bluuebunny/crossref_metadata_2025 huggingface dataset:
Effect of Seeding Rate on Dose Response of Wild Mustard (Sinapis arvensis) to Fluthiacet-Methyl
Authors: Redlick Collen , Duddu Hema S. N. , Syrovy Lena D. , Willenborg Christian J. , Johnson Eric N. , Shirtliffe Steven J.
Published: June 2017

Concern over the development of herbicide-resistant weeds has led to interest in integrated weed management systems that reduce selection pressure by utilizing mechanical and cultural weed control practices in addition to herbicides. Increasing crop seeding rate increases crop competitive ability and thus can enhance herbicide efficacy. However, it is unknown how increasing the seeding rate affects an herbicide’s efficacy. The objective of this study was to examine the interaction between increasing seeding rate and herbicide dose to control weeds. To meet this objective, the herbicide fluthiacet-methyl was applied to field-grown lentil, with Indian mustard, a proxy for wild mustard, used as a model weed. The experiment was a factorial design with four lentil seeding rates and seven herbicide rates. Overall the herbicide dose response was altered by changing lentil seeding rate. Increasing lentil seeding rate decreased the weed biomass production when herbicides were not applied. In two of the four site-years, increasing lentil seeding rate lowered the herbicide ED50, the dose required to result in a 50% reduction in weed biomass. Increasing the crop seeding rate altered the dose response to provide greater weed control at lower herbicide rates compared with normal crop seeding rates. Increased seeding rates also resulted in higher and more stable crop seed yields across a wider range of herbicide dosages. These results suggest that dose–response models can be used to evaluate the efficacy of other weed management practices that can interact with herbicide performance.
Structure of the Rpn13-Rpn2 complex provides insights for Rpn13 and Uch37 as anticancer targets
Authors: Lu Xiuxiu , Nowicka Urszula , Sridharan Vinidhra , Liu Fen , Randles Leah , Hymel David , Dyba Marzena , Tarasov Sergey G. , Tarasova Nadya I. , Zhao Xue Zhi , Hamazaki Jun , Murata Shigeo , Burke, Terrence R. , Walters Kylie J.
Published: June 2017

Proteasome–ubiquitin receptor hRpn13/Adrm1 binds and activates deubiquitinating enzyme Uch37/UCHL5 and is targeted by bis-benzylidine piperidone RA190, which restricts cancer growth in mice xenografts. Here, we solve the structure of hRpn13 with a segment of hRpn2 that serves as its proteasome docking site; a proline-rich C-terminal hRpn2 extension stretches across a narrow canyon of the ubiquitin-binding hRpn13 Pru domain blocking an RA190-binding surface. Biophysical analyses in combination with cell-based assays indicate that hRpn13 binds preferentially to hRpn2 and proteasomes over RA190. hRpn13 also exists outside of proteasomes where it may be RA190 sensitive. RA190 does not affect hRpn13 interaction with Uch37, but rather directly binds and inactivates Uch37. hRpn13 deletion from HCT116 cells abrogates RA190-induced accumulation of substrates at proteasomes. We propose that RA190 targets hRpn13 and Uch37 through parallel mechanisms and at proteasomes, RA190-inactivated Uch37 cannot disassemble hRpn13-bound ubiquitin chains.
Tespa1 regulates T cell receptor-induced calcium signals by recruiting inositol 1,4,5-trisphosphate receptors
Authors: Liang Jingjing , Lyu Jun , Zhao Meng , Li Dan , Zheng Mingzhu , Fang Yan , Zhao Fangzhu , Lou Jun , Guo Chuansheng , Wang Lie , Wang Di , Liu Wanli , Lu Linrong
Published: June 2017

Thymocyte-expressed, positive selection-associated 1 (Tespa1) is important in T cell receptor (TCR)-driven thymocyte development. Downstream of the TCR, Tespa1 is a crucial component of the linker for activation of T cells (LAT) signalosome, facilitating calcium signalling and subsequent MAPK activation. However, it is unknown how Tespa1 elicits calcium signalling. Here, we show that inositol 1,4,5-trisphosphate receptor type 1 (IP3R1) is crucial for Tespa1-optimized, TCR-induced Ca2+ flux and thymocyte development. Upon TCR stimulation, Tespa1 directly interacts with IP3R1 and recruits it to the TCR complex, where IP3R1 is phosphorylated at Y353 by Fyn. This Tespa1-IP3R1 interaction is mediated by the F187 and F188 residues of Tespa1 and the amino-terminus of IP3R1. Tespa1-F187A/F188A mutant mice phenocopy Tespa1-deficient mice with impaired late thymocyte development due to reduced IP3R1 translocation to the TCR-proximal region. Our work elucidates the function of Tespa1 in T cell development and the regulation of TCR-induced Ca2+ signalling through IP3R1.
An autonomous organic reaction search engine for chemical reactivity
Authors: Dragone Vincenza , Sans Victor , Henson Alon B. , Granda Jaroslaw M. , Cronin Leroy
Published: June 2017

The exploration of chemical space for new reactivity, reactions and molecules is limited by the need for separate work-up-separation steps searching for molecules rather than reactivity. Herein we present a system that can autonomously evaluate chemical reactivity within a network of 64 possible reaction combinations and aims for new reactivity, rather than a predefined set of targets. The robotic system combines chemical handling, in-line spectroscopy and real-time feedback and analysis with an algorithm that is able to distinguish and select the most reactive pathways, generating a reaction selection index (RSI) without need for separate work-up or purification steps. This allows the automatic navigation of a chemical network, leading to previously unreported molecules while needing only to do a fraction of the total possible reactions without any prior knowledge of the chemistry. We show the RSI correlates with reactivity and is able to search chemical space using the most reactive pathways.
Raptor regulates functional maturation of murine beta cells
Authors: Ni Qicheng , Gu Yanyun , Xie Yun , Yin Qinglei , Zhang Hongli , Nie Aifang , Li Wenyi , Wang Yanqiu , Ning Guang , Wang Weiqing , Wang Qidi
Published: June 2017

