(A) Matrix of functional allele calls for 2088 genes among 1135 Arabidopsis ecotypes. LoF alleles are those with less than 90% predicted protein product and are classified with a ‘1’. Function alleles are classified with a ‘0’. (B) Associations between functional allele state and drought timing and flowering time for 2088 genes. Includes gene, estimate for logistic regression model testing the association between functional allele state and drought timing (Drought_timing_B) and flowering time (flw_10_B) after accounting for population structure, and the P-value of these estimates before Bonferroni correction for multiple testing (Drought_timing_p and flw_10_p). These values are also reported for LoF associations with latitude (lat_B, lat_p) and minimum temperature (temp_B, temp_p). (C) Selection statistics for 2088 genes. Includes PN/PS (pnps), DN/DS (dnds), frequency, number of LoF alleles, and average frequency per LoF allele. (D). Survey of sample genes with previously identified LoF alleles. (E) LoF alleles identified in previously studied genes (those surveyed in Table D). (F) Flowering time in T-DNA knockout lines. Flowering time (lsmean and standard error) of wild-type genomic background and T-DNA knockout lines of a sample of candidate genes in which LoF alleles are associated with spring drought environments or later flowering time phenotypes in Arabidopsis ecotypes.