Supplementary information
i. Supplemental Figure and Table legends
Figure S1. Rosette diameter for IT (red columns), it:cbf123 (light red columns), SW (blue columns), sw:cbf2(lighter blue columns), and sw:cbf123 (lightest blue columns) plants after 32 days of growth in LLW. Mean values ± standard deviations (n = 3).
Figure S2. Relative transcript abundance of (a) KIN2,(b) COR15B, and (c) AT1G21790 in leaves of IT (red columns), it:cbf123 (light red columns), SW (blue columns), and sw:cbf123 (light blue columns) under LLW and HLC. All values were normalized to expression levels in IT under LLW for the relevant gene. Mean values ± standard deviations (n = 3); groups that share the same letters are not considered statistically different, and groups that do not share the same letters are considered statistically different based on one-way ANOVA and post-hoc Tukey–Kramer HSD tests.
Table S1. The 1992 genes downregulated in SW under HLC (minimum fold change of 2 and adjusted P -value of < 0.01).
Table S2. The 2073 genes downregulated in IT under HLC (minimum fold change of 2 and adjusted P -value of < 0.01).
Table S3. The 2176 genes upregulated in SW under HLC (minimum fold change of 2 and adjusted P -value of < 0.01).
Table S4. The 2086 genes upregulated in IT under HLC (minimum fold change of 2 and adjusted P -value of < 0.01).
Table S5. The 668 genes downregulated in both IT and SW under HLC (minimum fold change of 2 and adjusted P -value of < 0.01).
Table S6. The 753 genes upregulated in both IT and SW under HLC (minimum fold change of 2 and adjusted P -value of < 0.01).
Table S7. The 356 genes that co-clustered into the cluster labeled “HLC-Specific Group 1” and “HLC-Specific Group 2” in Fig. 3a.
Table S8. PANTHER Overrepresentation Test (Released 2019-07-11) on GO Ontology database (Released 2019-12-09) for genes upregulated in both IT and SW under HLC.
Table S9. PANTHER Overrepresentation Test (Released 2019-07-11) on GO Ontology database (Released 2019-12-09) for genes downregulated in both IT and SW under HLC.
Table S10. The 1405 genes downregulated specifically in IT under HLC (minimum fold change of 2 and adjusted P -value of < 0.01), 1323 genes upregulated specifically in HLC-grown IT plants (minimum fold change of 2 and adjusted P -value of < 0.01).
Table S11. PANTHER Overrepresentation Test (Released 2019-07-11) on GO Ontology database (Released 2019-12-09) for genes downregulated specifically in HLC-grown IT.
Table S12. Genes downregulated specifically in IT under HLC from four photosynthesis-related GO categories enriched in PANTHER Overrepresentation Test (photosynthesis (GO:0015979), photosynthesis, light reaction (GO:0019684), photosynthesis, light harvesting (GO:0009765), photosynthesis, light harvesting in photosystem I (GO:0009768) genes).
Table S13. The 1413 genes upregulated specifically in SW under HLC (minimum fold change of 2 and adjusted P -value of < 0.01) and the 1324 genes downregulated specifically in HLC-grown SW plants (minimum fold change of 2 and adjusted P -value of < 0.01).
Table S14. PANTHER Overrepresentation Test (Released 2019-07-11) on GO Ontology database (Released 2019-12-09) for genes upregulated specifically in SW under HLC .
Table S15. PANTHER Overrepresentation Test for genes upregulated specifically in SW under HLC (Photosynthesis (GO:0015979), plastid organization (GO:0009657), vitamin metabolic process (GO:0006766) genes).
Table S16. Comparison of transcriptomic data from four growth conditions for both ecotypes to genes reported to be over-expressed under low light and warm temperatures by Park, Gilmour, Grumet, & Thomashow (2018).
Table S17. Genes previously reported to be CBF-regulated—Comparison of transcriptomic data from four growth conditions for both ecotypes to genes identified as having diminished induction in it:cbf123 and sw:cbf123 mutants following a 24-hour 4°C treatment by Park, Gilmour, Grumet, & Thomashow (2018).