Evolution of Hsp70 Gene Expression: A Role for Changes in AT-Richness within Promoters

In disparate organisms adaptation to thermal stress has been linked to changes in the expression of genes encoding heat-shock proteins (Hsp). The underlying genetics, however, remain elusive. We show here that two AT-rich sequence elements in the promoter region of the hsp70 gene of the fly Liriomyza sativae that are absent in the congeneric species, Liriomyza huidobrensis, have marked cis-regulatory consequences. We studied the cis-regulatory consequences of these elements (called ATRS1 and ATRS2) by measuring the constitutive and heat-shock-induced luciferase luminescence that they drive in cells transfected with constructs carrying them modified, deleted, or intact, in the hsp70 promoter fused to the luciferase gene. The elements affected expression level markedly and in different ways: Deleting ATRS1 augmented both the constitutive and the heat-shock-induced luminescence, suggesting that this element represses transcription. Interestingly, replacing the element with random sequences of the same length and A+T content delivered the wild-type luminescence pattern, proving that the element's high A+T content is crucial for its effects. Deleting ATRS2 decreased luminescence dramatically and almost abolished heat-shock inducibility and so did replacing the element with random sequences matching the element's length and A+T content, suggesting that ATRS2's effects on transcription and heat-shock inducibility involve a common mechanism requiring at least in part the element's specific primary structure. Finally, constitutive and heat-shock luminescence were reduced strongly when two putative binding sites for the Zeste transcription factor identified within ATRS2 were altered through site-directed mutagenesis, and the heat-shock-induced luminescence increased when Zeste was over-expressed, indicating that Zeste participates in the effects mapped to ATRS2 at least in part. AT-rich sequences are common in promoters and our results suggest that they should play important roles in regulatory evolution since they can affect expression markedly and constrain promoter DNA in at least two different ways

Modeling electrochemical interfaces from ab initio molecular dynamics: water adsorption on metal surfaces at potential of zero charge

Abstract(#br)The origin of the potential difference between the potential of zero charge of a metal/water interface and the work function of the metal is a recurring issue because it is related to how water interacts with metal surface in the absence of surface charge. Recently ab initio molecular dynamics method has been used to model electrochemical interfaces to study interfacial potential and the structure of interface water. Here, we will first introduce the computational standard hydrogen electrode method, which allows for ab initio determination of electrode potentials that can be directly compared with experiment. Then, we will review the recent progress from ab initio molecular dynamics simulation in understanding the interaction between water and metal and its impact on interfacial potential. Finally, we will give our perspective for future development of ab initio computational electrochemistry

Improved Noisy Student Training for Automatic Speech Recognition

Recently, a semi-supervised learning method known as "noisy student training" has been shown to improve image classification performance of deep networks significantly. Noisy student training is an iterative self-training method that leverages augmentation to improve network performance. In this work, we adapt and improve noisy student training for automatic speech recognition, employing (adaptive) SpecAugment as the augmentation method. We find effective methods to filter, balance and augment the data generated in between self-training iterations. By doing so, we are able to obtain word error rates (WERs) 4.2%/8.6% on the clean/noisy LibriSpeech test sets by only using the clean 100h subset of LibriSpeech as the supervised set and the rest (860h) as the unlabeled set. Furthermore, we are able to achieve WERs 1.7%/3.4% on the clean/noisy LibriSpeech test sets by using the unlab-60k subset of LibriLight as the unlabeled set for LibriSpeech 960h. We are thus able to improve upon the previous state-of-the-art clean/noisy test WERs achieved on LibriSpeech 100h (4.74%/12.20%) and LibriSpeech (1.9%/4.1%).Comment: 5 pages, 5 figures, 4 tables; v2: minor revisions, reference adde

How cations determine the interfacial potential profile : Relevance for the CO2 reduction reaction

Acknowledgements The continuous support of the University of Aberdeen and financial support from the Leverhulme Trust through Research Grant RPG-2015-040 is gratefully acknowledged. A.C. and G.H. acknowledge the support of Universities UK international (UUKi) and the Department for Business, Energy & Industrial Strategy (BEIS) for a Rutherford Strategic Partner Grant (RF-2018-79) and a Rutherford Fellowship, respectively. J.C. is grateful for the financial support by the National Natural Science Foundation of China (Grants Nos. 2181101075 and 21621091), and J.L. thanks the China Postdoctoral Science Foundation (2018M642563) for support.Peer reviewedPostprintPostprin

