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| Status |
Public on Jul 21, 2014 |
| Title |
Phenotypic Convergence in Bacterial Adaptive Evolution to Ethanol Stress |
| Organism |
Escherichia coli |
| Experiment type |
Expression profiling by genome tiling array
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| Summary |
Although the relationship between phenotypic plasticity and evolutionary dynamics has attracted large interest, very little is known about the contribution of phenotypic plasticity to adaptive evolution. In this study, we analyzed phenotypic and genotypic changes in E. coli cells during adaptive evolution to ethanol stress. To quantify the phenotypic changes, transcriptome analyses were performed.
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| Overall design |
We previously obtained 6 independently evolved ethanol tolerant E. coli strains, strains A through F, by culturing cells under 5% ethanol stress for about 1000 generations and found a significantly larger growth rate than the parent strains (Horinouchi et al, 2010, PMID: 20955615). To elucidate the phenotypic changes that occurred during adaptive evolution, we quantified the time-series of the expression changes by microarray analysis. Starting from frozen stocks obtained at 6 time points (0, 384, 744, 1224, 1824 and 2496 hours) in laboratory evolution, cells were cultured under 5% ethanol stress, and mRNA samples were obtained in the exponential growth phase for microarray analysis.
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| Contributor(s) |
Horinouchi T, Suzuki S, Furusawa C |
| Citation(s) |
26334309 |
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| Submission date |
Jul 03, 2014 |
| Last update date |
Sep 20, 2017 |
| Contact name |
Takaaki Horinouchi |
| E-mail(s) |
takaaki_horinouchi@riken.jp
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| Organization name |
Quantitative biology center, RIKEN
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| Street address |
6-2-3, Furuedai
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| City |
Suita |
| ZIP/Postal code |
565-0874 |
| Country |
Japan |
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| Platforms (1) |
| GPL13336 |
Affymetrix Escherichia coli full sequence array (EcFS) [EcFS_1, EcFS_2, and EcFS_3] |
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| Samples (31)
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| GSM1425001 |
Evolved strain A, time point 3 |
| GSM1425002 |
Evolved strain A, time point 4 |
| GSM1425003 |
Evolved strain A, time point 5 |
| GSM1425004 |
Evolved strain B, time point 1 |
| GSM1425005 |
Evolved strain B, time point 2 |
| GSM1425006 |
Evolved strain B, time point 3 |
| GSM1425007 |
Evolved strain B, time point 4 |
| GSM1425008 |
Evolved strain B, time point 5 |
| GSM1425009 |
Evolved strain C, time point 1 |
| GSM1425010 |
Evolved strain C, time point 2 |
| GSM1425011 |
Evolved strain C, time point 3 |
| GSM1425012 |
Evolved strain C, time point 4 |
| GSM1425013 |
Evolved strain C, time point 5 |
| GSM1425014 |
Evolved strain D, time point 1 |
| GSM1425015 |
Evolved strain D, time point 2 |
| GSM1425016 |
Evolved strain D, time point 3 |
| GSM1425017 |
Evolved strain D, time point 4 |
| GSM1425018 |
Evolved strain D, time point 5 |
| GSM1425019 |
Evolved strain E, time point 1 |
| GSM1425020 |
Evolved strain E, time point 2 |
| GSM1425021 |
Evolved strain E, time point 3 |
| GSM1425022 |
Evolved strain E, time point 4 |
| GSM1425023 |
Evolved strain E, time point 5 |
| GSM1425024 |
Evolved strain F, time point 1 |
| GSM1425025 |
Evolved strain F, time point 2 |
| GSM1425026 |
Evolved strain F, time point 3 |
| GSM1425027 |
Evolved strain F, time point 4 |
| GSM1425028 |
Evolved strain F, time point 5 |
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| Relations |
| BioProject |
PRJNA254210 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE59050.txt.gz |
146.0 Kb |
(ftp)(http) |
TXT |
| GSE59050_RAW.tar |
1.4 Gb |
(http)(custom) |
TAR (of CEL) |
| Processed data are available on Series record |
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