Chlamydomonas reinhardtii CC-1690 was grown in bioreactors. When the cells reached a non-stationary density, the acetate supply was stopped and the medium was kept at 25°C (control) or heated to 35 °C and 40 °C. Additionally to a preheat sample, four further samples were taken as triplicates after 2h, 4h, 8h, and 24h of heat treatment (nopump samples). The samples were analysed with NGS. In [Zhang et al 2022](https://doi.org/10.1038/s42003-022-03359-z) samples were taken at the same time points for 35°C and 40°C but with constant nutrient supply (TAP samples).
Chlamydomonas reinhardtii CC-1690 was grown in bioreactors. When the cells reached a non-stationary density, the acetate supply was stopped and the medium was kept at 25°C (control) or heated to 35 °C and 40 °C. Additionally to a preheat sample, four further samples were taken as triplicates after 2h, 4h, 8h, and 24h of heat treatment (nopump samples). The samples were analysed with NGS. In [Zhang et al 2022](https://doi.org/10.1038/s42003-022-03359-z) samples were taken at the same time points for 35°C and 40°C but with constant nutrient supply (TAP samples).
_Table 1: Sampling schema for Transcriptomics analysis. Three biological replicates were measured. An x indicates triplicates measured at the respective time points._
|condition|-18 h (preheat)|2 h|4 h|8 h|24 h|reference|
|---|--|--|--|--|--|--|
|25°C TAP|x|x| | |x|[Zhang et al. 2023](https://doi.org/10.1101/2022.12.04.519034)|
|35°C TAP|x|x|x|x|x|[Zhang et al. 2022](https://doi.org/10.1038/s42003-022-03359-z)|
|40°C TAP|x|x|x|x|x|[Zhang et al. 2022](https://doi.org/10.1038/s42003-022-03359-z)|
|25°C nopump|x|x|x|x|x|[Zhang et al. 2023](https://doi.org/10.1101/2022.12.04.519034)|
|35°C nopump|x|x|x|x|x|[Zhang et al. 2023](https://doi.org/10.1101/2022.12.04.519034)|
|40°C nopump|x|x|x|x|x|[Zhang et al. 2023](https://doi.org/10.1101/2022.12.04.519034)|
|25°C TAP|x|x| | |x|[Zhang et al. 2023](https://doi.org/10.1101/2022.12.04.519034)|
|35°C TAP|x|x|x|x|x|[Zhang et al. 2022](https://doi.org/10.1038/s42003-022-03359-z)|
|40°C TAP|x|x|x|x|x|[Zhang et al. 2022](https://doi.org/10.1038/s42003-022-03359-z)|
|25°C nopump|x|x|x|x|x|[Zhang et al. 2023](https://doi.org/10.1101/2022.12.04.519034)|
|35°C nopump|x|x|x|x|x|[Zhang et al. 2023](https://doi.org/10.1101/2022.12.04.519034)|
|40°C nopump|x|x|x|x|x|[Zhang et al. 2023](https://doi.org/10.1101/2022.12.04.519034)|
Comparative analysis of both experiments were performed within this ARC. These include
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@@ -33,22 +33,29 @@ References:
- Analysis:
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- Benedikt Venn, Lukas Weil, Kevin Schneider, David Zimmer & Timo Mühlhaus. (2022). fslaborg/FSharp.Stats. Zenodo. https://doi.org/10.5281/zenodo.6337056
- Kevin Schneider, Lukas Weil, David Zimmer, Benedikt Venn & Timo Mühlhaus. (2022). CSBiology/BioFSharp. Zenodo. https://doi.org/10.5281/zenodo.6335372
- Kevin Schneider, Lukas Weil, David Zimmer, Benedikt Venn & Timo Mühlhaus. (2022). CSBiology/BioFSharp. Zenodo. https://doi.org/10.5281/zenodo.6335372
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- BBDuk: https://sourceforge.net/projects/bbmap/
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- Visualization:
- Schneider K, Venn B and Mühlhaus T. Plotly.NET: A fully featured charting library for .NET programming languages [version 1; peer review: awaiting peer review]. F1000Research 2022, 11:1094 (https://doi.org/10.12688/f1000research.123971.1
- Schneider K, Venn B and Mühlhaus T. Plotly.NET: A fully featured charting library for .NET programming languages [version 1; peer review: awaiting peer review]. F1000Research 2022, 11:1094 (https://doi.org/10.12688/f1000research.123971.1
- Data and annotation:
- Merchant, S. S., Prochnik, S. E., Vallon, O., Harris, E. H., Karpowicz, S. J., Witman, G. B., … Grossman, A. R. (2007). The Chlamydomonas Genome Reveals the Evolution of Key Animal and Plant Functions. Science, 318(5848), 245–250. https://doi.org/10.1126/science.1143609
- Zhang, N., Mattoon, E.M., McHargue, W. et al. Systems-wide analysis revealed shared and unique responses to moderate and acute high temperatures in the green alga Chlamydomonas reinhardtii. Commun Biol 5, 460 (2022). https://doi.org/10.1038/s42003-022-03359-z
- Merchant, S. S., Prochnik, S. E., Vallon, O., Harris, E. H., Karpowicz, S. J., Witman, G. B., … Grossman, A. R. (2007). The Chlamydomonas Genome Reveals the Evolution of Key Animal and Plant Functions. Science, 318(5848), 245–250. https://doi.org/10.1126/science.1143609
- Zhang, N., Mattoon, E.M., McHargue, W. et al. Systems-wide analysis revealed shared and unique responses to moderate and acute high temperatures in the green alga Chlamydomonas reinhardtii. Commun Biol 5, 460 (2022). https://doi.org/10.1038/s42003-022-03359-z
