Highly efficient vortex four-wave mixing in asymmetric semiconductor quantum wells

© 2020 Optical Society of America under the terms of the OSA Open Access Publishing Agreement Orbital angular momentum (OAM) is an important property of vortex light, which provides a valuable tool to manipulate the light-matter interaction in the study of classical and quantum optics. Here we propose a scheme to generate vortex light fields via four-wave mixing (FWM) in asymmetric semiconductor quantum wells. By tailoring the probe-field and control-field detunings, we can effectively manipulate the helical phase and intensity of the FWM field. Particularly, when probe field and control field have identical detuning, we find that both the absorption and phase twist of the generated FWM field are significantly suppressed. Consequently, the highly efficient vortex FWM is realized, where the maximum conversion efficiency reaches around 50%. Our study provides a tool to transfer vortex wavefronts from input to output fields in an efficient way, which may find potential applications in solid-state quantum optics and quantum information processing

Transcriptional Regulation of opaR, qrr2–4 and aphA by the Master Quorum-Sensing Regulator OpaR in Vibrio parahaemolyticus

Background: Vibrio parahaemolyticus is a leading cause of infectious diarrhea and enterogastritis via the fecal-oral route. V. harveyi is a pathogen of fishes and invertebrates, and has been used as a model for quorum sensing (QS) studies. LuxR is the master QS regulator (MQSR) of V. harveyi, and LuxR-dependent expression of its own gene, qrr2–4 and aphA have been established in V. harveyi. Molecular regulation of target genes by the V. parahaemolyticus MQSR OpaR is still poorly understood. Methodology/Principal Findings: The bioinformatics analysis indicated that V. parahaemolyticus OpaR, V. harveyi LuxR, V. vulnificu SmcR, and V. alginolyticus ValR were extremely conserved, and that these four MQSRs appeared to recognize the same conserved cis-acting signals, which was represented by the consensus constructs manifesting as a position frequency matrix and as a 20 bp box, within their target promoters. The MQSR box-like sequences were found within the upstream DNA regions of opaR, qrr2–4 and aphA in V. parahaemolyticus, and the direct transcriptional regulation of these target genes by OpaR were further confirmed by multiple biochemical experiments including primer extension assay, gel mobility shift assay, and DNase I footprinting analysis. Translation and transcription starts, core promoter elements for sigma factor recognition, Shine-Dalgarno sequences for ribosome recognition, and OpaR-binding sites were determined for the five target genes of OpaR, which gave a structural map of the OpaR-dependent promoters. Further computational promote

Timing the Transient Execution: A New Side-Channel Attack on Intel CPUs

The transient execution attack is a type of attack leveraging the vulnerability of modern CPU optimization technologies. New attacks surface rapidly. The side-channel is a key part of transient execution attacks to leak data. In this work, we discover a vulnerability that the change of the EFLAGS register in transient execution may have a side effect on the Jcc (jump on condition code) instruction after it in Intel CPUs. Based on our discovery, we propose a new side-channel attack that leverages the timing of both transient execution and Jcc instructions to deliver data. This attack encodes secret data to the change of register which makes the execution time of context slightly slower, which can be measured by the attacker to decode data. This attack doesn't rely on the cache system and doesn't need to reset the EFLAGS register manually to its initial state before the attack, which may make it more difficult to detect or mitigate. We implemented this side-channel on machines with Intel Core i7-6700, i7-7700, and i9-10980XE CPUs. In the first two processors, we combined it as the side-channel of the Meltdown attack, which could achieve 100\% success leaking rate. We evaluate and discuss potential defenses against the attack. Our contributions include discovering security vulnerabilities in the implementation of Jcc instructions and EFLAGS register and proposing a new side-channel attack that does not rely on the cache system

Comparative transcriptomics in Yersinia pestis: a global view of environmental modulation of gene expression

<p>Abstract</p> <p>Background</p> <p>Environmental modulation of gene expression in <it>Yersinia pestis </it>is critical for its life style and pathogenesis. Using cDNA microarray technology, we have analyzed the global gene expression of this deadly pathogen when grown under different stress conditions <it>in vitro</it>.</p> <p>Results</p> <p>To provide us with a comprehensive view of environmental modulation of global gene expression in <it>Y. pestis</it>, we have analyzed the gene expression profiles of 25 different stress conditions. Almost all known virulence genes of <it>Y. pestis </it>were differentially regulated under multiple environmental perturbations. Clustering enabled us to functionally classify co-expressed genes, including some uncharacterized genes. Collections of operons were predicted from the microarray data, and some of these were confirmed by reverse-transcription polymerase chain reaction (RT-PCR). Several regulatory DNA motifs, probably recognized by the regulatory protein Fur, PurR, or Fnr, were predicted from the clustered genes, and a Fur binding site in the corresponding promoter regions was verified by electrophoretic mobility shift assay (EMSA).</p> <p>Conclusion</p> <p>The comparative transcriptomics analysis we present here not only benefits our understanding of the molecular determinants of pathogenesis and cellular regulatory circuits in <it>Y. pestis</it>, it also serves as a basis for integrating increasing volumes of microarray data using existing methods.</p