Gold-Catalyzed Aminoalkenylation of β-Amino-1,n -Diynols to Cycloalkyl-, Piperidinyl- and Pyranyl-Fused Pyrroles

A synthetic method to prepare cycloalkyl-, piperidinyl- and pyranyl-fused pyrroles efficiently by gold(I)-catalyzed dehydrative aminoalkenylation of β-amino-1,n-diynols under mild conditions at room temperature is described

Coexistence of ferromagnetism, antiferromagnetism, and superconductivity in magnetically anisotropic (Eu,La)FeAs2

Materials with exceptional magnetism and superconductivity usually conceive emergent physical phenomena. Here, we investigate the physical properties of the (Eu,La)FeAs2 system with double magnetic sublattices. The parent EuFeAs2 shows anisotropy-associated magnetic behaviors, such as Eu-related moment canting and exchange bias. Through La doping, the magnetic anisotropy is enhanced with ferromagnetism of Eu2+ realized in the overdoped region, and a special exchange bias of the superposed ferromagnetic/superconducting loop revealed in Eu0.8La0.2FeAs2. Meanwhile, the Fe-related antiferromagnetism shows unusual robustness against La doping. Theoretical calculation and 57Fe M\"ossbauer spectroscopy investigation reveal a doping-tunable dual itinerant/localized nature of the Fe-related antiferromagnetism. Coexistence of the Eu-related ferromagnetism, Fe-related robust antiferromagnetism, and superconductivity is further revealed in Eu0.8La0.2FeAs2, providing a platform for further exploration of potential applications and emergent physics. Finally, an electronic phase diagram is established for (Eu,La)FeAs2 with the whole superconducting dome adjacent to the Fe-related antiferromagnetic phase, which is of benefit for seeking underlying clues to high-temperature superconductivity.Comment: 13 pages, 6 figures for the main tex

Identification of four novel small non-coding RNAs from Xanthomonas campestris pathovar campestris

<p>Abstract</p> <p>Background</p> <p>In bacteria, small non-coding RNAs (sRNAs) have been recognized as important regulators of various cellular processes. Approximately 200 bacterial sRNAs in total have been reported. However, very few sRNAs have been identified from phytopathogenic bacteria.</p> <p>Results</p> <p><it>Xanthomons campestris </it>pathovar <it>campestris </it>(<it>Xcc</it>) is the causal agent of black rot disease of cruciferous crops. In this study, a cDNA library was constructed from the low-molecular weight RNA isolated from the <it>Xcc </it>strain 8004 grown to exponential phase in the minimal medium XVM2. Seven sRNA candidates were obtained by sequencing screen of 2,500 clones from the library and four of them were confirmed to be sRNAs by Northern hybridization, which were named sRNA-<it>Xcc</it>1, sRNA-<it>Xcc</it>2, sRNA-<it>Xcc</it>3, and sRNA-<it>Xcc</it>4. The transcription start and stop sites of these sRNAs were further determined. BLAST analysis revealed that the four sRNAs are novel. Bioinformatics prediction showed that a large number of genes with various known or unknown functions in <it>Xcc </it>8004 are potential targets of sRNA-<it>Xcc</it>1, sRNA-<it>Xcc</it>3 and sRNA-<it>Xcc</it>4. In contrast, only a few genes were predicted to be potential targets of sRNA-<it>Xcc</it>2.</p> <p>Conclusion</p> <p>We have identified four novel sRNAs from <it>Xcc </it>by a large-scale screen. Bioinformatics analysis suggests that they may perform various functions. This work provides the first step toward understanding the role of sRNAs in the molecular mechanisms of <it>Xanthomonas campestris </it>pathogenesis.</p

Direct In Situ Raman Spectroscopic Evidence of Oxygen Reduction Reaction Intermediates at High-Index Pt(hkl) Surfaces

