000125968 001__ 125968 000125968 005__ 20241125101136.0 000125968 0247_ $$2doi$$a10.1073/pnas.2214076120 000125968 0248_ $$2sideral$$a133490 000125968 037__ $$aART-2023-133490 000125968 041__ $$aeng 000125968 100__ $$aSierra-Patev, S. 000125968 245__ $$aA global phylogenomic analysis of the shiitake genus Lentinula 000125968 260__ $$c2023 000125968 5060_ $$aAccess copy available to the general public$$fUnrestricted 000125968 5203_ $$aLentinula is a broadly distributed group of fungi that contains the cultivated shiitake mushroom, L. edodes. We sequenced 24 genomes representing eight described species and several unnamed lineages of Lentinula from 15 countries on four continents. Lentinula comprises four major clades that arose in the Oligocene, three in the Americas and one in Asia–Australasia. To expand sampling of shiitake mushrooms, we assembled 60 genomes of L. edodes from China that were previously published as raw Illumina reads and added them to our dataset. Lentinula edodes sensu lato (s. lat.) contains three lineages that may warrant recognition as species, one including a single isolate from Nepal that is the sister group to the rest of L. edodes s. lat., a second with 20 cultivars and 12 wild isolates from China, Japan, Korea, and the Russian Far East, and a third with 28 wild isolates from China, Thailand, and Vietnam. Two additional lineages in China have arisen by hybridization among the second and third groups. Genes encoding cysteine sulfoxide lyase (lecsl) and γ-glutamyl transpeptidase (leggt), which are implicated in biosynthesis of the organosulfur flavor compound lenthionine, have diversified in Lentinula. Paralogs of both genes that are unique to Lentinula (lecsl 3 and leggt 5b) are coordinately up-regulated in fruiting bodies of L. edodes. The pangenome of L. edodes s. lat. contains 20,308 groups of orthologous genes, but only 6,438 orthogroups (32%) are shared among all strains, whereas 3,444 orthogroups (17%) are found only in wild populations, which should be targeted for conservation. 000125968 536__ $$9info:eu-repo/grantAgreement/ES/AEI/BIO2017-86559-R$$9info:eu-repo/grantAgreement/ES/MICINN-AEI/PID2019-103901GB-I00 000125968 540__ $$9info:eu-repo/semantics/openAccess$$aby-nc-nd$$uhttp://creativecommons.org/licenses/by-nc-nd/3.0/es/ 000125968 590__ $$a9.4$$b2023 000125968 592__ $$a3.737$$b2023 000125968 591__ $$aMULTIDISCIPLINARY SCIENCES$$b13 / 134 = 0.097$$c2023$$dQ1$$eT1 000125968 593__ $$aMultidisciplinary$$c2023$$dQ1 000125968 594__ $$a19.0$$b2023 000125968 655_4 $$ainfo:eu-repo/semantics/article$$vinfo:eu-repo/semantics/publishedVersion 000125968 700__ $$aByoungnam M. 000125968 700__ $$aNaranjo-Ortiz, M. 000125968 700__ $$aLooney, B. 000125968 700__ $$aKonkel, Z. 000125968 700__ $$aSlot, J. C. 000125968 700__ $$aSakamoto, Y. 000125968 700__ $$aSteenwyk, J. L. 000125968 700__ $$aRokas, A. 000125968 700__ $$aCarro, J. 000125968 700__ $$aCamarero, S. 000125968 700__ $$aFerreira, P. 000125968 700__ $$aMolpeceres, G. 000125968 700__ $$0(orcid)0000-0003-4076-6118$$aFerreira, P.$$uUniversidad de Zaragoza 000125968 700__ $$aRuiz Dueñas, F. J. 000125968 700__ $$aSerrano, A. 000125968 700__ $$aHenrissat, B. 000125968 700__ $$aDrula, E. 000125968 700__ $$aHughes, K. W. 000125968 700__ $$aMata, J. L. 000125968 700__ $$aKazue Ishikawa, N. 000125968 700__ $$aVargas Isla, R 000125968 700__ $$aUshijima, S. 000125968 700__ $$aSmith, C. A. 000125968 700__ $$aDonoghue, J.Ahrendt, S. 000125968 700__ $$aAndreopoulos, M. 000125968 700__ $$aHe, G. 000125968 700__ $$aLaButti, K. 000125968 700__ $$aLipzen, A. 000125968 700__ $$aNg, V. 000125968 700__ $$aRiley, R. 000125968 700__ $$aSandor, L. 000125968 700__ $$aBarry, K. 000125968 700__ $$aMartínez, A. T. 000125968 700__ $$aXiao, Y. 000125968 700__ $$aGibbons, J. G. 000125968 700__ $$aTerashima, K. 000125968 700__ $$aGrigoriev, I. V. 000125968 700__ $$aHibbett, D. 000125968 7102_ $$11002$$2060$$aUniversidad de Zaragoza$$bDpto. Bioq.Biolog.Mol. Celular$$cÁrea Bioquímica y Biolog.Mole. 000125968 773__ $$g120, 10 (2023), e2214076120 [10 pp.]$$pProc. Natl. Acad. Sci.$$tProceedings of the National Academy of Sciences of the United States of America$$x0027-8424 000125968 8564_ $$s1698636$$uhttps://zaguan.unizar.es/record/125968/files/texto_completo.pdf$$yVersión publicada 000125968 8564_ $$s3864686$$uhttps://zaguan.unizar.es/record/125968/files/texto_completo.jpg?subformat=icon$$xicon$$yVersión publicada 000125968 909CO $$ooai:zaguan.unizar.es:125968$$particulos$$pdriver 000125968 951__ $$a2024-11-22-12:00:54 000125968 980__ $$aARTICLE