The Physarum polycephalum Genome Reveals Extensive Use of Prokaryotic Two-Component and Metazoan-Type Tyrosine Kinase Signaling

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dc.contributor.authorSchaap, P.en
dc.contributor.authorBarrantes, I.en
dc.contributor.authorMinx, P.en
dc.contributor.authorSasaki, N.en
dc.contributor.authorAnderson, R. W.en
dc.contributor.authorBeinard, M.en
dc.contributor.authorBiggar, K. K.en
dc.contributor.authorBuehler, N. E.en
dc.contributor.authorBundschuh, R.en
dc.contributor.authorChen, X.en
dc.contributor.authorFronick, C.en
dc.contributor.authorFulton, L.en
dc.contributor.authorGolderer, G.en
dc.contributor.authorJahn, N.en
dc.contributor.authorKnoop, V.en
dc.contributor.authorLandweber, L. F.en
dc.contributor.authorMaric, C.en
dc.contributor.authorMiller, D.en
dc.contributor.authorNoegel, A. A.en
dc.contributor.authorPeace, R.en
dc.contributor.authorPierron, G.en
dc.contributor.authorSasaki, T.en
dc.contributor.authorSchallenberg-Ruedinger, M.en
dc.contributor.authorSchleicher, M.en
dc.contributor.authorSingh, R.en
dc.contributor.authorSpaller, T.en
dc.contributor.authorStorey, K. B.en
dc.contributor.authorSuzuki, T.en
dc.contributor.authorTomlinson, C.en
dc.contributor.authorTyson, John J.en
dc.contributor.authorWarren, W. C.en
dc.contributor.authorWerner, E. R.en
dc.contributor.authorWerner-Felmayer, G.en
dc.contributor.authorWilson, R. K.en
dc.contributor.authorWinckler, T.en
dc.contributor.authorGott, J. M.en
dc.contributor.authorGloeckner, G.en
dc.contributor.authorMarwan, W.en
dc.contributor.departmentBiological Sciencesen
dc.date.accessioned2016-12-09T21:30:14Zen
dc.date.available2016-12-09T21:30:14Zen
dc.date.issued2016-01-01en
dc.description.abstractPhysarum polycephalum is a well-studied microbial eukaryote with unique experimental attributes relative to other experimental model organisms. It has a sophisticated life cycle with several distinct stages including amoebal, flagellated, and plasmodial cells. It is unusual in switching between open and closed mitosis according to specific life-cycle stages. Here we present the analysis of the genome of this enigmatic and important model organism and compare it with closely related species. The genome is littered with simple and complex repeats and the coding regions are frequently interrupted by introns with a mean size of 100 bases. Complemented with extensive transcriptome data, we define approximately 31,000 gene loci, providing unexpected insights into earlyeukaryoteevolution.Wedescribeextensiveuseofhistidinekinase-basedtwo-componentsystemsandtyrosinekinasesignaling, the presence of bacterial and plant type photoreceptors (phytochromes, cryptochrome, and phototropin) and of plant-type pentatricopeptide repeat proteins, as well as metabolic pathways, and a cell cycle control system typically found in more complex eukaryotes. Our analysis characterizes P. polycephalum as a prototypical eukaryote with features attributed to the last common ancestor of Amorphea, that is, the Amoebozoa and Opisthokonts. Specifically, the presence of tyrosine kinases inAcanthamoeba and Physarum as representatives of two distantly related subdivisions ofAmoebozoa argues against the later emergence of tyrosine kinase signaling in the opisthokont lineage and also against the acquisition by horizontal gene transferen
dc.description.versionPublished versionen
dc.format.extent109 - 125 (17) page(s)en
dc.format.mimetypeapplication/pdfen
dc.identifier.doihttps://doi.org/10.1093/gbe/evv237en
dc.identifier.issn1759-6653en
dc.identifier.issue1en
dc.identifier.urihttp://hdl.handle.net/10919/73623en
dc.identifier.volume8en
dc.language.isoenen
dc.publisherOxford University Pressen
dc.relation.urihttp://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000370971600009&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=930d57c9ac61a043676db62af60056c1en
dc.rightsCreative Commons Attribution-NonCommercial-NoDerivatives 4.0 Internationalen
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/en
dc.subjectEvolutionary Biologyen
dc.subjectGenetics & Heredityen
dc.subjectAmoebozoaen
dc.subjecttyrosine kinase receptoren
dc.subjecttwo-component systemen
dc.subjectsignalingen
dc.subjectphytochromeen
dc.subjectCELL-CYCLE CONTROLen
dc.subjectHORIZONTAL GENE-TRANSFERen
dc.subjectACTIN-FRAGMIN COMPLEXen
dc.subjectRNA EDITING FACTORSen
dc.subjectPROTEIN-KINASEen
dc.subjectDICTYOSTELIUM-DISCOIDEUMen
dc.subjectDEPENDENT KINASESen
dc.subjectSHIKIMATE PATHWAYen
dc.subjectPPR PROTEINSen
dc.subjectEVOLUTIONen
dc.titleThe Physarum polycephalum Genome Reveals Extensive Use of Prokaryotic Two-Component and Metazoan-Type Tyrosine Kinase Signalingen
dc.title.serialGenome Biology And Evolutionen
dc.typeArticle - Refereeden
dc.type.dcmitypeTexten
pubs.organisational-group/Virginia Techen
pubs.organisational-group/Virginia Tech/All T&R Facultyen
pubs.organisational-group/Virginia Tech/Faculty of Health Sciencesen
pubs.organisational-group/Virginia Tech/Scienceen
pubs.organisational-group/Virginia Tech/Science/Biological Sciencesen
pubs.organisational-group/Virginia Tech/Science/COS T&R Facultyen
pubs.organisational-group/Virginia Tech/University Distinguished Professorsen

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