Diabetes is associated with beta cell mass loss and islet dysfunctions. mTORC1 regulates beta cell survival, proliferation and function in physiological and pathological conditions, such as pregnancy and pancreatectomy. Here we show that deletion of Raptor, which is an essential component of mTORC1, in insulin-expressing cells promotes hypoinsulinemia and glucose intolerance. Raptor-deficient beta cells display reduced glucose responsiveness and exhibit a glucose metabolic profile resembling fetal beta cells. Knockout islets have decreased expression of key factors of functional maturation and upregulation of neonatal markers and beta cell disallowed genes, resulting in loss of functional maturity. Mechanistically, Raptor-deficient beta cells show reduced expression of DNA-methyltransferase 3a and altered patterns of DNA methylation at loci that are involved in the repression of disallowed genes. The present findings highlight a novel role of mTORC1 as a core mechanism governing postnatal beta cell maturation and physiologic beta cell mass during adulthood.
Vegetation recovery in tidal marshes reveals critical slowing down under increased inundation
Authors: van Belzen Jim , van de Koppel Johan , Kirwan Matthew L. , van der Wal Daphne , Herman Peter M. J. , Dakos Vasilis , Kéfi Sonia , Scheffer Marten , Guntenspergen Glenn R. , Bouma Tjeerd J.
Published: June 2017

A declining rate of recovery following disturbance has been proposed as an important early warning for impending tipping points in complex systems. Despite extensive theoretical and laboratory studies, this ‘critical slowing down’ remains largely untested in the complex settings of real-world ecosystems. Here, we provide both observational and experimental support of critical slowing down along natural stress gradients in tidal marsh ecosystems. Time series of aerial images of European marsh development reveal a consistent lengthening of recovery time as inundation stress increases. We corroborate this finding with transplantation experiments in European and North American tidal marshes. In particular, our results emphasize the power of direct observational or experimental measures of recovery over indirect statistical signatures, such as spatial variance or autocorrelation. Our results indicate that the phenomenon of critical slowing down can provide a powerful tool to probe the resilience of natural ecosystems.
Ash1l and lnc-Smad3 coordinate Smad3 locus accessibility to modulate iTreg polarization and T cell autoimmunity
Authors: Xia Meng , Liu Juan , Liu Shuxun , Chen Kun , Lin Hongyu , Jiang Minghong , Xu Xiaoqing , Xue Yiquan , Liu Wei , Gu Yan , Zhang Xiang , Li Zhiqing , Yi Lin , Qian Youcun , Zhou Chen , Li Ru , Zhang Xuan , Li Zhanguo , Cao Xuetao
Published: June 2017

Regulatory T (Treg) cells are important for the maintenance of immune homoeostasis and prevention of autoimmune diseases. Epigenetic modifications have been reported to modulate autoimmunity by altering Treg cell fate. Here we show that the H3K4 methyltransferase Ash1l facilitates TGF-β-induced Treg cell polarization in vitro and protects mice from T cell-mediated colitis in vivo. Ash1l upregulates Smad3 expression by directly targeting Smad3 promoter to increase local H3K4 trimethylation. Furthermore, we identify an lncRNA, namely lnc-Smad3, which interacts with the histone deacetylase HDAC1 and silences Smad3 transcription. After TGF-β stimulation, activated Smad3 suppresses lnc-Smad3 transcription, thereby recovering the Smad3 promoter accessibility to Ash1l. By revealing the opposite regulatory functions of Ash1l and lnc-Smad3 in Smad3 expression, our data provide insights for the epigenetic control of Treg cell fate to potentially aid in the development of therapeutic intervention for autoimmune diseases.
Controlling hybrid nonlinearities in transparent conducting oxides via two-colour excitation
Authors: Clerici M. , Kinsey N. , DeVault C. , Kim J. , Carnemolla E. G. , Caspani L. , Shaltout A. , Faccio D. , Shalaev V. , Boltasseva A. , Ferrera M.
Published: June 2017

Nanophotonics and metamaterials have revolutionized the way we think about optical space (ɛ,μ), enabling us to engineer the refractive index almost at will, to confine light to the smallest of the volumes, and to manipulate optical signals with extremely small footprints and energy requirements. Significant efforts are now devoted to finding suitable materials and strategies for the dynamic control of the optical properties. Transparent conductive oxides exhibit large ultrafast nonlinearities under both interband and intraband excitations. Here we show that combining these two effects in aluminium-doped zinc oxide via a two-colour laser field discloses new material functionalities. Owing to the independence of the two nonlinearities, the ultrafast temporal dynamics of the material permittivity can be designed by acting on the amplitude and delay of the two fields. We demonstrate the potential applications of this novel degree of freedom by dynamically addressing the modulation bandwidth and optical spectral tuning of a probe optical pulse.
Refinement of learned skilled movement representation in motor cortex deep output layer
Authors: Li Qian , Ko Ho , Qian Zhong-Ming , Yan Leo Y. C. , Chan Danny C. W. , Arbuthnott Gordon , Ke Ya , Yung Wing-Ho
Published: June 2017

