bluuebunny/crossref_metadata_2025_split huggingface dataset:
Mapping B-cell responses to Salmonella enterica serovars Typhimurium and Enteritidis in chickens for the discrimination of infected from vaccinated animals
Authors: Naqid Ibrahim A. , Owen Jonathan P. , Maddison Ben C. , Spiliotopoulos Anastasios , Emes Richard D. , Warry Andrew , Flynn Robin J. , Martelli Francesca , Gosling Rebecca J. , Davies Robert H. , La Ragione Roberto M. , Gough Kevin C. 
Published: August 2016

AbstractSerological surveillance and vaccination are important strategies for controlling infectious diseases of food production animals. However, the compatibility of these strategies is limited by a lack of assays capable of differentiating infected from vaccinated animals (DIVA tests) for established killed or attenuated vaccines. Here, we used next generation phage-display (NGPD) and a 2-proportion Z score analysis to identify peptides that were preferentially bound by IgY from chickens infected with Salmonella Typhimurium or S. Enteritidis compared to IgY from vaccinates, for both an attenuated and an inactivated commercial vaccine. Peptides that were highly enriched against IgY from at least 4 out of 10 infected chickens were selected: 18 and 12 peptides for the killed and attenuated vaccines, respectively. The ten most discriminatory peptides for each vaccine were identified in an ELISA using a training set of IgY samples. These peptides were then used in multi-peptide assays that, when analysing a wider set of samples from infected and vaccinated animals, diagnosed infection with 100% sensitivity and specificity. The data describes a method for the development of DIVA assays for conventional attenuated and killed vaccines.
Quantum measurement-induced antiferromagnetic order and density modulations in ultracold Fermi gases in optical lattices
Authors: Mazzucchi Gabriel , Caballero-Benitez Santiago F. , Mekhov Igor B. 
Published: August 2016

AbstractUltracold atomic systems offer a unique tool for understanding behavior of matter in the quantum degenerate regime, promising studies of a vast range of phenomena covering many disciplines from condensed matter to quantum information and particle physics. Coupling these systems to quantized light fields opens further possibilities of observing delicate effects typical of quantum optics in the context of strongly correlated systems. Measurement backaction is one of the most funda- mental manifestations of quantum mechanics and it is at the core of many famous quantum optics experiments. Here we show that quantum backaction of weak measurement can be used for tailoring long-range correlations of ultracold fermions, realizing quantum states with spatial modulations of the density and magnetization, thus overcoming usual requirement for a strong interatomic interactions. We propose detection schemes for implementing antiferromagnetic states and density waves. We demonstrate that such long-range correlations cannot be realized with local addressing, and they are a consequence of the competition between global but spatially structured backaction of weak quantum measurement and unitary dynamics of fermions.
Design of a Yellow-Emitting Phosphor with Enhanced Red Emission via Valence State-control for Warm White LEDs Application
Authors: Chen Jian , Liu Yangai , Mei Lefu , Peng Peng , Cheng Qijin , Liu Haikun 
Published: August 2016

AbstractThe phosphor-converted warm W-LED have being rapidly developed due to the stringent requirements of general illumination. Here, we utilized a strategy to synergistically enhance the red region and emission intensity of novel Eu-activated yellow-emitting LaSiO2N phosphors. This was realized by predicting optimum crystal structure and governing the concentration of doping ions as well as preparation temperature. By using these straight-forward methods, we were able to vary the valence to enhance the red region and improve the quantum efficiency of LaSiO2N phosphor. The warm W-LED lamp fabricated with this red region enhanced LaSiO2N:Eu phosphor exhibited high CRI (Ra = 86), suitable CCT (5783 K) and CIE chromaticity (0.33, 0.36), indicating this synergistically enhanced strategy could be used for design of yellow-emitting phosphor materials to obtain warm W-LEDs.
Critical features of acute stress-induced cross-sensitization identified through the hypothalamic-pituitary-adrenal axis output
Authors: Belda Xavier , Nadal Roser , Armario Antonio 
Published: August 2016

