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dc.contributor.authorMa, Li-Jun
dc.contributor.authorIbrahim, Ashraf S.
dc.contributor.authorSkory, Christopher
dc.contributor.authorGrabherr, Manfred G.
dc.contributor.authorBurger, Gertraud
dc.contributor.authorButler, Margi
dc.contributor.authorElias, Marek
dc.contributor.authorIdnurm, Alexander
dc.contributor.authorLang, B. Franz
dc.contributor.authorSone, Teruo
dc.contributor.authorAbe, Ayumi
dc.contributor.authorCorrochano, Luis M.
dc.contributor.authorFu, Jianmin
dc.contributor.authorHansberg, Wilhelm
dc.contributor.authorKim, Jung-Mi
dc.contributor.authorKodira, Chinnappa D.
dc.contributor.authorKoehrsen, Michael J.
dc.contributor.authorMiranda-Saavedra, Diego
dc.contributor.authorO'Leary, Sinead
dc.contributor.authorOrtiz-Castellanos, Lucila
dc.contributor.authorPoulter, Russell
dc.contributor.authorRodriguez-Romero, Julio
dc.contributor.authorRuiz-Herrera, José
dc.contributor.authorShen, Yao-Qing
dc.contributor.authorZeng, Qiandong
dc.contributor.authorBirren, Bruce W.
dc.contributor.authorCuomo, Christina A.
dc.contributor.authorWickes, Brian L.
dc.contributor.authorCalvo, Sarah E
dc.contributor.authorEngels, Reinhard
dc.contributor.authorGalagan, James E
dc.contributor.authorLiu, Bo
dc.date.accessioned2012-02-09T20:36:50Z
dc.date.issued2009
dc.identifier.citationMa, Li-Jun, Ashraf S. Ibrahim, Christopher Skory, Manfred G. Grabherr, Gertraud Burger, Margi Butler, Marek Elias, et al. 2009. Genomic analysis of the basal lineage fungus rhizopus oryzae reveals a whole-genome duplication. PLoS Genetics 5(7): e1000549.en_US
dc.identifier.issn1553-7390en_US
dc.identifier.urihttp://nrs.harvard.edu/urn-3:HUL.InstRepos:8148898
dc.description.abstractRhizopus oryzae is the primary cause of mucormycosis, an emerging, life-threatening infection characterized by rapid angioinvasive growth with an overall mortality rate that exceeds 50%. As a representative of the paraphyletic basal group of the fungal kingdom called “zygomycetes,” R. oryzae is also used as a model to study fungal evolution. Here we report the genome sequence of R. oryzae strain 99–880, isolated from a fatal case of mucormycosis. The highly repetitive 45.3 Mb genome assembly contains abundant transposable elements (TEs), comprising approximately 20% of the genome. We predicted 13,895 protein-coding genes not overlapping TEs, many of which are paralogous gene pairs. The order and genomic arrangement of the duplicated gene pairs and their common phylogenetic origin provide evidence for an ancestral whole-genome duplication (WGD) event. The WGD resulted in the duplication of nearly all subunits of the protein complexes associated with respiratory electron transport chains, the V-ATPase, and the ubiquitin–proteasome systems. The WGD, together with recent gene duplications, resulted in the expansion of multiple gene families related to cell growth and signal transduction, as well as secreted aspartic protease and subtilase protein families, which are known fungal virulence factors. The duplication of the ergosterol biosynthetic pathway, especially the major azole target, lanosterol 14α-demethylase (ERG11), could contribute to the variable responses of R. oryzae to different azole drugs, including voriconazole and posaconazole. Expanded families of cell-wall synthesis enzymes, essential for fungal cell integrity but absent in mammalian hosts, reveal potential targets for novel and R. oryzae-specific diagnostic and therapeutic treatments.en_US
dc.language.isoen_USen_US
dc.publisherPublic Library of Scienceen_US
dc.relation.isversionofdoi:10.1371/journal.pgen.1000549en_US
dc.relation.hasversionhttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC2699053/pdf/en_US
dash.licenseLAA
dc.subjectcomparative sequence analysisen_US
dc.subjectgenomicsen_US
dc.subjectmicrobial evolution and genomicsen_US
dc.subjectfungal infectionsen_US
dc.subjectmedical microbiologyen_US
dc.titleGenomic Analysis of the Basal Lineage Fungus Rhizopus oryzae Reveals a Whole-Genome Duplicationen_US
dc.typeJournal Articleen_US
dc.description.versionVersion of Recorden_US
dc.relation.journalPLoS Geneticsen_US
dash.depositing.authorCalvo, Sarah E
dc.date.available2012-02-09T20:36:50Z
dash.affiliation.otherHMS^Neurology-Massachusetts General Hospitalen_US
dash.affiliation.otherSPH^Immunology and Infectious Diseases TPHen_US
dc.identifier.doi10.1371/journal.pgen.1000549*
dash.authorsorderedfalse
dash.contributor.affiliatedEngels, Reinhard
dash.contributor.affiliatedGalagan, James E.
dash.contributor.affiliatedCalvo, Sarah


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