The mechanisms underlying the emergence of learned motor skill representation in primary motor cortex (M1) are not well understood. Specifically, how motor representation in the deep output layer 5b (L5b) is shaped by motor learning remains virtually unknown. In rats undergoing motor skill training, we detect a subpopulation of task-recruited L5b neurons that not only become more movement-encoding, but their activities are also more structured and temporally aligned to motor execution with a timescale of refinement in tens-of-milliseconds. Field potentials evoked at L5b in vivo exhibit persistent long-term potentiation (LTP) that parallels motor performance. Intracortical dopamine denervation impairs motor learning, and disrupts the LTP profile as well as the emergent neurodynamical properties of task-recruited L5b neurons. Thus, dopamine-dependent recruitment of L5b neuronal ensembles via synaptic reorganization may allow the motor cortex to generate more temporally structured, movement-encoding output signal from M1 to downstream circuitry that drives increased uniformity and precision of movement during motor learning.
Predicting the outcomes of organic reactions via machine learning: are current descriptors sufficient?
Authors: Skoraczyński G. , Dittwald P. , Miasojedow B. , Szymkuć S. , Gajewska E. P. , Grzybowski B. A. , Gambin A.
Published: June 2017

As machine learning/artificial intelligence algorithms are defeating chess masters and, most recently, GO champions, there is interest – and hope – that they will prove equally useful in assisting chemists in predicting outcomes of organic reactions. This paper demonstrates, however, that the applicability of machine learning to the problems of chemical reactivity over diverse types of chemistries remains limited – in particular, with the currently available chemical descriptors, fundamental mathematical theorems impose upper bounds on the accuracy with which raction yields and times can be predicted. Improving the performance of machine-learning methods calls for the development of fundamentally new chemical descriptors.
Phenotypic, genotypic and antigenic characterization of emerging avian reoviruses isolated from clinical cases of arthritis in broilers in Saskatchewan, Canada
Authors: Ayalew Lisanework E. , Gupta Ashish , Fricke Jenny , Ahmed Khawaja Ashfaque , Popowich Shelly , Lockerbie Betty , Tikoo Suresh K. , Ojkic Davor , Gomis Susantha
Published: June 2017

In recent years, emerging strains of pathogenic arthrogenic avian reovirus (ARV) have become a challenge to the chicken industry across USA and Canada causing significant economic impact. In this study, we characterized emerging variant ARV strains and examined their genetic and antigenic relationship with reference strains. We isolated 37 emerging variant ARV strains from tendons of broiler chickens with clinical cases of arthritis/tenosynovitis at commercial farms in Saskatchewan, Canada. Viral characterization using immunocytochemistry, gold-immunolabeling and electron microscopy revealed distinct features characteristic of ARV. Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analyses of the viral Sigma C gene revealed genetic heterogeneity between the field isolates. On phylogenetic analyses, the Sigma C amino acid sequences of the isolates were clustered into four distinct genotypic groups. These ARV field strains were genetically diverse and quite distant from the vaccine and vaccine related field strains. Antibodies produced against a commercial Reo 2177®vaccine did not neutralize these variants. Moreover, structure based analysis of the Sigma C protein revealed significant antigenic variability between the cluster groups and the vaccine strains. To the best of our knowledge, this is the first report on the genetic, phenotypic and antigenic characterization of emerging ARVs in Canada.
Phylogenomic Insight into Salinispora (Bacteria, Actinobacteria) Species Designations
Authors: Millán-Aguiñaga Natalie , Chavarria Krystle L. , Ugalde Juan A. , Letzel Anne-Catrin , Rouse Greg W. , Jensen Paul R.
Published: June 2017

Bacteria represent the most genetically diverse kingdom of life. While great progress has been made in describing this diversity, it remains difficult to identify the phylogenetic and ecological characteristics that delineate groups of bacteria that possess species-like properties. One major challenge associated with species delineations is that not all shared genes have the same evolutionary history, and thus the choice of loci can have a major impact on phylogenetic reconstruction. Sequencing the genomes of large numbers of closely related strains provides new opportunities to distinguish ancestral from acquired alleles and assess the effects of recombination on phylogenetic inference. Here we analyzed the genomes of 119 strains of the marine actinomycete genus Salinispora, which is currently comprised of three named species that share 99% 16S rRNA gene sequence identity. While 63% of the core genome showed evidence of recombination, this had no effect on species-level phylogenomic resolution. Recombination did however blur intra-species relationships and biogeographic resolution. The genome-wide average nucleotide identity provided a new perspective on Salinispora diversity, revealing as many as seven new species. Patterns of orthologous group distributions reveal a genetic basis to delineation the candidate taxa and insight into the levels of genetic cohesion associated with bacterial species.
High-throughput rapid-prototyping of low-cost paper-based microfluidics
Authors: Ghaderinezhad Fariba , Amin Reza , Temirel Mikail , Yenilmez Bekir , Wentworth Adam , Tasoglu Savas
Published: June 2017

Paper-based micro analytical devices offer significant advantages compared to the conventional microfluidic chips including cost-effectiveness, ease of fabrication, and ease of use while preserving critical features including strong capillary action and biological compatibility. In this work, we demonstrate an inexpensive, rapid method for high-throughput fabrication of paper-based microfluidics by patterning hydrophobic barriers using a desktop pen plotter integrated with a custom-made, low-cost paper feeder. We tested various types of commercial permanent markers and compared their water-resistant capabilities for creating hydrophobic barriers. Additionally, we studied the performance of markers with different types of paper, plotting speeds, and pattern dimensions. To verify the effectiveness of the presented fabrication method, colorimetric analysis was performed on the results of a glucose assay.
Gene–physical activity interactions in lower extremity performance: inflammatory genes CRP, TNF-α, and LTA in community-dwelling elders
Authors: Liu Chiu-Shong , Li Tsai-Chung , Li Chia-Ing , Liao Li-Na , Yang Chuan-Wei , Lin Chih-Hsueh , Meng Nai-Hsin , Lin Wen-Yuan , Hu Sung-Lin , Hsiao Jen-Hao , Wu Fang-Yang , Lin Cheng-Chieh
Published: June 2017