LongLLMLingua: Accelerating and Enhancing LLMs in Long Context Scenarios via Prompt Compression

In long context scenarios, large language models (LLMs) face three main challenges: higher computational/financial cost, longer latency, and inferior performance. Some studies reveal that the performance of LLMs depends on both the density and the position of the key information (question relevant) in the input prompt. Inspired by these findings, we propose LongLLMLingua for prompt compression towards improving LLMs' perception of the key information to simultaneously address the three challenges. We conduct evaluation on a wide range of long context scenarios including single-/multi-document QA, few-shot learning, summarization, synthetic tasks, and code completion. The experimental results show that LongLLMLingua compressed prompt can derive higher performance with much less cost. The latency of the end-to-end system is also reduced. For example, on NaturalQuestions benchmark, LongLLMLingua gains a performance boost of up to 17.1% over the original prompt with ~4x fewer tokens as input to GPT-3.5-Turbo. It can derive cost savings of \$28.5 and \$27.4 per 1,000 samples from the LongBench and ZeroScrolls benchmark, respectively. Additionally, when compressing prompts of ~10k tokens at a compression rate of 2x-10x, LongLLMLingua can speed up the end-to-end latency by 1.4x-3.8x. Our code is available at https://aka.ms/LLMLingua

Direct reprogramming of induced neural progenitors: a new promising strategy for AD treatment.

Alzheimer\u27s disease (AD) is a prominent form of dementia, characterized by aggregation of the amyloid β-peptide (Aβ) plaques and neurofibrillary tangles, loss of synapses and neurons, and degeneration of cognitive functions. Currently, although a variety of medications can relieve some of the symptoms, there is no cure for AD. Recent breakthroughs in the stem cell field provide promising strategies for AD treatment. Stem cells including embryonic stem cells (ESCs), neural stem cells (NSCs), mesenchymal stem cells (MSCs), and induced pluripotent stem cells (iPSCs) are potentials for AD treatment. However, the limitation of cell sources, safety issues, and ethical issues restrict their applications in AD. Recently, the direct reprogramming of induced neural progenitor cells (iNPCs) has shed light on the treatment of AD. In this review, we will discuss the latest progress, challenges, and potential applications of direct reprogramming in AD treatment

Overexpression of BMI-1 Promotes Cell Growth and Resistance to Cisplatin Treatment in Osteosarcoma

Background: BMI-1 is a member of the polycomb group of genes (PcGs), and it has been implicated in the development and progression of several malignancies, but its role in osteosarcoma remains to be elucidated. Methodology/Principal Findings: In the present study, we found that BMI-1 was overexpressed in different types of osteosarcomas. Downregulation of BMI-1 by lentivirus mediated RNA interference (RNAi) significantly impaired cell viability and colony formation in vitro and tumorigenesis in vivo of osteosarcoma cells. BMI-1 knockdown sensitized cells to cisplatininduced apoptosis through inhibition of PI3K/AKT pathway. Moreover, BMI-1-depletion-induced phenotype could be rescued by forced expression of BMI-1 wobble mutant which is resistant to inhibition by the small interfering RNA (siRNA). Conclusions/Significance: These findings suggest a crucial role for BMI-1 in osteosarcoma pathogenesis

Seeing through the Brain: Image Reconstruction of Visual Perception from Human Brain Signals

Seeing is believing, however, the underlying mechanism of how human visual perceptions are intertwined with our cognitions is still a mystery. Thanks to the recent advances in both neuroscience and artificial intelligence, we have been able to record the visually evoked brain activities and mimic the visual perception ability through computational approaches. In this paper, we pay attention to visual stimuli reconstruction by reconstructing the observed images based on portably accessible brain signals, i.e., electroencephalography (EEG) data. Since EEG signals are dynamic in the time-series format and are notorious to be noisy, processing and extracting useful information requires more dedicated efforts; In this paper, we propose a comprehensive pipeline, named NeuroImagen, for reconstructing visual stimuli images from EEG signals. Specifically, we incorporate a novel multi-level perceptual information decoding to draw multi-grained outputs from the given EEG data. A latent diffusion model will then leverage the extracted information to reconstruct the high-resolution visual stimuli images. The experimental results have illustrated the effectiveness of image reconstruction and superior quantitative performance of our proposed method.Comment: A preprint version of an ongoing wor

