Fig. 5: Fractional occupancies of genes and alleles under combination of reference scenarios 3 and 5 and 6.b. | Nature Communications

Fig. 5: Fractional occupancies of genes and alleles under combination of reference scenarios 3 and 5 and 6.b.

From: Unifying framework explaining how parental regulatory divergence can drive gene expression in hybrids and allopolyploids

Fig. 5

A, B Combination of scenarios 3 and 5, i.e. single specific site per chromosome with negligible concentration of free TFs and cell volumes of parental A twice as large as the parental B. C, D Different combination of scenarios 3 and 5, i.e. single specific site per chromosome with significant concentration of TFs in a free state and cell volumes of parental A twice as large as the parental B. E, F Scenario 6.b, i.e. single specific site per chromosome, negligible concentration of free TFs and 10 times higher euchromatic ratio in species B with adaptation through modification of TF molecules. A, C, and E Fractional occupancies of specific binding sites (of A- and/or B-origin) weighted by their genomic dosages (note that A-derived binding sites have twice higher absolute numbers in AA species than in AB hybrid and identical to AAB triploid). X- and \(y\)-axes are analogous to Fig. 1c. Line colours, styles and symbols correspond to the types of individuals and strength of cross regulation analogously to Fig.3. B, D, F Comparison of fractional occupancies of alleles in hybrids (\({f}_{{{\rm{H}}}}^{{{\rm{A}}}}\) and \({f}_{{{\rm{H}}}}^{{{\rm{B}}}}\), respectively) relative to occupancies of their homologous alleles in parents (\({f}_{{{\rm{A}}}}\) and \({f}_{{{\rm{B}}}}\), respectively). X-axis shows the \({\log }_{2}({{f}_{{{\rm{H}}}}^{{{\rm{A}}}}/f}_{{{\rm{A}}}})\) ratio of Ahyb allele’s occupancy in hybrid relative to that in parental species A, \(y\)-axis shows the \({\log }_{2}({{f}_{{{\rm{H}}}}^{{{\rm{B}}}}/f}_{{{\rm{B}}}})\) ratio of Bhyb allele’s occupancy in hybrid relative to that in parental species B. Line colours and styles are identical to A, C, and E. Note: Square and diamond symbols along the lines provide the link between A, C, E and B, D, F by showing two reference values of \({\log }_{2}({{f}}_{{{\rm{A}}}}/{{f}}_{{{\rm{B}}}})\) expression divergence between parental species; square: \({\log }_{2}({{f}}_{{{\rm{A}}}}/{{f}}_{{{\rm{B}}}})=-1\) and diamond: \({\log }_{2}({{f}}_{{{\rm{A}}}}/{{f}}_{{{\rm{B}}}})=1\).

Back to article page