We assessed gene–gene and gene-physical activity interactions of polymorphisms in C-reactive protein (CRP), tumor necrosis factor-α (TNF-α), and lymphotoxin α (LTA) genes on lower extremity performance in community-dwelling elders in Taiwan. Five SNPs (rs1205, rs1130864, rs1800947, rs2794520, and rs3093059) of CRP gene, three SNPs (rs909253, rs1041981, and rs2239704) of LTA gene, and three SNPs (rs3093662, rs1800629, and rs1799964) of TNF-α gene of 472 unrelated elders were genotyped. Lower extremity performance included timed up-and-go test (TUG), walking speed, weight-adjusted leg press (waLP), and timed chair stand (TCS). We detected significant interactions between physical activity with CRP rs2794520, rs1205, and rs3093059; LTA rs909253 and rs1041981; and TNF-α rs1799964 for TCS in women after covariate adjustment (all P < 0.05). In men, significant interactions between physical activity with CRP rs2794520, rs1205, and rs3093059; and LTA rs909253 and rs1041981 for TUG; with CRP rs2794520, rs1205, rs1130864, and rs3093059; and LTA rs909253 and rs1041981 for walking speed; and with TNF-α rs3093662 for waLP after covariate adjustment (all P < 0.05). These variants also significantly interacted with physical activity on TCS in women and on walking speed in men. These results show inflammatory genes are involved in lower extremity performance, likely via gene–physical activity interactions.
Mechanical stability of talin rod controls cell migration and substrate sensing
Authors: Rahikainen Rolle , von Essen Magdaléna , Schaefer Markus , Qi Lei , Azizi Latifeh , Kelly Conor , Ihalainen Teemu O. , Wehrle-Haller Bernhard , Bastmeyer Martin , Huang Cai , Hytönen Vesa P.
Published: June 2017

Cells adhere to the surrounding tissue and probe its mechanical properties by forming cell-matrix adhesions. Talin is a critical adhesion protein and participates in the transmission of mechanical signals between extracellular matrix and cell cytoskeleton. Force induced unfolding of talin rod subdomains has been proposed to act as a cellular mechanosensor, but so far evidence linking their mechanical stability and cellular response has been lacking. Here, by utilizing computationally designed mutations, we demonstrate that stepwise destabilization of the talin rod R3 subdomain decreases cellular traction force generation, which affects talin and vinculin dynamics in cell-matrix adhesions and results in the formation of talin-rich but unstable adhesions. We observed a connection between talin stability and the rate of cell migration and also found that talin destabilization affects the usage of different integrin subtypes and sensing of extracellular matrix proteins. Experiments with truncated forms of talin confirm the mechanosensory role of the talin R3 subdomain and exclude the possibility that the observed effects are caused by the release of talin head-rod autoinhibition. In conclusion, this study provides evidence into how the controlled talin rod domain unfolding acts as a key regulator of adhesion structure and function and consequently controls central cellular processes such as cell migration and substrate sensing.
EZH2-mediated epigenetic silencing of TIMP2 promotes ovarian cancer migration and invasion
Authors: Yi Xiaoqing , Guo Jianfeng , Guo Jing , Sun Si , Yang Ping , Wang Junjie , Li Yuan , Xie Lisha , Cai Jing , Wang Zehua
Published: June 2017

Enhancer of zeste homolog 2 (EZH2) is often increased in malignant tumors and is involved in metastasis. EZH2 silences gene expression by tri-methylating the lysine 27 residue of histone H3 (H3K27me3). However, the mechanism underlying EZH2 promotion of ovarian cancer metastasis remains elusive. Here, we showed that EZH2 is up-regulated in ovarian cancer and is associated with tumor metastasis and poor survival by mRNA sequencing and microarray results from databases. Tissue microarray and immunohistochemistry results revealed that EZH2 was negatively correlated with the expression of tissue inhibitor of metalloproteinases 2 (TIMP2). EZH2 overexpression inhibited TIMP2 expression and promoted proteolytic activities of matrix metalloproteinases 2 and 9 and vice versa. EZH2 promoted ovarian cancer invasion and migration, which could be largely reversed by TIMP2 down-regulation in vitro and in vivo. Both H3K27me3 inhibition and demethylation could reduce methylation of the TIMP2 promoter and finally reactivate TIMP2 transcription. The presence of EZH2 and H3K27me3 at the TIMP2 promoter was confirmed by chromatin immunoprecipitation. H3K27me3 and DNA methyltransferases at the promoter were significantly increased by EZH2 overexpression. These results suggest that EZH2 inhibits TIMP2 expression via H3K27me3 and DNA methylation, which relieve the repression of MMP and facilitate ovarian cancer invasion and migration.
Transcriptomic Analysis of the Regulation of Lipid Fraction Migration and Fatty Acid Biosynthesis in Schizochytrium sp.
Authors: Ren Lujing , Hu Xuechao , Zhao Xiaoyan , Chen Shenglan , Wu Yi , Li Dan , Yu Yadong , Geng Lingjun , Ji Xiaojun , Huang He
Published: June 2017

