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. 2012 Jul 20;7(7):e41027. doi: 10.1371/journal.pone.0041027

Table 3. Summary of segregation patterns at weak and strong binding conditions.

Parameters Segregation pattern of response times in Inline graphic Abundances of various types of FFLsas in Ref [10] Source
Condition I P-P> N-P> C1> I4> C4> I1> I3> C2> N-N >P-N > I2> C3
Condition II {I3, C4} > {C1, I4, N-P} > {P-P, I1}, {C2> {N-N, I2} > C3}, P-N C1> I1> C3> C2> {C4, I3, I4} Prokaryotes
Condition III {C4> I3} > {C1, P-P, N-P, I4} > I1, {C2> {N-N, I2} > C3}, P-N C1> I1> C2> I2> I3 Eukaryotes (yeast)
Condition IV {C4> I3} > {C1, P-P, N-P, I4}, {C2> {N-N, I2} > C3}, {P-N, I1} I1 will be much lower than C1 type. Higher eukaryotes

Note: This table summarizes the behavior of various FFLs under strong and weak binding conditions as well as fast and slow promoter-state dynamics. Under weak binding conditions (Inline graphic Inline graphic1) each FFL behaves differently from each other with respect to changes in Inline graphic. Here the settings for Condition I: weak binding and fast promoter state dynamics (Inline graphic = 0.0003, Inline graphic = 4, Inline graphic = 1). Condition II: strong binding and fast promoter state dynamics (Inline graphic = 0.0003, Inline graphic = 4, Inline graphic = 0.001). Condition III: strong binding and slow promoter state dynamics (Inline graphic = 0.003, Inline graphic = 4, Inline graphic = 0.001). Condition IV: strong binding and slow promoter state dynamics (Inline graphic = 0.03, Inline graphic = 4, Inline graphic = 0.001). Under strong binding conditions Inline graphic Inline graphic0.001, the entire set of FFLs segregates approximately into three subgroups I, II and III. Here P-P (C1 type FFL with AND type logic on TF gene C) and I1 behaves similarly and therefore the advantages of I1 type FFL whose response time is lower than the generation time will be shared by P-P type which will be added up to the C1 type FFL with OR type gated logic to TF gene C. However this pattern seems to be weakly dependent on Inline graphic. When Inline graphic increases as in case of eukaryotic cell, then P-P behaves similar to C1 type and I1 type FFL will have the entire advantage of having lower response times than other subgroups of Group I. As a result, I1 type FFL will be more abundant in eukaryotes than prokaryotes. All these results are not dependent on changes in Inline graphic, increasing Inline graphic beyond 0.03 or decreasing below 0.0003. One should note that the physiological value of Inline graphic in prokaryotes will be Inline graphic ∼ 4. The overall response time of first subgroup (I3 and C4) of Group I is higher than the generation time of the cell. The response times of the second subgroup (C1, I4 and N-P) are closer to the generation time whereas the third subgroup possess lesser response times than the others. The response times of the FFLs in Group-I are more robust against changes in Inline graphic over the physiological values than Group II and III. Comparison with the relative abundances of naturally occurring FFLs, one can conclude that those FFLs are naturally selected when their response times are (a) robust against changes in Inline graphic and (b) closer to or lesser than the generation time.