The study of the oxygen reduction reaction (ORR) at high-index Pt(hkl) single crystal surfaces has received considerable interest due to their well-ordered, typical atomic structures and superior catalytic activities. However, it is difficult to obtain direct spectral evidence of ORR intermediates during reaction processes, especially at high-index Pt(hkl) surfaces. Herein, in situ Raman spectroscopy has been employed to investigate ORR processes at high-index Pt(hkl) surfaces containing the [011̅] crystal zone—i.e., Pt(211) and Pt(311). Through control and isotope substitution experiments, in situ spectroscopic evidence of OH and OOH intermediates at Pt(211) and Pt(311) surfaces was successfully obtained. After detailed analysis based on the Raman spectra and theoretical simulation, it was deduced that the difference in adsorption of OOH at high-index surfaces has a significant effect on the ORR activity. This research illuminates and deepens the understanding of the ORR mechanism on high-index Pt(hkl) surfaces and provides theoretical guidance for the rational design of high activity ORR catalysts.This work was financially supported by the National Natural Science Foundation of China (21902137, 21925404, 21775127, and 21427813), the Fundamental Research Funds for the Central Universities (20720190044), the China Postdoctoral Science Foundation (2019M652250), and the China Postdoctoral Innovation Talent Support Program (BX20190184). Support from MINECO through project CTQ2016-76221-P (AEI/FEDER, UE) is greatly acknowledged

Peripheral pulmonary nodules: Relationship between multi-slice spiral CT perfusion imaging and tumor angiogenesis and VEGF expression

<p>Abstract</p> <p>Background</p> <p>The aim of this study is to investigate the relationship between16-slice spiral CT perfusion imaging and tumor angiogenesis and VEGF (vascular endothelial growth factor) expression in patients with benign and malignant pulmonary nodules, and differential diagnosis between benign and malignant pulmonary nodules.</p> <p>Methods</p> <p>Sixty-four patients with benign and malignant pulmonary nodules underwent 16-slice spiral CT perfusion imaging. The CT perfusion imaging was analyzed for TDC (time density curve), perfusion parametric maps, and the respective perfusion parameters. Immunohistochemical findings of MVD (microvessel density) measurement and VEGF expression was evaluated.</p> <p>Results</p> <p>The shape of the TDC of peripheral lung cancer was similar to those of inflammatory nodule. PH (peak height), PHpm/PHa (peak height ratio of pulmonary nodule to aorta), BF (blood flow), BV (blood volume) value of peripheral lung cancer and inflammatory nodule were not statistically significant (all P > 0.05). Both showed significantly higher PH, PHpm/PHa, BF, BV value than those of benign nodule (all P < 0.05). Peripheral lung cancer showed significantly higher PS (permeability surface) value than that of inflammatory nodule and benign nodule (all P < 0.05). BV, BF, PS, MTT, PH, PHpm/PHa, and MVD among three groups of peripheral lung cancers were not significantly (all P > 0.05). In the case of adenocarcinoma, BV, BF, PS, PHpm/PHa, and MVD between poorly and well differentiation and between poorly and moderately differentiation were statistically significant (all P < 0.05). The peripheral lung cancers with VEGF positive expression showed significantly higher PH, PHpm/PHa, BF, BV, PS, and MVD value than those of the peripheral lung cancer with VEGF negative expression, and than those of benign nodule with VEGF positive expression (all P < 0.05). When investigating VEGF negative expression, it is found that PH, PHpm/PHa, and MVD of inflammatory nodule were significantly higher than those of peripheral lung cancer, PS of inflammatory nodule were significantly lower than that of peripheral lung cancer (all P < 0.05). PH, PHpm/PHa, BF, and BV of benign nodule were significantly lower than those of inflammatory nodule (all P < 0.05), rather than PS and MTT (mean transit time) (all P > 0.05). PH, PHpm/PHa, BV, and PS of benign nodule were significantly lower than those of peripheral lung cancer (all P < 0.05). In the case of VEGF positive expression, MVD was positively correlated with PH, PHpm/PHa, BF, BV, and PS of peripheral lung cancer and PS of benign nodule (all P < 0.05).</p> <p>Conclusion</p> <p>Multi-slice spiral CT perfusion imaging closely correlated with tumor angiogenesis and reflected MVD measurement and VEGF expression. It provided not only a non-invasive method of quantitative assessment for blood flow patterns of peripheral pulmonary nodules but also an applicable diagnostic method for peripheral pulmonary nodules.</p