Schizochytrium sp. is the main source of docosahexaenoic acid-rich oil, which is widely used in food additive and pharmaceutical industry. In this study, using RNA-seq, comparative transcriptomic analyses were performed at four stages of DHA fermentation by Schizochytrium sp to get potential genes related to cell transition from cell growth to lipid accumulation and then to lipid turnover. 1406, 385, 1384 differently expressed genes were identified by comparisons in pairs of S2 vs S1, S3 vs S2 and S4 vs S3. Functional analysis revealed that binding and single-organism process might be involve in the cell transition from cell growth to lipid accumulation while oxidation-reduction process played an important role in the transition from lipid accumulation to lipid turnover. pfaC in the PKS pathway showed higher sensitivity to the environmental change, which might be the key regulator for enhancing PUFA biosynthesis in the future. Some other genes in signal transduction and cell transport were revealed to be related to lipid turnover, which would enrich the current knowledge regarding lipid metabolism and help to enhance the DHA production and enrich different lipid fractions by Schizochytrium in the future.
One-Pot Synthesis of GeAs Ultrafine Particles from Coal Fly Ash by Vacuum Dynamic Flash Reduction and Inert Gas Condensation
Authors: Zhang Lingen , Xu Zhenming
Published: June 2017

Ge-monopnictides (GeAs) plays critical role in high-tech industry, especially in the field of advanced optical devices and infrared. As a secondary material, coal fly ash could be further recycled to retrieve germanium and prepare GeAs material with high added values. Hence, the aim of this paper is to propose a one-pot synthesis that uses vacuum flash reduction and inert-gas consolidation method to prepare GeAs ultrafine particles. Germanium in coal fly ash can be successfully recycled; simultaneously, GeAs ultrafine particles were prepared. Separation principle and feasibility of this process was discussed. Temperature, carrier gas flow rate and system pressure were the major factors on formation, morphology and distribution of particle size of GeAs ultrafine particles. A three steps synthetic mechanism was clarified, namely, thermal rupture of coal fly ash and release of GeO2 and As2O3, the gas-solid phase reaction of GeO2, As2O3 and coke to generate metallic Ge and As in vacuum flash reduction. Meantime, GeAs were produced in the gas phase reaction. Finally, GeAs ultrafine particles were obtained by carrier gas condensation. In short, this research developed a practical and environment-friendly one-pot synthesis to recycle germanium in coal fly ash and prepare GeAs ultrafine particles with high added values.
Avalanche of entanglement and correlations at quantum phase transitions
Authors: Krutitsky Konstantin V. , Osterloh Andreas , Schützhold Ralf
Published: June 2017

We study the ground-state entanglement in the quantum Ising model with nearest neighbor ferromagnetic coupling J and find a sequential increase of entanglement depth d with growing J. This entanglement avalanche starts with two-point entanglement, as measured by the concurrence, and continues via the three-tangle and four-tangle, until finally, deep in the ferromagnetic phase for J = ∞, arriving at a pure L-partite (GHZ type) entanglement of all L spins. Comparison with the two, three, and four-point correlations reveals a similar sequence and shows strong ties to the above entanglement measures for small J. However, we also find a partial inversion of the hierarchy, where the four-point correlation exceeds the three- and two-point correlations, well before the critical point is reached. Qualitatively similar behavior is also found for the Bose-Hubbard model, suggesting that this is a general feature of a quantum phase transition. This should be taken into account in the approximations starting from a mean-field limit.
TGF-beta/atRA-induced Tregs express a selected set of microRNAs involved in the repression of transcripts related to Th17 differentiation
Authors: Schiavinato Josiane Lilian dos Santos , Haddad Rodrigo , Saldanha-Araujo Felipe , Baiochi João , Araujo Amélia Goes , Santos Scheucher Priscila , Covas Dimas Tadeu , Zago Marco Antonio , Panepucci Rodrigo Alexandre
Published: June 2017

Regulatory T cells (Tregs) are essential regulators of immune tolerance. atRA and TGF-β can inhibit the polarization of naïve T cells into inflammatory Th17 cells, favoring the generation of stable iTregs, however the regulatory mechanisms involved are not fully understood. In this context, the roles of individual microRNAs in Tregs are largely unexplored. Naïve T cells were immunomagnetically isolated from umbilical cord blood and activated with anti-human CD2/CD3/CD28 beads in the presence of IL-2 alone (CD4Med) or with the addition of TGF-β and atRA (CD4TGF/atRA). As compared to CD4Med, the CD4TGF/atRA condition allowed the generation of highly suppressive CD4+CD25hiCD127−FOXP3hi iTregs. Microarray profiling allowed the identification of a set of microRNAs that are exclusively expressed upon TGF-β/atRA treatment and that are predicted to target a set of transcripts concordantly downregulated. This set of predicted targets were enriched for central components of IL-6/JAK/STAT and AKT-mTOR signaling, whose inhibition is known to play important roles in the generation and function of regulatory lymphocytes. Finally, we show that mimics of exclusively expressed miRs (namely miR-1299 and miR-30a-5p) can reduce the levels of its target transcripts, IL6R and IL6ST (GP130), and increase the percentage of FoxP3+ cells among CD4+CD25+/hi cells.
Reduction in chromosome mobility accompanies nuclear organization during early embryogenesis in Caenorhabditis elegans
Authors: Arai Ritsuko , Sugawara Takeshi , Sato Yuko , Minakuchi Yohei , Toyoda Atsushi , Nabeshima Kentaro , Kimura Hiroshi , Kimura Akatsuki
Published: June 2017