AbstractStress-induced sensitization represents a process whereby prior exposure to severe stressors leaves animals or humans in a hyper-responsive state to further stressors. Indeed, this phenomenon is assumed to be the basis of certain stress-associated pathologies, including post-traumatic stress disorder and psychosis. One biological system particularly prone to sensitization is the hypothalamic-pituitary-adrenal (HPA) axis, the prototypic stress system. It is well established that under certain conditions, prior exposure of animals to acute and chronic (triggering) stressors enhances HPA responses to novel (heterotypic) stressors on subsequent days (e.g. raised plasma ACTH and corticosterone levels). However, such changes remain somewhat controversial and thus, the present study aimed to identify the critical characteristics of the triggering and challenging stressors that affect acute stress-induced HPA cross-sensitization in adult rats. We found that HPA cross-sensitization is markedly influenced by the intensity of the triggering stressor, whereas the length of exposure mainly affects its persistence. Importantly, HPA sensitization is more evident with mild than strong challenging stressors, and it may remain unnoticed if exposure to the challenging stressor is prolonged beyond 15 min. We speculate that heterotypic HPA sensitization might have developed to optimize biologically adaptive responses to further brief stressors.
Social exclusion modulates priorities of attention allocation in cognitive control
Authors: Xu Mengsi , Li Zhiai , Diao Liuting , Zhang Lijie , Yuan Jiajin , Ding Cody , Yang Dong 
Published: August 2016

AbstractMany studies have investigated how exclusion affects cognitive control and have reported inconsistent results. However, these studies usually treated cognitive control as a unitary concept, whereas it actually involved two main sub-processes: conflict detection and response implementation. Furthermore, existing studies have focused primarily on exclusion’s effects on conscious cognitive control, while recent studies have shown the existence of unconscious cognitive control. Therefore, the present study investigated whether and how exclusion affects the sub-processes underlying conscious and unconscious cognitive control differently. The Cyberball game was used to manipulate social exclusion and participants subsequently performed a masked Go/No-Go task during which event-related potentials were measured. For conscious cognitive control, excluded participants showed a larger N2 but smaller P3 effects than included participants, suggesting that excluded people invest more attention in conscious conflict detection, but less in conscious inhibition of impulsive responses. However, for unconscious cognitive control, excluded participants showed a smaller N2 but larger P3 effects than included participants, suggesting that excluded people invest less attention in unconscious conflict detection, but more in unconscious inhibition of impulsive responses. Together, these results suggest that exclusion causes people to rebalance attention allocation priorities for cognitive control according to a more flexible and adaptive strategy.
Early activation of MyD88-mediated autophagy sustains HSV-1 replication in human monocytic THP-1 cells
Authors: Siracusano Gabriel , Venuti Assunta , Lombardo Daniele , Mastino Antonio , Esclatine Audrey , Sciortino Maria Teresa 
Published: August 2016

AbstractAutophagy is a cellular degradation pathway that exerts numerous functions in vital biological processes. Among these, it contributes to both innate and adaptive immunity. On the other hand, pathogens have evolved strategies to manipulate autophagy for their own advantage. By monitoring autophagic markers, we showed that HSV-1 transiently induced autophagosome formation during early times of the infection of monocytic THP-1 cells and human monocytes. Autophagy is induced in THP-1 cells by a mechanism independent of viral gene expression or viral DNA accumulation. We found that the MyD88 signaling pathway is required for HSV-1-mediated autophagy and it is linked to the toll-like receptor 2 (TLR2). Interestingly, autophagy inhibition by pharmacological modulators or siRNA knockdown impaired viral replication in both THP-1 cells and human monocytes, suggest that the virus exploits the autophagic machinery to its own benefit in these cells. Taken together, these findings indicate that the early autophagic response induced by HSV-1 exerts a proviral role, improving viral production in a semi-permissive model such as THP-1 cells and human monocytes.
Comparative Transcriptome Analysis Identifies Candidate Genes Related to Skin Color Differentiation in Red Tilapia
Authors: Zhu Wenbin , Wang Lanmei , Dong Zaijie , Chen Xingting , Song Feibiao , Liu Nian , Yang Hui , Fu Jianjun 
Published: August 2016

