Exploring transcriptional signalling mediated by OsWRKY13, a potential regulator of multiple physiological processes in rice

BACKGROUND Rice transcription regulator OsWRKY13 influences the functioning of more than 500 genes in multiple signalling pathways, with roles in disease resistance, redox homeostasis, abiotic stress responses, and development. RESULTS To determine the putative transcriptional regulation mechanism of OsWRKY13, the putative cis-acting elements of OsWRKY13-influenced genes were analyzed using the whole genome expression profiling of OsWRKY13-activated plants generated with the Affymetrix GeneChip Rice Genome Array. At least 39 transcription factor genes were influenced by OsWRKY13, and 30 of them were downregulated. The promoters of OsWRKY13-upregulated genes were overrepresented with W-boxes for WRKY protein binding, whereas the promoters of OsWRKY13-downregulated genes were enriched with cis-elements putatively for binding of MYB and AP2/EREBP types of transcription factors. Consistent with the distinctive distribution of these cis-elements in up- and downregulated genes, nine WRKY genes were influenced by OsWRKY13 and the promoters of five of them were bound by OsWRKY13 in vitro; all seven differentially expressed AP2/EREBP genes and six of the seven differentially expressed MYB genes were suppressed by in OsWRKY13-activated plants. A subset of OsWRKY13-influenced WRKY genes were involved in host-pathogen interactions. CONCLUSION These results suggest that OsWRKY13-mediated signalling pathways are partitioned by different transcription factors. WRKY proteins may play important roles in the monitoring of OsWRKY13-upregulated genes and genes involved in pathogen-induced defence responses, whereas MYB and AP2/EREBP proteins may contribute most to the control of OsWRKY13-downregulated genes.This work was supported by grants from the National Program of High Technology Development of China, the National Program on the Development of Basic Research in China, and the National Natural Science Foundation of China

Convergence of Random Reshuffling Under The Kurdyka-{\L}ojasiewicz Inequality

We study the random reshuffling (RR) method for smooth nonconvex optimization problems with a finite-sum structure. Though this method is widely utilized in practice such as the training of neural networks, its convergence behavior is only understood in several limited settings. In this paper, under the well-known Kurdyka-Lojasiewicz (KL) inequality, we establish strong limit-point convergence results for RR with appropriate diminishing step sizes, namely, the whole sequence of iterates generated by RR is convergent and converges to a single stationary point in an almost sure sense. In addition, we derive the corresponding rate of convergence, depending on the KL exponent and the suitably selected diminishing step sizes. When the KL exponent lies in $[0,\frac12]$, the convergence is at a rate of $\mathcal{O}(t^{-1})$ with $t$ counting the iteration number. When the KL exponent belongs to $(\frac12,1)$, our derived convergence rate is of the form $\mathcal{O}(t^{-q})$ with $q\in (0,1)$ depending on the KL exponent. The standard KL inequality-based convergence analysis framework only applies to algorithms with a certain descent property. We conduct a novel convergence analysis for the non-descent RR method with diminishing step sizes based on the KL inequality, which generalizes the standard KL framework. We summarize our main steps and core ideas in an informal analysis framework, which is of independent interest. As a direct application of this framework, we also establish similar strong limit-point convergence results for the reshuffled proximal point method.Comment: 23 page

Valley Carrier Dynamics in Monolayer Molybdenum Disulphide from Helicity Resolved Ultrafast Pump-probe Spectroscopy

We investigate the valley related carrier dynamics in monolayer MoS2 using helicity resolved non-degenerate ultrafast pump-probe spectroscopy at the vicinity of the high-symmetry K point under the temperature down to 78 K. Monolayer MoS2 shows remarkable transient reflection signals, in stark contrast to bilayer and bulk MoS2 due to the enhancement of many-body effect at reduced dimensionality. The helicity resolved ultrafast time-resolved result shows that the valley polarization is preserved for only several ps before scattering process makes it undistinguishable. We suggest that the dynamical degradation of valley polarization is attributable primarily to the exciton trapping by defect states in the exfoliated MoS2 samples. Our experiment and a tight-binding model analysis also show that the perfect valley CD selectivity is fairly robust against disorder at the K point, but quickly decays from the high-symmetry point in the momentum space in the presence of disorder.Comment: 15 pages,Accepted by ACS Nan

On Nonuniform Polynomial Trichotomy of Linear Discrete-Time Systems in Banach Spaces

We study two nonuniform polynomial trichotomy concepts for linear discrete-time systems in Banach spaces. Our main objective is to give summation property for nonuniform polynomial trichotomies. As for applications we obtain characterization of these concepts in terms of Lyapunov functions

Impact of high-frequency pumping on anomalous finite-size effects in three-dimensional topological insulators

Lowering of the thickness of a thin-film three-dimensional topological insulator down to a few nanometers results in the gap opening in the spectrum of topologically protected two-dimensional surface states. This phenomenon, which is referred to as the anomalous finite-size effect, originates from hybridization between the states propagating along the opposite boundaries. In this work, we consider a bismuth-based topological insulator and show how the coupling to an intense high-frequency linearly polarized pumping can further be used to manipulate the value of a gap. We address this effect within recently proposed Brillouin-Wigner perturbation theory that allows us to map a time-dependent problem into a stationary one. Our analysis reveals that both the gap and the components of the group velocity of the surface states can be tuned in a controllable fashion by adjusting the intensity of the driving field within an experimentally accessible range and demonstrate the effect of light-induced band inversion in the spectrum of the surface states for high enough values of the pump.Comment: 6 pages, 3 figure

On holographic time-like entanglement entropy

In order to study the pseudo entropy of timelike subregions holographically, the previous smooth space-like extremal surface was recently generalized to mix space-like and time-like segments and the area becomes complex value. This paper finds that, if one tries to use such kind of piecewise smooth extremal surfaces to compute timelike entanglement entropy holographically, the complex area is not unique in general. We then generalize the original holographic proposal of spacelike entanglement entropy to pick up a unique area from all allowed ``space-like+time-like'' piecewise smooth extremal surfaces for a timelike subregion. We give some concrete examples to show the correctness of our proposal.Comment: 26 pages, 10 figure