In differentiated cells, chromosomes are packed inside the cell nucleus in an organised fashion. In contrast, little is known about how chromosomes are packed in undifferentiated cells and how nuclear organization changes during development. To assess changes in nuclear organization during the earliest stages of development, we quantified the mobility of a pair of homologous chromosomal loci in the interphase nuclei of Caenorhabditis elegans embryos. The distribution of distances between homologous loci was consistent with a random distribution up to the 8-cell stage but not at later stages. The mobility of the loci was significantly reduced from the 2-cell to the 48-cell stage. Nuclear foci corresponding to epigenetic marks as well as heterochromatin and the nucleolus also appeared around the 8-cell stage. We propose that the earliest global transformation in nuclear organization occurs at the 8-cell stage during C. elegans embryogenesis.
Facile preparation of water-soluble hyperbranched polyamine functionalized multiwalled carbon nanotubes for high-efficiency organic dye removal from aqueous solution
Authors: Hu Lihua , Yang Zhongping , Wang Yaoguang , Li Yan , Fan Dawei , Wu Di , Wei Qin , Du Bin
Published: June 2017

Water-soluble hyperbranched polyamine functionalized multiwalled carbon nanotubes nanocomposite (WHPA-OMCNT) was successfully prepared and applied to water remediation in this paper. WHPA-OMCNT was characterized by Fourier transform infrared spectroscopy (FTIR), thermogravimetric analysis (TGA), zeta potential, scanning electron microscopy (SEM) and transmission electron microscope (TEM) analyses. WHPA-OMCNT exhibited excellent adsorption performance for removal of organic dyes e.g., methylene blue (MB), malachite green (MG) and methyl violet (MV). The equilibrium adsorption capacity was 800.0 mg g−1 for MB, 840.3 mg g−1 for MG and 970.9 mg g−1 for MV under the optimal conditions. The pseudo-second order equation and the Langmuir model exhibited good correlation with the adsorption kinetic and isotherm data for all three pollutants, respectively. The thermodynamic results (ΔG < 0, ΔH < 0, ΔS < 0) implied that the adsorption process of MB, MG and MV was feasible, exothermic and spontaneous in nature. A possible adsorption mechanism has been proposed, where H-bonding, electrostatic attraction and π-π stacking interactions dominated the adsorption of the organic dyes. In addition, the excellent reproducibility endowed WHPA-OMCNT with the potential for application in water treatment.
A novel cell membrane affinity sample pretreatment technique for recognition and preconcentration of active components from traditional Chinese medicine
Authors: Bu Yusi , He Xiaoshuang , Hu Qi , Wang Cheng , Xie Xiaoyu , Wang Sicen
Published: June 2017

We describe a novel biomembrane affinity sample pretreatment technique to quickly screen and preconcentrate active components from traditional Chinese medicine (TCM), which adopts cell membrane coated silica particles (CMCSPs) as affinity ligands which benefit the biomembrane’s ability to maximize simulation of drug-receptor interactions in vivo. In this study, the prepared CMCSPs formed by irreversible adsorption of fibroblast growth factor receptor 4 (FGFR4) cell membrane on the surface of silica were characterized using different spectroscopic and imaging instruments. Drug binding experiments showed the excellent adsorption rate and adsorption capacity of FGFR4/CMCSPs compared with non-coated silica particles. The FGFR4/CMCSPs were used as solid-phase extraction sorbents to pretreat the TCM Aconitum szechenyianum Gay. The resultant FGFR4/CMCSPs exhibited good performance. In addition, high selectivity and recognition ability of the FGFR4/CMCSPs were determined by selectivity experiments. Four alkaloid were screened and identified, one of these alkaloid, napellonine, showed favorable anti-tumor activity in preliminary pharmacological verification trials including cell proliferation and molecular docking assays. The proposed cell membrane affinity sample pretreatment method is a reliable, effective and time-saving method for fast screening and enriching active compounds and can be extended to pretreat other TCMs as leading compounds resources.
Significance of Natural Scene Statistics in Understanding the Anisotropies of Perceptual Filling-in at the Blind Spot
Authors: Raman Rajani , Sarkar Sandip
Published: June 2017

Psychophysical experiments reveal our horizontal preference in perceptual filling-in at the blind spot. On the other hand, tolerance in filling-in exhibit vertical preference. What causes this anisotropy in our perception? Building upon the general notion that the functional properties of the early visual system are shaped by the innate specification as well as the statistics of the environment, we reasoned that the anisotropy in filling-in could be understood in terms of anisotropy in orientation distribution inherent in natural scene statistics. We examined this proposition by investigating filling-in of bar stimuli in a Hierarchical Predictive Coding model network. The model network, trained with natural images, exhibited anisotropic filling-in performance at the blind spot, which is similar to the findings of psychophysical experiments. We suggest that the over-representation of horizontal contours in the natural scene contributes to the observed horizontal superiority in filling-in and the broader distribution of vertical contours contributes to the observed vertical superiority of tolerance in filling-in. These results indicate that natural scene statistics plays a significant role in determining the filling-in performance at the blind spot and shaping the associated anisotropies.
Dynamics of maternally transferred trace elements in oyster larvae and latent growth effects
Authors: Weng Nanyan , Wang Wen-Xiong
Published: June 2017

