C4 photosynthesis, a biochemical CO2-concentrating mechanism (CCM), evolved more than 60 times within the angiosperms from C3 ancestors. The genus Flaveria, which contains species demonstrating C3, C3-C4, C4-like or C4 photosynthesis, is a model for examining the molecular evolution of the C4 pathway. Work with carbonic anhydrase (CA), and C3 and C4 Flaveria congeners has added significantly to the understanding of this process. The C4 form of CA3, a b-CA, which catalyses the first reaction in the C4 pathway by hydrating atmospheric CO2 to bicarbonate in the cytosol of mesophyll cells (mcs), evolved from a chloroplastic C3 ancestor. The molecular modifications to the ancestral CA3 gene included the loss of the sequence encoding the chloroplast transit peptide, and mutations in regulatory regions that resulted in high levels of expression in the C4 mesophyll. Analyses of the CA3 proteins and regulatory elements from Flaveria photosynthetic intermediates indicated C4 biochemistry very likely evolved in a specific, stepwise manner in this genus. The details of the mechanisms involved in the molecular evolution of other C4 plant b-CAs are unknown; however, comparative genetics indicate gene duplication and neofunctionalization played significant roles as they did in Flaveria.