Supporting information
Table S1. List of primers used in this study.
Table S2. The field and SensyPAM phenotype of the reciprocal hybrids.
Table S3. SensyPAM phenotype of the B1K.
Table S4. The SNP diversity in 18Kb chloroplast region as determined by long-range Nanopore sequencing for selected B1K lines.
Table S5. Total 13,786 SNP informative SNP markers for GWAS analysis.
Table S6. The GWAS results for clock traits in B1K panel.
Table S7. The SNP variation of chloroplastic RpoC1 andRpoC2 region among 75 B1K accessions.
Table S8. The Sensypam clock phenotype and genotype at the chr3H_67267835 (150Kb from GIGANTEA) in two reciprocal segregating F2 populations
Table S9. ANOVA test for cytonuclear interactions underlying clock trait variation between chr3H_67267835 and plasmotype in reciprocal F2 populations.
Table S10. SensyPAM phenotype of the rpoC1 mutant and WT plants.
Table S11. SensyPAM phenotype of the rpoC1 mutant, OE-rpoC1-09, OE-rpoC1-50 and WT plants.
Figure S1. Daily temperature during the high and ambient temperature treatments (HT and AT, respectively) field experiments. We achieved high temperature treatment (HT) by covering half of the insect-proof with nylons and heating with electric heathers (3KW; Galon fans and pumps Ltd, Nehora, Israel). The second half of the nethouse remained with only net walls and ventilated with a large fan to take out the hot air for the ambient temperature treatment (AT).
Figure S2. Schematic diagram showing the workflow utilized for selecting informative SNPs for the GWAS analysis.
Figure S3. Schematic diagram showing the OE-RpoC1 cloning strategy. Different fragment were taken from diverse vector construct using BsaI restriction enzymes in binary vector pICH86966 by golden gate assembly.
Figure S4. (a) Physical map of DOC3.2 loci and their coordinates. Significant marker and GI gene were shown in their respective positions. (b) Significant marker (Chr3H_67267835) in DOC3.2 loci showing the amplitude phenotype in short day (SD) and long day (LD) in changing environment.
Figure S5. Statistics analysis of rpoC1 , OE lines and WT plants. (a) Each pair student’s t-test (b) one way ANOVA test.