Understanding the maternal transfer of contaminants and their potential effects has great implications for a valid ecological assessment of environmental pollution. However, relevant studies on marine bivalves are very limited. Here, we examined the maternal transfer of trace metals in populations of oysterCrassostrea hongkongensiswith contrasting metal exposure histories. Elevated accumulation of trace metals was observed in eggs and larvae from contaminated sites, suggesting maternal transfer of multi-metals in natural oyster populations. The dynamics of maternally transferred metals was for the first time documented in this study. We demonstrated that excessively transferred metals in contaminated larvae were rapidly eliminated during the early developmental stage, and the efflux rate of metals in larvae was greatly dependent on environmental contamination level. These results provided the first field evidence of modified metal biokinetics in offsprings due to exposure history of adults in marine bivalves. Moreover, egg production was negatively correlated with the contamination level of metals in eggs. There was a further lagged growth in the contaminated larvae, indicating the potential adverse and latent effects of maternally transferred metals on the viability of oyster offspring. Our findings highlighted the importance of transgenerational studies on long-term metal exposure in marine bivalves.
Shaping electromagnetic waves using software-automatically-designed metasurfaces
Authors: Zhang Qian , Wan Xiang , Liu Shuo , Yuan Yin Jia , Zhang Lei , Jun Cui Tie
Published: June 2017

We present a fully digital procedure of designing reflective coding metasurfaces to shape reflected electromagnetic waves. The design procedure is completely automatic, controlled by a personal computer. In details, the macro coding units of metasurface are automatically divided into several types (e.g. two types for 1-bit coding, four types for 2-bit coding, etc.), and each type of the macro coding units is formed by discretely random arrangement of micro coding units. By combining an optimization algorithm and commercial electromagnetic software, the digital patterns of the macro coding units are optimized to possess constant phase difference for the reflected waves. The apertures of the designed reflective metasurfaces are formed by arranging the macro coding units with certain coding sequence. To experimentally verify the performance, a coding metasurface is fabricated by automatically designing two digital 1-bit unit cells, which are arranged in array to constitute a periodic coding metasurface to generate the required four-beam radiations with specific directions. Two complicated functional metasurfaces with circularly- and elliptically-shaped radiation beams are realized by automatically designing 4-bit macro coding units, showing excellent performance of the automatic designs by software. The proposed method provides a smart tool to realize various functional devices and systems automatically.
Secretory laccase 1 in Bemisia tabaci MED is involved in whitefly-plant interaction
Authors: Yang Chun-Hong , Guo Jian-Yang , Chu Dong , Ding Tian-Bo , Wei Ke-Ke , Cheng Deng-Fa , Wan Fang-Hao
Published: June 2017

The whitefly Bemisia tabaci is a phloem-feeding pest that lives predominantly on herbaceous species and causes serious damage to hosts. Whitefly saliva is thought to contain proteins that modulate plant defences and facilitate feeding. A predicted secreted protein, laccase 1 (LAC1), was found in the salivary gland transcriptome of B. tabaci and might be existed in the watery saliva of B. tabaci. As LAC1 has a potential role in detoxification of secondary plant compounds in insects, we speculated that it may participate in the insect’s response to plant defences. Here, we cloned the complete cDNA of LAC1 and found that (1) LAC1 was highly expressed in the salivary gland (SG) and midgut; (2) LAC1 transcript level in head (containing SG) was 2.1 times higher in plant-fed than in diet-fed whiteflies and 1.6 times higher in the head and 23.8 times higher in the midgut of whiteflies that fed on jasmonic acid (JA)-sprayed plants than on control plants; and (3) silencing LAC1 decreased the survival rate of plant-fed whiteflies but had a marginal effect on whiteflies raised on an artificial diet. These results indicate that LAC1 enables whiteflies to overcome the chemical defences of host plants and might act as an effector in saliva.
A functional SUMO-motif in the active site of PIM1 promotes its degradation via RNF4, and stimulates protein kinase activity
Authors: Iyer R. Sumanth , Chatham Lynsey , Sleigh Roger , Meek David W.
Published: June 2017

The PIM1 serine/threonine protein kinase mediates growth factor and survival signalling, and cooperates potently with c-MYC during tumorigenesis. PIM1 is overexpressed in many human cancers and is a promising target for drug development. PIM1 levels are regulated mainly through cytokine-induced transcription and protein degradation, but mechanisms regulating its activity and levels remain largely unexplored. Here, we show that PIM1 is modified in vitro and in cultured cells by the Small ubiquitin-like modifier (SUMO) on two independent sites: K169, within a consensus SUMOylation motif (IK169DE171) in the active site of PIM1, and also at a second promiscuous site. Alanine substitution of E171 (within the consensus motif) abolished SUMOylation, significantly increased the half-life of PIM1, and markedly reduced its ubiquitylation. Mechanistically, SUMOylation promoted ubiquitin-mediated degradation of PIM1 via recruitment of the SUMO-targeted ubiquitin ligase, RNF4. Additionally, SUMOylated PIM1 showed enhanced protein kinase activity in vitro. Interestingly, the E171A mutant was active in vitro but displayed altered substrate specificity in cultured cells, consistent with the idea that SUMOylation may govern PIM1 substrate specificity under certain contexts. Taken together, these data demonstrate that the protein kinase activity and levels of PIM1 can be regulated by a covalent post-translational modification.
Shared and Specific Intrinsic Functional Connectivity Patterns in Unmedicated Bipolar Disorder and Major Depressive Disorder
Authors: Wang Ying , Wang Junjing , Jia Yanbin , Zhong Shuming , Niu Meiqi , Sun Yao , Qi Zhangzhang , Zhao Ling , Huang Li , Huang Ruiwang
Published: June 2017

