“…Upregulated genes in limb IMM and MAT included several HOX genes, DLX5, TBX5, and SHOX2, all of which are known to have a role during limb morphogenesis (Figures 5A,B, labelled green in GRN; Agarwal et al, 2003;Koziel et al, 2005;Yu et al, 2007;Kruger and Kappen 2010;Vieux-Rochas et al, 2013;Tan et al, 2018;Yamamoto et al, 2019). The other portion of the IMM GRN included genes upregulated in the head that are involved in neural crest related processes, such as ZIC1, SIX1, SIX4, PAX7, ID1, GATA2, GATA3, and MSX2, as identified by gene ontology analyses and previous studies (Figure 5A, labelled orange in the GRN; Han et al, 2007;Murdoch et al, 2012;Simões-Costa and Bronner 2013;Garcez et al, 2014;Plouhinec et al, 2014;Simões-Costa and Bronner 2015;Wu et al, 2019;Seal and Monsoro-Burq 2020). Similar to the IMM GRN, SIX1, and SIX4 were also upregulated in the head in one portion of the MAT GRN.…”