Wheat domestication was a milestone in the rise of agrarian societies in the Fertile Crescent. As opposed to the freely dispersing seeds of its allo-tetraploid progenitor wild emmer, the hallmark trait of domesticated wheat is intact, harvestable spikes. During domestication, wheat acquired recessive loss-of-function mutations in the Brittle Rachis 1 genes, both in the A genome (BTR1-A) and B genome (BTR1-B). In this study, we probe the geographical provenance of these mutations via haplotype analyses of a collection of wild and domesticated accessions. The precursor of the domesticated haplotype of BTR1-A was detected in 32% of the wild accessions gathered throughout the Levant, from central Israel to central Turkey. In contrast, the precursor of the domesticated haplotype of BTR1-B, which carries a distinct 11 bp deletion in the promoter region, was found in only 10% of the tested wild accessions, all from the Southern Levant. Moreover, the identification of a single Southern Levant wild emmer accession that carried the progenitor haplotypes for both BTR1-A and BTR1-B genes suggests that that the first domesticated emmer appeared there, contrary to the widely held view that the Northern Levant was the center of wheat domestication. Later, domesticated emmer spread out to Northern Levant, capturing local genetic diversity along the way while maintaining the btr1-A/btr1-B mutations.