AbstractRed tilapia is becoming more popular for aquaculture production in China in recent years. However, the pigmentation differentiation in genetic breeding is the main problem limiting its development of commercial red tilapia culture and the genetic basis of skin color variation is still unknown. In this study, we conducted Illumina sequencing of transcriptome on three color variety red tilapia. A total of 224,895,758 reads were generated, resulting in 160,762 assembled contigs that were used as reference contigs. The contigs of red tilapia transcriptome had hits in the range of 53.4% to 86.7% of the unique proteins of zebrafish, fugu, medaka, three-spined stickleback and tilapia. And 44,723 contigs containing 77,423 simple sequence repeats (SSRs) were identified, with 16,646 contigs containing more than one SSR. Three skin transcriptomes were compared pairwise and the results revealed that there were 148 common significantly differentially expressed unigenes and several key genes related to pigment synthesis, i.e. tyr, tyrp1, silv, sox10, slc24a5, cbs and slc7a11, were included. The results will facilitate understanding the molecular mechanisms of skin pigmentation differentiation in red tilapia and accelerate the molecular selection of the specific strain with consistent skin colors.
Hypertension and risk of prostate cancer: a systematic review and meta-analysis
Authors: Liang Zhen , Xie Bo , Li Jiangfeng , Wang Xiao , Wang Song , Meng Shuai , Ji Alin , Zhu Yi , Xu Xin , Zheng Xiangyi , Xie Liping 
Published: August 2016

AbstractThe previously reported association between hypertension and prostate cancer risk was controversial. We performed this systematic review and meta-analysis of all available studies to summarize evidence on this association. Studies were identified by searching PubMed, Web of Science and Chinese National Knowledge Infrastructure (CNKI) databases through January 2016. Pooled relative risks (RRs) with their corresponding 95% confidence intervals (CIs) were calculated using a random-effects model. A total of 21 published studies were included in this meta-analysis. A significant increase in the risk of prostate cancer (RR 1.08, 95% CI 1.02–1.15, P = 0.014) was observed among individuals with hypertension. There was statistically significant heterogeneity among included studies (P < 0.001 for heterogeneity, I2 = 72.1%). No obvious evidence of significant publication bias was detected by either Begg’s test (P = 0.174) or Egger’s test (P = 0.277). In conclusion, this meta-analysis indicates that hypertension may be associated with an increased risk of prostate cancer. Considering the substantial heterogeneity and residual confounding among included studies, further large-scale, well-designed prospective cohorts, as well as mechanistic studies, are urgently needed to confirm our preliminary findings.
Accurate Estimation of the Intrinsic Dimension Using Graph Distances: Unraveling the Geometric Complexity of Datasets
Authors: Granata Daniele , Carnevale Vincenzo 
Published: August 2016

AbstractThe collective behavior of a large number of degrees of freedom can be often described by a handful of variables. This observation justifies the use of dimensionality reduction approaches to model complex systems and motivates the search for a small set of relevant “collective” variables. Here, we analyze this issue by focusing on the optimal number of variable needed to capture the salient features of a generic dataset and develop a novel estimator for the intrinsic dimension (ID). By approximating geodesics with minimum distance paths on a graph, we analyze the distribution of pairwise distances around the maximum and exploit its dependency on the dimensionality to obtain an ID estimate. We show that the estimator does not depend on the shape of the intrinsic manifold and is highly accurate, even for exceedingly small sample sizes. We apply the method to several relevant datasets from image recognition databases and protein multiple sequence alignments and discuss possible interpretations for the estimated dimension in light of the correlations among input variables and of the information content of the dataset.
Ozone/graphene oxide catalytic oxidation: a novel method to degrade emerging organic contaminant N, N-diethyl-m-toluamide (DEET)
Authors: Liu Jia-Nan , Chen Zhuo , Wu Qian-Yuan , Li Ang , Hu Hong-Ying , Yang Cheng 
Published: August 2016

AbstractN, N-diethyl-m-toluamide (DEET) is one of the important emerging contaminants that are being increasingly detected in reclaimed water as well as in drinking water sources. However, DEET is refractory to conventional biological treatment and pure ozone which is absent of hydroxyl radical. Current researches on the efficient removal of DEET are still quite limited. This study utilizes a novel method, namely ozone/graphene oxide (O3/GO), to investigate the effects on DEET removal in aqueous systems, especially in reclaimed water. The results indicate that the DEET degradation rate was significantly accelerated through the combined effect of GO and ozonation which can yield abundant hydroxyl radical, compared to pure ozone condition. According to hydroxyl radical scavenging experiments, hydroxyl radical was found to play a dominant role in synergistic removal of DEET. These findings can offer sound suggestions for future research on the removal of emerging organic contaminants. The information could also be beneficial to reclaimed water safety and sustainable management.
Prevalence, awareness, treatment, control of type 2 diabetes mellitus and risk factors in Chinese rural population: the RuralDiab study
Authors: Liu Xiaotian , Li Yuqian , Li Linlin , Zhang Luning , Ren Yongcheng , Zhou Hao , Cui Lingling , Mao Zhenxing , Hu Dongsheng , Wang Chongjian 
Published: August 2016

