dc.contributor.author | Kronholm, Ilkka | |
dc.contributor.author | Ormsby, Tereza | |
dc.contributor.author | McNaught, Kevin J. | |
dc.contributor.author | Selker, Eric U. | |
dc.contributor.author | Ketola, Tarmo | |
dc.date.accessioned | 2020-04-17T04:27:03Z | |
dc.date.available | 2020-04-17T04:27:03Z | |
dc.date.issued | 2020 | |
dc.identifier.citation | Kronholm, 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.other | CONVID_34504383 | |
dc.identifier.uri | https://jyx.jyu.fi/handle/123456789/68567 | |
dc.description.abstract | The 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.mimetype | application/pdf | |
dc.language | eng | |
dc.language.iso | eng | |
dc.publisher | Genetics Society of America | |
dc.relation.ispartofseries | G3: Genes, Genomes, Genetics | |
dc.rights | CC BY 4.0 | |
dc.subject.other | fungi | |
dc.subject.other | high resolution melting | |
dc.subject.other | competitive fitness | |
dc.subject.other | experimental evolution | |
dc.title | Marked Neurospora crassa Strains for Competition Experiments and Bayesian Methods for Fitness Estimates | |
dc.type | article | |
dc.identifier.urn | URN:NBN:fi:jyu-202004172790 | |
dc.contributor.laitos | Bio- ja ympäristötieteiden laitos | fi |
dc.contributor.laitos | Department of Biological and Environmental Science | en |
dc.contributor.oppiaine | Ekologia ja evoluutiobiologia | fi |
dc.contributor.oppiaine | Biologisten vuorovaikutusten huippututkimusyksikkö | fi |
dc.contributor.oppiaine | Ecology and Evolutionary Biology | en |
dc.contributor.oppiaine | Centre of Excellence in Biological Interactions Research | en |
dc.type.uri | http://purl.org/eprint/type/JournalArticle | |
dc.type.coar | http://purl.org/coar/resource_type/c_2df8fbb1 | |
dc.description.reviewstatus | peerReviewed | |
dc.format.pagerange | 1261-1270 | |
dc.relation.issn | 2160-1836 | |
dc.relation.numberinseries | 4 | |
dc.relation.volume | 10 | |
dc.type.version | publishedVersion | |
dc.rights.copyright | © 2020 Kronholm et al. | |
dc.rights.accesslevel | openAccess | fi |
dc.relation.grantnumber | 274769 | |
dc.relation.grantnumber | 278751 | |
dc.subject.yso | sienet | |
dc.subject.yso | evoluutiobiologia | |
dc.format.content | fulltext | |
jyx.subject.uri | http://www.yso.fi/onto/yso/p90 | |
jyx.subject.uri | http://www.yso.fi/onto/yso/p21944 | |
dc.rights.url | https://creativecommons.org/licenses/by/4.0/ | |
dc.relation.dataset | http://urn.fi/URN:NBN:fi:jyu-201907113617 | |
dc.relation.doi | 10.1534/g3.119.400632 | |
dc.relation.funder | Research Council of Finland | en |
dc.relation.funder | Research Council of Finland | en |
dc.relation.funder | Suomen Akatemia | fi |
dc.relation.funder | Suomen Akatemia | fi |
jyx.fundingprogram | Postdoctoral Researcher, AoF | en |
jyx.fundingprogram | Academy Research Fellow, AoF | en |
jyx.fundingprogram | Tutkijatohtori, SA | fi |
jyx.fundingprogram | Akatemiatutkija, SA | fi |
jyx.fundinginformation | This 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.okm | A1 | |