225)","snPcode":"","submissionUrl":"https://www.editorialmanager.com/fudi/default.aspx","title":"Fungal Diversity","twitterHandle":"","acdcEnabled":true,"dfaEnabled":true,"editorialSystem":"em","reportingPortfolio":"Springer Hybrid","inReviewEnabled":true,"inReviewRevisionsEnabled":false}}],"origin":"","ownerIdentity":"424a7a40-50ec-46be-a4dc-100ec3acf404","owner":[],"postedDate":"May 15th, 2025","published":true,"recentEditorialEvents":[],"rejectedJournal":[],"revision":"","amendment":"","status":"published-in-journal","subjectAreas":[],"tags":[],"updatedAt":"2025-12-01T16:04:24+00:00","versionOfRecord":{"articleIdentity":"rs-6462360","link":"https://doi.org/10.1007/s13225-025-00566-x","journal":{"identity":"fungal-diversity","isVorOnly":false,"title":"Fungal Diversity"},"publishedOn":"2025-11-25 15:58:25","publishedOnDateReadable":"November 25th, 2025"},"versionCreatedAt":"2025-05-15 06:33:25","video":"","vorDoi":"10.1007/s13225-025-00566-x","vorDoiUrl":"https://doi.org/10.1007/s13225-025-00566-x","workflowStages":[]},"version":"v1","identity":"rs-6462360","journalConfig":"researchsquare"},"__N_SSP":true},"page":"/article/[identity]/[[...version]]","query":{"redirect":"/article/rs-6462360","identity":"rs-6462360","version":["v1"]},"buildId":"8U1c8b4HqxoKbykW_rLl7","isFallback":false,"isExperimentalCompile":false,"dynamicIds":[84888],"gssp":true,"scriptLoader":[]}