The expression and antigenicity of a truncated spike-nucleocapsid fusion protein of severe acute respiratory syndrome-associated coronavirus

<p>Abstract</p> <p>Background</p> <p>In the absence of effective drugs, controlling SARS relies on the rapid identification of cases and appropriate management of the close contacts, or effective vaccines for SARS. Therefore, developing specific and sensitive laboratory tests for SARS as well as effective vaccines are necessary for national authorities.</p> <p>Results</p> <p>Genes encoding truncated nucleocapsid (N) and spike (S) proteins of <it>SARSCoV </it>were cloned into the expression vector <it>pQE30 </it>and fusionally expressed in <it>Escherichia coli </it>M15. The fusion protein was analyzed for reactivity with SARS patients' sera and with anti-sera against the two human coronaviruses <it>HCoV </it>229E and <it>HCoV </it>OC43 by ELISA, IFA and immunoblot assays. Furthermore, to evaluate the antigen-specific humoral antibody and T-cell responses in mice, the fusion protein was injected into 6-week-old BALB/c mice and a neutralization test as well as a T-cell analysis was performed. To evaluate the antiviral efficacy of immunization, BALB/c mice were challenged intranasally with <it>SARSCoV </it>at day 33 post injection and viral loads were determined by fluorescent quantitative RT-PCR. Serological results showed that the diagnostic sensitivity and specificity of the truncated S-N fusion protein derived the SARS virus were > 99% (457/460) and 100.00% (650/650), respectively. Furthermore there was no cross-reactivity with other two human coronaviruses. High titers of antibodies to <it>SRASCoV </it>appeared in the immunized mice and the neutralization test showed that antibodies to the fusion protein could inhibit <it>SARSCoV</it>. The T cell proliferation showed that the fusion protein could induce an antigen-specific T-cell response. Fluorescent quantitative RT-PCR showed that BALB/c mice challenged intranasally with <it>SARSCoV </it>at day 33 post injection were completely protected from virus replication.</p> <p>Conclusion</p> <p>The truncated S-N fusion protein is a suitable immunodiagnostic antigen and vaccine candidate.</p

Characterization of Zur-dependent genes and direct Zur targets in Yersinia pestis

<p>Abstract</p> <p>Background</p> <p>The zinc uptake regulator Zur is a Zn²⁺-sensing metalloregulatory protein involved in the maintenance of bacterial zinc homeostasis. Up to now, regulation of zinc homeostasis by Zur is poorly understood in <it>Y. pestis</it>.</p> <p>Results</p> <p>We constructed a <it>zur </it>null mutant of <it>Y. pestis </it>biovar <it>microtus </it>strain 201. Microarray expression analysis disclosed a set of 154 Zur-dependent genes of <it>Y. pestis </it>upon exposure to zinc rich condition. Real-time reverse transcription (RT)-PCR was subsequently used to validate the microarray data. Based on the 154 Zur-dependent genes, predicted regulatory Zur motifs were used to screen for potential direct Zur targets including three putative operons <it>znuA, znuCB </it>and <it>ykgM</it>-<it>RpmJ2</it>. The LacZ reporter fusion analysis verified that Zur greatly repressed the promoter activity of the above three operons. The subsequent electrophoretic mobility shift assay (EMSA) demonstrated that a purified Zur protein was able to bind to the promoter regions of the above three operons. The DNase I footprinting was used to identify the Zur binding sites for the above three operons, verifying the Zur box sequence as predicted previously in γ-Proteobacteria. The primer extension assay was further used to determine the transcription start sites for the above three operons and to localize the -10 and -35 elements. Zur binding sites overlapped the -10 sequence of its target promoters, which was consistent with the previous observation that Zur binding would block the entry of the RNA polymerase to repress the transcription of its target genes.</p> <p>Conclusion</p> <p>Zur as a repressor directly controls the transcription of <it>znuA, znuCB </it>and <it>ykgM</it>-<it>RpmJ2 </it>in <it>Y. pestis </it>by employing a conserved mechanism of Zur-promoter DNA association as observed in γ-Proteobacteria. Zur contributes to zinc homeostasis in <it>Y. pestis </it>likely through transcriptional repression of the high-affinity zinc uptake system ZnuACB and two alternative ribosomal proteins YkgM and RpmJ2.</p