AbstractThe study aimed to investigate prevalence, awareness, treatment and control of type 2 diabetes mellitus (T2DM), and to explore potential risk factors in rural areas of China. A total of 16413 individuals aged 18–74 years in rural districts were recruited from the Rural Diabetes, Obesity and Lifestyle (RuralDiab) study for the epidemiological research. Meanwhile, a meta-analysis including 7 published studies was conducted to validate the result of the cross-sectional study. The rates of crude and age-standardized prevalence, awareness, treatment and control of T2DM were 12.19%, 67.00%, 62.35%, 22.20% and 6.98%, 60.11%, 54.85%, 18.77%, respectively. The prevalence, awareness, treatment and control of T2DM displayed increased trends with age (Ptrend < 0.01) and were strongly associated with education, drinking, more vegetable and fruit intake, physical activity, family history of diabetes, body mass index (BMI). The results of this meta-analysis showed that the pooled prevalence, awareness, treatment and control of T2DM in China countryside were 7.3% (5.3–9.4%), 57.3% (36.9–77.6%), 48.4% (32.4–64.5%) and 21.0% (9.9–32.1%), respectively. The prevalence of T2DM was high with inadequate awareness, treatment and control of T2DM in China rural areas. Healthy lifestyles should be advocated to reduce prevalence and improve awareness, treatment, and control of T2DM in Chinese rural residents.
Retinal Structures and Visual Cortex Activity are Impaired Prior to Clinical Vision Loss in Glaucoma
Authors: Murphy Matthew C. , Conner Ian P. , Teng Cindy Y. , Lawrence Jesse D. , Safiullah Zaid , Wang Bo , Bilonick Richard A. , Kim Seong-Gi , Wollstein Gadi , Schuman Joel S. , Chan Kevin C. 
Published: August 2016

AbstractGlaucoma is the second leading cause of blindness worldwide and its pathogenesis remains unclear. In this study, we measured the structure, metabolism and function of the visual system by optical coherence tomography and multi-modal magnetic resonance imaging in healthy subjects and glaucoma patients with different degrees of vision loss. We found that inner retinal layer thinning, optic nerve cupping and reduced visual cortex activity occurred before patients showed visual field impairment. The primary visual cortex also exhibited more severe functional deficits than higher-order visual brain areas in glaucoma. Within the visual cortex, choline metabolism was perturbed along with increasing disease severity in the eye, optic radiation and visual field. In summary, this study showed evidence that glaucoma deterioration is already present in the eye and the brain before substantial vision loss can be detected clinically using current testing methods. In addition, cortical cholinergic abnormalities are involved during trans-neuronal degeneration and can be detected non-invasively in glaucoma. The current results can be of impact for identifying early glaucoma mechanisms, detecting and monitoring pathophysiological events and eye-brain-behavior relationships, and guiding vision preservation strategies in the visual system, which may help reduce the burden of this irreversible but preventable neurodegenerative disease.
A Novel Nitrobenzoate Microtubule Inhibitor that Overcomes Multidrug Resistance Exhibits Antitumor Activity
Authors: Zheng Yan-Bo , Gong Jian-Hua , Liu Xiu-Jun , Wu Shu-Ying , Li Yi , Xu Xian-Dong , Shang Bo-Yang , Zhou Jin-Ming , Zhu Zhi-Ling , Si Shu-Yi , Zhen Yong-Su 
Published: August 2016

AbstractMultidrug resistance is a major limitation for microtubule-binding agents in cancer treatment. Here we report a novel microtubule inhibitor (2-morpholin-4-yl-5-nitro-benzoic acid 4-methylsulfanyl-benzyl ester, IMB5046), its cytotoxicity against multidrug-resistant cell lines and its antitumor efficacy in animal models. IMB5046 disrupted microtubule structures in cells and inhibited purified tubulin polymerization in vitro. It bound to the colchicine pocket of tubulin. IMB5046 displayed potent cytotoxicity against multiple tumor cell lines with an IC50 range of 0.037–0.426 μM. Notably, several multidrug-resistant cell lines which were resistant to colchicine, vincristine and paclitaxel remained sensitive to IMB5046. IMB5046 was not a P-glycoprotein substrate. IMB5046 blocked cell cycle at G2/M phase and induced cell apoptosis. Microarray assay indicated that the differentially expressed genes after IMB5046 treatment were highly related to immune system, cell death and cancer. In a mouse xenograft model IMB5046 inhibited the growth of human lung tumor xenograft by 83% at a well-tolerated dose. It is concluded that IMB5046 is a tubulin polymerization inhibitor with novel chemical structure and can overcome multidrug resistance. It is a promising lead compound for cancer chemotherapy, especially for treatment of multidrug-resistant tumors.
One-year Survey of human enteroviruses from sewage and the factors affecting virus adsorption to the suspended solids
Authors: Tao Zexin , Wang Zhongtang , Lin Xiaojuan , Wang Suting , Wang Haiyan , Yoshida Hiromu , Xu Aiqiang , Song Yanyan 
Published: August 2016