Identifying brain differences and similarities between bipolar disorder (BD) and major depressive disorder (MDD) is necessary for increasing our understanding of the pathophysiology and for developing more effective treatments. However, the features of whole-brain intrinsic functional connectivity underlying BD and MDD have not been directly compared. We collected resting-state fMRI data from 48 BD patients, 48 MDD patients, and 51 healthy subjects. We constructed voxel-wise whole-brain functional networks and computed regional functional connectivity strength (FCS) using graph-theory and further divided the regional FCS into long-range FCS (lFCS) and short-range FCS (sFCS). Relative to the controls, both the BD and MDD patients showed decreased sFCS in the bilateral precuneus. In addition, the BD patients showed increased and the MDD patients showed decreased lFCS and sFCS in the bilateral cerebellum. The BD patients also showed increased lFCS in the right middle temporal gyrus and increased sFCS in the bilateral thalamus compared to either the MDD patients or the controls. These findings suggest that BD and MDD may have some shared as well as a greater number of specific impairments in their functional connectivity patterns, providing new evidence for the pathophysiology of BD and MDD at the large-scale whole brain connectivity level.
Novel complex of HAT protein TIP60 and nuclear receptor PXR promotes cell migration and adhesion
Authors: Bakshi Karishma , Ranjitha B. , Dubey Shraddha , Jagannadham Jaisri , Jaiswal Bharti , Gupta Ashish
Published: June 2017

PXR is a member of nuclear receptor superfamily and a well-characterized mediator of xenobiotic metabolism. The classical mode of PXR activation involves its binding to appropriate ligand and subsequent heterodimerization with its partner RXR. However, various factors such as post-translational modifications and crosstalk with different cellular factors may also regulate the functional dynamics and behavior of PXR. In the present study, we have identified that TIP60, an essential lysine acetyltransferase protein interacts with unliganded PXR and together this complex promotes cell migration & adhesion. TIP60 utilizes its NR Box to interact with LBD region of PXR and acetylates PXR at lysine 170 to induce its intranuclear reorganization. Also, RXR is not required for TIP60-PXR complex formation and this complex does not induce ligand-dependent PXR target gene transactivation. Interestingly, we observed that PXR augments the catalytic activity of TIP60 for histones. This is the first report demonstrating the exclusive interaction of TIP60 with PXR and uncovers a potential role for the TIP60-PXR complex in cell migration and adhesion.
An anti vimentin antibody promotes tube formation
Authors: Jørgensen Mathias Lindh , Møller Carina Kjeldahl , Rasmussen Lasse , Boisen Louise , Pedersen Henrik , Kristensen Peter
Published: June 2017

In recent years, there has been an increasing appreciation of the importance of secreted and extracellular proteins that traditionally have been considered as intracellular components. Vimentin is a highly abundant intermediate filament protein, and its intracellular functions have been investigated in a large number of studies. Recently, however, vimentin has been shown to take part in significant processes outside the cell. Our understanding of the functions of extracellular vimentin is, however, limited. In this study we demonstrate that a vimentin specific antibody, obtained by phage antibody technology, promotes tube formation of endothelial cells in a 2D matrigel assay. By binding vimentin, the antibody increases the tube formation by 21% after 5 hours of incubation. Addition of the antibody directly to cultured endothelial cells does not influence endothelial cell migration or proliferation. The enhanced tube formation can be seen for up to 10 hours where after the effect decreases. It is shown that the antibody-binding site is located on the coil 2 domain of vimentin. To our knowledge this is the first study that demonstrates an enhanced tube formation by binding vimentin in a 2D matrigel assay under normoxic conditions.
Nanotopological plate stimulates osteogenic differentiation through TAZ activation
Authors: Hwang Jun-Ha , Lee Dong-Hyun , Byun Mi Ran , Kim A. Rum , Kim Kyung Min , Park Jung Il , Oh Ho Taek , Hwang Eun Sook , Lee Kyu Back , Hong Jeong-Ho
Published: June 2017

The topographical environment, which mimics the stem cell niche, provides mechanical cues to regulate the differentiation of mesenchymal stem cells (MSC). Diverse topographical variations have been engineered to investigate cellular responses; however, the types of mechanical parameters that affect cells, and their underlying mechanisms remain largely unknown. In this study, we screened nanotopological pillars with size gradient to activate transcriptional coactivator with PDZ binding motif (TAZ), which stimulates osteogenesis of MSC. We observed that a nanotopological plate, 70 nm in diameter, significantly induces osteogenic differentiation with the activation of TAZ. TAZ activation via the nanotopological plate was mediated by actin polymerization and Rho signaling, as evidenced by the cytosolic localization of TAZ under F-actin or Rho kinase inhibitor. The FAK and MAPK pathways also play a role in TAZ activation by the nanotopological plate because the inhibitor of ERK and JNK blocked nanopattern plate induced osteogenic differentiation. Taken together, these results indicate that nanotopology regulates cell differentiation through TAZ activation.
Switching and extension of transmission response, based on bending metamaterials
Authors: Hwang J. S. , Kim Y. J. , Yoo Y. J. , Kim K. W. , Rhee J. Y. , Chen L. Y. , Lee Y. P.
Published: June 2017

The electromagnetically-induced transparency (EIT)-like effects in planar and non-planar metamaterials (MMs) were investigated for microwave (GHz) frequencies. The specific MMs used in this study consisted of a cut-wire resonator and a ring resonator, where were placed on the top and the bottom layers, respectively. A transmission window was produced, due to the interference between bright- and bright-mode coupling. Using the numerical and the experimental results, we demonstrate that the bending of MM leads to enhanced transmission and bandwidth, as well as an additional EIT-like peak. This provides an effective way of realizing the tunable devices, including the switching sensors.