diff --git a/README.md b/README.md index 810e09aa746196142e53d271536c29f4a9ac4ee5..5785ce6cd7cfa1a57c06546ac8f3faefaeebdc1f 100644 --- a/README.md +++ b/README.md @@ -1,18 +1,18 @@ # Carbon Availability Transcriptomics -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). +<i>Chlamydomonas reinhardtii</i> CC-1690 was grown in bioreactors. When the cells reached a non-stationary density (2E+6 cells / ml), 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)| +|condition|-18 h<br>(preheat)|2 h|4 h|8 h|24 h|reference|notes| +|---|--|--|--|--|--|--|--| +|25°C, constant-acetate|x|x| | |x|[Zhang et al. 2023](https://doi.org/10.1093/jxb/erad405)|additional time points at<br>0h, 0.5h, 1h, 26h, and 48h | +|35°C, constant-acetate|x|x|x|x|x|[Zhang et al. 2022](https://doi.org/10.1038/s42003-022-03359-z)|--| +|40°C, constant-acetate|x|x|x|x|x|[Zhang et al. 2022](https://doi.org/10.1038/s42003-022-03359-z)|--| +|25°C, acetate-depleting|x|x|x|x|x|[Zhang et al. 2023](https://doi.org/10.1093/jxb/erad405)|--| +|35°C, acetate-depleting|x|x|x|x|x|[Zhang et al. 2023](https://doi.org/10.1093/jxb/erad405)|--| +|40°C, acetate-depleting|x|x|x|x|x|[Zhang et al. 2023](https://doi.org/10.1093/jxb/erad405)|--| Comparative analysis of both experiments were performed within this ARC. These include