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| Status |
Public on Apr 01, 2009 |
| Title |
Comparative analysis of gene expression in two yeast species and their interspecific hybrid |
| Platform organisms |
Saccharomyces cerevisiae; Saccharomyces paradoxus |
| Sample organisms |
Saccharomyces cerevisiae; Saccharomyces paradoxus; Saccharomyces cerevisiae x Saccharomyces paradoxus |
| Experiment type |
Expression profiling by array
|
| Summary |
We compared the genome-wide expression profiles of two yeast species (S. cerevisiae and S. paradoxus) using a two-species microarray that contain species-specific probes and can thus measure the expression levels of the two species simultaneosly. In Addition, we used the array to measure expression levels of the interspecific hybrid of these yeast species, while discriminating between the alleles that correspond to the two parental species. Comparison of the between-species differences and the within-hybrid allele differences allows us to separate cis from trans effects. Also, comparison of the overall expression in the hybrids (both alleles) with their parental species allows us to analyze hybrid over-expression and under-expression.
Keywords: comparative transcriptome analysis, hybrid gene expression
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| Overall design |
We analyzed four conditions (rich media, glycerol, heat shock and TSA). For each conditions, we hybridized the pooled sample of both species dyed with cy3/cy5 and a sample of the hybrid dyed with the alternate fluorescent color. Each experiment was done with 2 biological repeats, except for the rich media experiments done with 4 biological repeats.
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| Contributor(s) |
Tirosh I, Reikhav S |
| Citation(s) |
19407207 |
| Submission date |
Feb 04, 2009 |
| Last update date |
Sep 20, 2012 |
| Contact name |
Itay Tirosh |
| E-mail(s) |
itay.tirosh@weizmann.ac.il
|
| Organization name |
Weizmann Institute of Science
|
| Department |
Molecular genetics
|
| Lab |
Naama Barkai
|
| Street address |
herzl
|
| City |
Rehovot |
| ZIP/Postal code |
76100 |
| Country |
Israel |
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| Platforms (1) |
| GPL8157 |
Yeast two-species array for S.cerevisiae and S.paradoxus (2 X 105K) |
|
| Samples (20)
|
| GSM367220 |
S.cerevisiae and S.paradoxus at rich media (SC) repeat #1 Cy3 |
| GSM367221 |
S.cerevisiae and S.paradoxus at rich media (SC) repeat #2 Cy5 |
| GSM367222 |
S.cerevisiae and S.paradoxus at rich media (SC) repeat #3 Cy3 |
| GSM367223 |
S.cerevisiae and S.paradoxus at rich media (SC) repeat #4 Cy5 |
| GSM367224 |
hybrid at rich media (SC) repeat #1 Cy5 |
| GSM367225 |
hybrid at rich media (SC) repeat #2 Cy3 |
| GSM367226 |
hybrid at rich media (SC) repeat #3 Cy5 |
| GSM367227 |
hybrid at rich media (SC) repeat #4 Cy3 |
| GSM367228 |
S.cerevisiae and S.paradoxus at glycerol repeat #1 Cy3 |
| GSM367229 |
S.cerevisiae and S.paradoxus at glycerol repeat #2 Cy5 |
| GSM367230 |
hybrid at glycerol repeat #1 Cy5 |
| GSM367231 |
hybrid at glycerol repeat #2 Cy3 |
| GSM367232 |
S.cerevisiae and S.paradoxus at heatshock (35C) repeat #1 Cy3 |
| GSM367233 |
S.cerevisiae and S.paradoxus at heatshock (35C) repeat #2 Cy5 |
| GSM367234 |
hybrid at heatshock (35C) repeat #1 Cy5 |
| GSM367235 |
hybrid at heatshock (35C) repeat #2 Cy3 |
| GSM367236 |
S.cerevisiae and S.paradoxus with TSA repeat #1 Cy3 |
| GSM367237 |
S.cerevisiae and S.paradoxus with TSA repeat #2 Cy5 |
| GSM367238 |
hybrid at with TSA repeat #1 Cy5 |
| GSM367239 |
hybrid at with TSA repeat #2 Cy3 |
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| Relations |
| BioProject |
PRJNA112093 |
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