Fig. 6: The Lna1 locus was under selection.

a Proportion of lines with a 5-bp insertion in teosinte, landrace and maize inbred lines. b Phylogenetic analysis of maize and teosinte lines with the 5-bp insertion. The maize lines with 5-bp insertions share a single common ancestor. The teosinte lines with the 5-bp insertion are highlighted in red. c DNA diversity analysis for Tu1 from a 1.4-kb promoter fragment harboring the 5-bp insertion. Significant selection signals (Tajima’s D = −1.8303, P < 0.05) were present only in the promoter fragment (601-−1000 bp) with the 5-bp insertion in landraces. However, no selection was present in other sequenced promoter regions (200−600 bp and 1001−1400 bp) in landraces. Tajima’s D and P values for the 1.4-kb fragment are shown for the landraces. Nonsignificant selection signals were detected in the maize inbred lines above the 1.4-kb promoter fragment of Tu1. The red triangle on the x-axis represents the 5 bp insertion present in the promoter of Tu1. Source data are provided as a Source Data file.