Table II. List of candidate genes that encode proteins predicted to localize at the chloroplast, selected from 63 genes found to be directly localized to, or be in LD with, the associated SNPs identified in the GWAS.

Gene	SNP	Description
AT1G21060	In LD with 7384441	Unknown protein
AT1G21065	In LD with 7384441	Unknown protein
AT1G74180	Directly localized to 27899243	Receptor-like protein14, located in chloroplast
AT1G74440	27979318; 27981096	Unknown protein
AT2G26280	Directly localized to 11189311	CID7, CTC-interacting domain7, functions in DNA binding and mismatch repair
AT3G05790	In LD with 1750265; 1750573; 1750946; 1751042	Lon-protease4, for degradation of abnormal, damaged, and unstable protein
AT3G05810	In LD with 1750265; 1750573; 1750946; 1751042	Chromatin assembly/disassembly protein
AT4G21770	In LD with 11561583	Pseudouridine synthase, involved in RNA modification
AT5G43390	Directly localized to 17424158	Uncharacterized conserved protein
AT5G64930	In LD with 25956134; 25963073; 25967700; 25968943; 25975808	Regulator of expression of pathogenesis-related genes, participates in signal transduction pathways involved in plant defense
AT5G64940	In LD with 25956134; 25963073; 25967700; 25968943; 25975808	Oxidative stress-related ABC1-like (for ATP-binding cassette) protein
AT5G65000	Directly localized to 25967700	Nucleotide-sugar transporter family protein/polynucleotidyl transferase
AT5G65020	In LD with 25956134; 25963073; 25967700; 25968943; 25975808	Annexin2, calcium-binding protein