Evolutionary relationship of CIN genes from algae to vascular plants. The ML method was adopted to construct the phylogenetic tree. Bootstrap consensus tree inferred from ML analysis, based on the JTT matrix-based model. Bootstrap confidence values were obtained by 1,000 replicates. Branches corresponding to partitions reproduced in less than 50% bootstrap replicates are collapsed. A discrete gamma distribution was used to model evolutionary rate differences among sites (5 categories) (+G, parameter = 0.9923). The analysis involved 121 amino acid sequences, with a total of 2,184 positions. Evolutionary analyses were conducted using MEGA7.0 and RAxML v8.2. The sequences of CINs are from the following species: a charophyte, K. nitens, a moss, P. patens, and a lycophyte, S. moellendorffii and 7 vascular plant species: rice (O. sativa), Brachypodium distachyon, sorghum (S. bicolor), maize (Z. mays), Arabidopsis (A. thaliana), grape (V. vinifera), poplar (P. trichocarpa), E. grandis, and tomato (S. lycopersicum), Anabaena sp. PCC 7120 (InvA, WP_010995690.1; InvB, CAC85155.1), C. raciborskii CS-505 (Cr-1, ZP_06306902.1), C. thermalis (Ct-1, WP_015156189.1), Cyanothece sp. PCC 7822 (Cy-1, WP_013325329.1), Fischerella sp. JSC-11 (Fi-1, ZP_08987807.1), Myxosarcina sp. GI1 (My-2, WP_036476871.1), N. punctiforme ATCC 29133 (Np-1, CAD37134.1; Np-2, CAD37133.1), N. spumigena CCY9414 (Ns-1, ZP_01631199.1), Pleurocapsa sp. PCC 7319 (Pl-1, WP_019507642.1), S. cyanosphaera (Sc-1, WP_041619725.1; Sc-2, WP_015195523.1), and Synechocystis sp. (PCC 6803, Syi-6803-1). The CIN protein sequences used are listed in Supplemental Table S1.