A phosphoramidite monomer bearing an azobenzene is synthesized from D-threoninol. Using this monomer, azobenzene moieties can be introduced into oligodeoxyribonucleotide (DNA) at any position on a conventional DNA synthesizer. With this azobenzene-tethered DNA, formation and dissociation of a DNA duplex can be reversibly photo-regulated by cis-trans isomerization of the azobenzene. When the azobenzene takes a trans-form, a stable duplex is formed. After isomerization of the trans-azobenzene to its cis-form by UV-light irradiation (300 nm < lambda < 400 nm), the duplex can be dissociated into two strands. The duplex is reformed on photo-induced cis-trans isomerization (lambda > 400 nm). The introduction of azobenzenes into the T7 promoter at specific positions also efficiently and reversibly photo-regulates transcription by T7-RNA polymerase. The reversible regulation can be repeated many times without causing damage to the DNA or the azobenzene moiety. These procedures take approximately 10 d to complete.

Azobenzene was additionally introduced into side chain of T7 promoter for the photocontrol of transcription reaction by T7 RNA polymerase (T7 RNAP). When a single azobenzene molecule was introduced into the T7 promoter either at the loop-binding region of the RNAP (-7 to -11 position) or at the unwinding region (-1 to -4 position), transcription was suppressed in the trans-form but proceeded faster in the cis-form. The amount of transcripts after UV irradiation with respect to that in the dark was 1.5-2.0-fold. Kinetic analysis of the transcription reaction revealed that the photoregulatory mechanism was different in these positions. The photoisomerization of an azobenzene at the loop-binding region primarily affected Km. On the other hand, the isomerization of an azobenzene at the unwinding region mainly affected kcat. Still more clear-cut photoregulation was achieved when two azobenzenes were introduced into both loop-binding and unwinding regions, respectively: transcription proceeded 7.6-fold faster after UV irradiation than that in the dark. This synergistic effect was observed only when two azobenzenes were introduced into these two different regions, respectively, and introduction of them into the same loop-binding region drastically lowered the transcription activity. The cooperation of two azobenzenes at loop-binding and unwinding regions would contribute to the clear-cut photoregulation of transcription.

A thermoresponsive substrate based on a triblock copolymer, poly(N-isopropylacrylamide)-block-poly[(R)-3-hydroxybutyrate]-block-poly(N-isopropylacrylamide) (PNIPAAm-PHB-PNIPAAm), co-coated with gelatin, was developed for the culture and non-enzymatic recovery of mouse embryonic stem cells. After culture, the cells could be detached by cooling at 4 degrees C for 20 min without trypsin digestion. The embryonic stem cells remained undifferentiated after culture on the gelatin/copolymer-coated surfaces, similar to standard culture techniques. Overall, the triblock copolymer coating was superior to the PNIPAAm homopolymer coating in terms of supporting better cell growth, being more stable, presenting a more homogeneous surface coating, and maintaining pluripotency of the embryonic stem cells.

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In this paper, we investigate the dynamics of synchronous totally asymmetric exclusion processes on lattices with a multiple-input-single-output (MISO) junction, which consists of m subchains for the input and one main chain for the output. A MISO junction is a type of complex geometry that is relevant to many biological processes as well as vehicular and pedestrian traffic flow. A mean-field approach is developed to deal with the junction that connects the subchains and the main chain. Theoretical results for stationary particle currents, density profiles, and a phase diagram have been obtained. It is found that the phase boundary moves toward the left in the phase diagram with an increase of the number of subchains. The nonequilibrium stationary states, stationary-state phases, and phase boundaries are determined by the boundary conditions of the system as well as by the number of subchains. The density profiles obtained from computer simulations show very good agreement with our theoretical analysis.

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