AbstractThis study described the results of environmental enterovirus surveillance conducted in Shandong Province of China in 2013. Altogether 39 sewage samples were collected and 873 enterovirus isolates (including 334 polioviruses) belonging to 22 serotypes were obtained. Echovirus (E) -7, coxsackievirus (CV) -B5, E-11, E-6, and E-3 were the most commonly detected non-polio enterovirus serotypes, and phylogeny of E-7 and CV-B5 was described. The numbers of isolates of different serotypes from sewage supernatant were compared with those from the solids. Interestingly, dramatic divergence was observed between the supernatant and solids origin for the serotypes of E-3 and E-6, which were prone to the solids and supernatant, respectively. A following adsorption test with E-3 and E-6 added sewage specimens confirmed the different preference. Furthermore, the adsorption of Sabin poliovirus type 1 to the solids under different conditions was investigated, and the results showed that acid medium, cold temperature, and high solids concentration facilitated the viral adsorption to the solids, whereas change of virus titer did not influence the proportion of adsorption. These results highlighted the importance of combining the enterovirus isolates from the supernatant and solids together in environmental surveillance so as to better understand the local circulation of different serotypes.
A novel secondary structure based on fused five-membered rings motif
Authors: Dhar Jesmita , Kishore Raghuvansh , Chakrabarti Pinak 
Published: August 2016

AbstractAn analysis of protein structures indicates the existence of a novel, fused five-membered rings motif, comprising of two residues (i and i + 1), stabilized by interresidue Ni+1–H∙∙∙Ni and intraresidue Ni+1–H∙∙∙O=Ci+1 hydrogen bonds. Fused-rings geometry is the common thread running through many commonly occurring motifs, such as β-turn, β-bulge, Asx-turn, Ser/Thr-turn, Schellman motif and points to its structural robustness. A location close to the beginning of a β-strand is rather common for the motif. Devoid of side chain, Gly seems to be a key player in this motif, occurring at i, for which the backbone torsion angles cluster at ~(−90°, −10°) and (70°, 20°). The fused-rings structures, distant from each other in sequence, can hydrogen bond with each other and the two segments aligned to each other in a parallel fashion, give rise to a novel secondary structure, topi, which is quite common in proteins, distinct from two major secondary structures, α-helix and β-sheet. Majority of the peptide segments making topi are identified as aggregation-prone and the residues tend to be conserved among homologous proteins.
Macromolecular structure phasing by neutron anomalous diffraction
Authors: Cuypers Maxime G. , Mason Sax A. , Mossou Estelle , Haertlein Michael , Forsyth V. Trevor , Mitchell Edward P. 
Published: August 2016

AbstractIn this report we show for the first time that neutron anomalous dispersion can be used in a practical manner to determine experimental phases of a protein crystal structure, providing a new tool for structural biologists. The approach is demonstrated through the use of a state-of-the-art monochromatic neutron diffractometer at the Institut Laue-Langevin (ILL) in combination with crystals of perdeuterated protein that minimise the level of hydrogen incoherent scattering and enhance the visibility of the anomalous signal. The protein used was rubredoxin in which cadmium replaced the iron at the iron-sulphur site. While this study was carried out using a steady-state neutron beam source, the results will be of major interest for capabilities at existing and emerging spallation neutron sources where time-of-flight instruments provide inherent energy discrimination. In particular this capability may be expected to offer unique opportunities to a rapidly developing structural biology community where there is increasing interest in the identification of protonation states, protein/water interactions and protein-ligand interactions – all of which are of central importance to a wide range of fundamental and applied areas in the biosciences.