Conclusion | (in such case, it is expected that rpoS mutants outcompete the wild type cells.) |
Conclusion | In such case, it would be more advantageous to use up all the nutrients and the rpoS mutants may be more fit than the wild type cells. |
Conclusion | Obviously, conserving the limiting nutrients by the wild type cells is one form of cooperation and rpoS mutants may appear as cheaters. |
Prolonged survival of starving cells by a RpoS-mediated negative feedback loop | 1) for the wild type cells in the following way. |
Quantitative analyses reveal simple empirical formulas describing the kinetics | To quantitatively analyze the survival kinetics of the wild type cells under starvation, we re-plotted the data in a manner that reveals the power law exponent of exponential functions; we denoted the number of colony-forming units at the time zero by NO and plotted log (N0 /NCFU) against time in a log-log plot (Fig. |
RpoS plays an important role in the maintenance of NCFU observed in the first phase of the biphasic decay | This is higher than that of the wild type strain, —/,4 0 (= —0.018 hr '1), consistent with previous observation [18,25]. |
RpoS plays an important role in the maintenance of NCFU observed in the first phase of the biphasic decay | However, the period is much shorter than the period of gradual decay for the wild type cells (green region); note that the exact determination of this period is discussed below and in Fig. |
RpoS plays an important role in the maintenance of NCFU observed in the first phase of the biphasic decay | This indicates that rpoS plays an important role for the wild type strain to maintain |
RpoS —| cell growth | Note that at intermediate substrate concentrations, A of ArpoS strain is higher than that of the wild type strain [30—32]. |
RpoS —| cell growth | Also, note that when the substrate is completely exhausted, the culture of the ArpoS strain loses viability more rapidly than the wild type strain (see [18,25] and Fig. |
RpoS —| cell growth | 28); thus, the value of A(0) of ArpoS strain should be less than that of the wild type strain. |
Experimental characterization of predicted mutants | In particular, the stability of the quintuple mutant (T68N,Q108D,T113V,E120P,S138Y) was found to be substantially higher than that of the wild type protein (Table 1), with Tm 7.2°C higher than WT, and Cm, the urea concentration at the mid-unfolding point, was 0.43M higher than WT. |
Protein expression and purification | A single colony of the transformed E. coli carrying the wild type or mutation dhfr was cultured in Luria-Bertani liquid medium containing 50 ug/mL kanamycin (LB-kana) at 30°C overnight, and then inoculated to fresh LB-kana (1:100 dilution) and incubated again at 30°C. |
Site-directed protein mutagenesis of DHFR | The wild type dhfr gene was cloned in a pET24 expression vector under the inducible T7 promoter, then transformed into BL21(DE3) cells [69]. |
Supporting Information | The RMSDs of DHFR wild type and mutants 11 15A and 1155T vs. Monte Carlo step at temperatures from 0.1 to 3.2. |
Supporting Information | The total energy of DHFR wild type and mutants 11 15A and 1155T vs. Monte Carlo step at temperatures from 0.1 to 3.2. |
Supporting Information | The number of contacts for DHFR wild type and mutants 11 15A and 1155T vs. |
m | (A) Correlation between simulated Tm and experimental Tm, averaging over different numbers of replications, for the DHFR wild type and mutants. |
m | (B) Correlation between the simulated Tm and experimental Tm with different numbers of MC steps and 50 replications, forthe DHFR wild type and mutants. |
Discussion | The requirement to enter mitosis here equals the one in the wild type so that, in Model-1, CLN overexpressing cells are very similar in size compared with wild type cells. |
Supporting Information | Shown are culture averages of G1 and S-Gz-M durations, and the average volume at birth, at START and at budding for fast growing Wild type (WT, solid empty bars) and CLN over producing (oCLN, dashed empty bars) cells. |
mCLB localization is required to equilibrate S-Gz-M duration between generations | (A) Cell size distributions are shown for the fast growing wild type (WT, solid lines) and CLN over producing mutant (OE-CLN, dashed lines) simulated with Model-1 (red) and Model-2 (blue), corresponding to a CLN3 overexpression mutant in vivo. |
mCLB localization is required to equilibrate S-Gz-M duration between generations | (B) Average length of G1, S-GZ-M and average cell volume are shown for the wild type (solid bars) and OE-CLN cells (dashed bars) simulated with Model-1 (red) and Model-2 (blue). |