The domestication of all major crop plants occurred during a brief period i
n human history about 10,000 years ago(1). During this time, ancient agricu
lturalists selected seed of preferred forms and culled out seed of undesira
ble types to produce each subsequent generation. Consequently favoured alle
les at genes controlling traits of interest increased in frequency, ultimat
ely reaching fixation. When selection is strong, domestication has the pote
ntial to drastically reduce genetic diversity in a crop. To understand the
impact of selection during maize domestication, we examined nucleotide poly
morphism in teosinte branched1, a gene involved in maize evolution(2). Here
we show that the effects of selection were limited to the gene's regulator
y region and cannot be detected in the protein-coding region. Although sele
ction was apparently strong, high rates of recombination and a prolonged do
mestication period probably limited its effects. Our results help to explai
n why maize is such a variable crop. They also suggest that maize domestica
tion required hundreds of years, and confirm precious evidence that maize w
as domesticated from Balsas teosinte of southwestern Mexico.