Conserved rules govern genetic interaction degree across species

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dc.contributor.authorKoch, Elizabeth N
dc.contributor.authorCostanzo, Michael
dc.contributor.authorBellay, Jeremy
dc.contributor.authorDeshpande, Raamesh
dc.contributor.authorChatfield-Reed, Kate
dc.contributor.authorChua, Gordon
dc.contributor.authorD'Urso, Gennaro
dc.contributor.authorAndrews, Brenda J
dc.contributor.authorBoone, Charles
dc.contributor.authorMyers, Chad L
dc.date.accessioned2021-10-01T13:47:44Z
dc.date.available2021-10-01T13:47:44Z
dc.date.issued2012-07-02
dc.description.abstractSynthetic genetic interactions have recently been mapped on a genome scale in the budding yeast Saccharomyces cerevisiae, providing a functional view of the central processes of eukaryotic life. Currently, comprehensive genetic interaction networks have not been determined for other species, and we therefore sought to model conserved aspects of genetic interaction networks in order to enable the transfer of knowledge between species. Using a combination of physiological and evolutionary properties of genes, we built models that successfully predicted the genetic interaction degree of S. cerevisiae genes. Importantly, a model trained on S. cerevisiae gene features and degree also accurately predicted interaction degree in the fission yeast Schizosaccharomyces pombe, suggesting that many of the predictive relationships discovered in S. cerevisiae also hold in this evolutionarily distant yeast. In both species, high single mutant fitness defect, protein disorder, pleiotropy, protein-protein interaction network degree, and low expression variation were significantly predictive of genetic interaction degree. A comparison of the predicted genetic interaction degrees of S. pombe genes to the degrees of S. cerevisiae orthologs revealed functional rewiring of specific biological processes that distinguish these two species. Finally, predicted differences in genetic interaction degree were independently supported by differences in co-expression relationships of the two species. Our findings show that there are common relationships between gene properties and genetic interaction network topology in two evolutionarily distant species. This conservation allows use of the extensively mapped S. cerevisiae genetic interaction network as an orthology-independent reference to guide the study of more complex species.en_US
dc.description.urihttps://doi.org/10.1186/gb-2012-13-7-r57
dc.identifierhttps://doi.org/10.13016/zjge-74ws
dc.identifier.citationKoch, E.N., Costanzo, M., Bellay, J. et al. Conserved rules govern genetic interaction degree across species. Genome Biol 13, R57 (2012).en_US
dc.identifier.urihttp://hdl.handle.net/1903/28050
dc.language.isoen_USen_US
dc.publisherSpringer Natureen_US
dc.relation.isAvailableAtCollege of Computer, Mathematical & Physical Sciencesen_us
dc.relation.isAvailableAtDigital Repository at the University of Marylanden_us
dc.relation.isAvailableAtBiologyen_us
dc.relation.isAvailableAtUniversity of Maryland (College Park, MD)en_us
dc.subjectGene Ontologyen_US
dc.subjectGenetic Interactionen_US
dc.subjectRegression Tree Modelen_US
dc.subjectInteraction Degreeen_US
dc.subjectSynthetic Genetic Arrayen_US
dc.titleConserved rules govern genetic interaction degree across speciesen_US
dc.typeArticleen_US

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