Näytä suppeat kuvailutiedot

dc.contributor.authorKronholm, Ilkka
dc.contributor.authorOrmsby, Tereza
dc.contributor.authorMcNaught, Kevin J.
dc.contributor.authorSelker, Eric U.
dc.contributor.authorKetola, Tarmo
dc.date.accessioned2020-04-17T04:27:03Z
dc.date.available2020-04-17T04:27:03Z
dc.date.issued2020
dc.identifier.citationKronholm, I., Ormsby, T., McNaught, K. J., Selker, E. U., & Ketola, T. (2020). Marked Neurospora crassa Strains for Competition Experiments and Bayesian Methods for Fitness Estimates. <i>G3: Genes, Genomes, Genetics</i>, <i>10</i>(4), 1261-1270. <a href="https://doi.org/10.1534/g3.119.400632" target="_blank">https://doi.org/10.1534/g3.119.400632</a>
dc.identifier.otherCONVID_34504383
dc.identifier.urihttps://jyx.jyu.fi/handle/123456789/68567
dc.description.abstractThe filamentous fungus Neurospora crassa, a model microbial eukaryote, has a life cycle with many features that make it suitable for studying experimental evolution. However, it has lacked a general tool for estimating relative fitness of different strains in competition experiments. To remedy this need, we constructed N. crassa strains that contain a modified csr-1 locus and developed an assay for detecting the proportion of the marked strain using a post PCR high resolution melting assay. DNA extraction from spore samples can be performed on 96-well plates, followed by a PCR step, which allows many samples to be processed with ease. Furthermore, we suggest a Bayesian approach for estimating relative fitness from competition experiments that takes into account the uncertainty in measured strain proportions. We show that there is a fitness effect of the mating type locus, as mating type mat a has a higher competitive fitness than mat A. The csr-1∗ marker also has a small fitness effect, but is still a suitable marker for competition experiments. As a proof of concept, we estimate the fitness effect of the qde-2 mutation, a gene in the RNA interference pathway, and show that its competitive fitness is lower than what would be expected from its mycelial growth rate alone.en
dc.format.mimetypeapplication/pdf
dc.languageeng
dc.language.isoeng
dc.publisherGenetics Society of America
dc.relation.ispartofseriesG3: Genes, Genomes, Genetics
dc.rightsCC BY 4.0
dc.subject.otherfungi
dc.subject.otherhigh resolution melting
dc.subject.othercompetitive fitness
dc.subject.otherexperimental evolution
dc.titleMarked Neurospora crassa Strains for Competition Experiments and Bayesian Methods for Fitness Estimates
dc.typearticle
dc.identifier.urnURN:NBN:fi:jyu-202004172790
dc.contributor.laitosBio- ja ympäristötieteiden laitosfi
dc.contributor.laitosDepartment of Biological and Environmental Scienceen
dc.contributor.oppiaineEkologia ja evoluutiobiologiafi
dc.contributor.oppiaineBiologisten vuorovaikutusten huippututkimusyksikköfi
dc.contributor.oppiaineEcology and Evolutionary Biologyen
dc.contributor.oppiaineCentre of Excellence in Biological Interactions Researchen
dc.type.urihttp://purl.org/eprint/type/JournalArticle
dc.type.coarhttp://purl.org/coar/resource_type/c_2df8fbb1
dc.description.reviewstatuspeerReviewed
dc.format.pagerange1261-1270
dc.relation.issn2160-1836
dc.relation.numberinseries4
dc.relation.volume10
dc.type.versionpublishedVersion
dc.rights.copyright© 2020 Kronholm et al.
dc.rights.accesslevelopenAccessfi
dc.relation.grantnumber274769
dc.relation.grantnumber278751
dc.subject.ysosienet
dc.subject.ysoevoluutiobiologia
dc.format.contentfulltext
jyx.subject.urihttp://www.yso.fi/onto/yso/p90
jyx.subject.urihttp://www.yso.fi/onto/yso/p21944
dc.rights.urlhttps://creativecommons.org/licenses/by/4.0/
dc.relation.datasethttp://urn.fi/URN:NBN:fi:jyu-201907113617
dc.relation.doi10.1534/g3.119.400632
dc.relation.funderResearch Council of Finlanden
dc.relation.funderResearch Council of Finlanden
dc.relation.funderSuomen Akatemiafi
dc.relation.funderSuomen Akatemiafi
jyx.fundingprogramPostdoctoral Researcher, AoFen
jyx.fundingprogramAcademy Research Fellow, AoFen
jyx.fundingprogramTutkijatohtori, SAfi
jyx.fundingprogramAkatemiatutkija, SAfi
jyx.fundinginformationThis study was supported by the Academy of Finland grant no. 274769 to IK and no. 278751 to TK. KJM was supported by National Institutes of Health Training Grant: T32 HD007348. EUS was supported by NIH grants GM093061 and GM127142.
dc.type.okmA1


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