id:"swepub:oai:DiVA.org:uu-294215"
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- Nelson, RonaldSwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för kliniska vetenskaper (KV),Department of Clinical Sciences (författare)
Variance heterogeneity in Saccharomyces cerevisiae expression data : trans-regulation and epistasis.
- Artikel/kapitelEngelska2013
Förlag, utgivningsår, omfång ...
- 2013-11-04
- Public Library of Science (PLoS),2013
- printrdacarrier
Nummerbeteckningar
- LIBRIS-ID:oai:DiVA.org:uu-294215
- https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-294215URI
- https://doi.org/10.1371/journal.pone.0079507DOI
- http://kipublications.ki.se/Default.aspx?queryparsed=id:127775578URI
- https://res.slu.se/id/publ/54926URI
Kompletterande språkuppgifter
- Språk:engelska
- Sammanfattning på:engelska
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- SwePubSwePub
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Anmärkningar
- Here, we describe the results from the first variance heterogeneity Genome Wide Association Study (VGWAS) on yeast expression data. Using this forward genetics approach, we show that the genetic regulation of gene-expression in the budding yeast, Saccharomyces cerevisiae, includes mechanisms that can lead to variance heterogeneity in the expression between genotypes. Additionally, we performed a mean effect association study (GWAS). Comparing the mean and variance heterogeneity analyses, we find that the mean expression level is under genetic regulation from a larger absolute number of loci but that a higher proportion of the variance controlling loci were trans-regulated. Both mean and variance regulating loci cluster in regulatory hotspots that affect a large number of phenotypes; a single variance-controlling locus, mapping close to DIA2, was found to be involved in more than 10% of the significant associations. It has been suggested in the literature that variance-heterogeneity between the genotypes might be due to genetic interactions. We therefore screened the multi-locus genotype-phenotype maps for several traits where multiple associations were found, for indications of epistasis. Several examples of two and three locus genetic interactions were found to involve variance-controlling loci, with reports from the literature corroborating the functional connections between the loci. By using a new analytical approach to re-analyze a powerful existing dataset, we are thus able to both provide novel insights to the genetic mechanisms involved in the regulation of gene-expression in budding yeast and experimentally validate epistasis as an important mechanism underlying genetic variance-heterogeneity between genotypes.
Ämnesord och genrebeteckningar
- NATURVETENSKAP Biologi Genetik hsv//swe
- NATURAL SCIENCES Biological Sciences Genetics hsv//eng
- Bioinformatik
- Bioinformatics
Biuppslag (personer, institutioner, konferenser, titlar ...)
- Pettersson, MatsSwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för kliniska vetenskaper (KV),Department of Clinical Sciences(Swepub:slu)49767 (författare)
- Xidan, LiSwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Karolinska Institutet,Institutionen för kliniska vetenskaper (KV),Department of Clinical Sciences(Swepub:slu)48783 (författare)
- Carlborg, ÖrjanSwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för kliniska vetenskaper (KV),Department of Clinical Sciences(Swepub:slu)48083 (författare)
- Sveriges lantbruksuniversitetInstitutionen för kliniska vetenskaper (KV) (creator_code:org_t)
- Sveriges lantbruksuniversitet
Sammanhörande titlar
- Ingår i:PLOS ONE: Public Library of Science (PLoS)8:111932-6203
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- Nelson, Ronald
- Pettersson, Mats
- Xidan, Li
- Carlborg, Örjan
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