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Seedling morphology plays an important role in plant breeding via marker-assisted selection.The tomato (Solanum lycopersicum) mutant, anthocyanin absent (aa), presents a green hypocotyl during the seedling stage.This trait has been utilized in marker-assisted selection of male sterile 10 (ms 10) at the seedling stage because their corresponding loci are closely linked on chromosome 2.However, the genetic basis of aa has not been ascertained to date.