bluuebunny/crossref_metadata_2025_split huggingface dataset:
MIER3 suppresses colorectal cancer progression by down-regulating Sp1, inhibiting epithelial-mesenchymal transition
Authors: Peng Man , Hu Yukun , Song Wen , Duan Shiyu , Xu Qiong , Ding Yanqing , Geng Jian , Zhou Jun 
Published: September 2017

AbstractMesoderm induction early response 1, family member 3 (MIER3) has recently been identified as a potential cancer susceptibility gene. However, the expression pattern and the role of MIER3 in the progression of colorectal cancer (CRC) have not yet been well characterized. Here, we reported that MIER3 was significantly reduced in human primary colorectal cancer and was associated with CRC metastasis and poor prognosis. Moreover, the up-regulation of MIER3 expression significantly inhibited CRC cell proliferation, migration and invasion in vitro and repressed tumor growth and metastasis in vivo. In contrast, down-regulation of MIER3 could promote the aggressive behaviors of CRC cells. Furthermore, our study showed that MIER3 inhibited cell proliferation and invasion partially via reduction of Sp1 and subsequent suppression of epithelial-mesenchymal transition (EMT). In conclusion, our data suggested that MIER3 plays a potential tumor suppressor role in CRC progression and may be a potentially valuable clinical prognostic marker of this disease.
Production of high-resolution forest-ecosite maps based on model predictions of soil moisture and nutrient regimes over a large forested area
Authors: Yang Qi , Meng Fan-Rui , Bourque Charles P.-A. , Zhao Zhengyong 
Published: September 2017

AbstractForest ecosite reflects the local site conditions that are meaningful to forest productivity as well as basic ecological functions. Field assessments of vegetation and soil types are often used to identify forest ecosites. However, the production of high-resolution ecosite maps for large areas from interpolating field data is difficult because of high spatial variation and associated costs and time requirements. Indices of soil moisture and nutrient regimes (i.e., SMR and SNR) introduced in this study reflect the combined effects of biogeochemical and topographic factors on forest growth. The objective of this research is to present a method for creating high-resolution forest ecosite maps based on computer-generated predictions of SMR and SNR for an area in Atlantic Canada covering about 4.3 × 106 hectares (ha) of forestland. Field data from 1,507 forest ecosystem classification plots were used to assess the accuracy of the ecosite maps produced. Using model predictions of SMR and SNR alone, ecosite maps were 61 and 59% correct in identifying 10 Acadian- and Maritime-Boreal-region ecosite types, respectively. This method provides an operational framework for the production of high-resolution maps of forest ecosites over large areas without the need for data from expensive, supplementary field surveys.
Field-Effect Transistor Biosensor for Rapid Detection of Ebola Antigen
Authors: Chen Yantao , Ren Ren , Pu Haihui , Guo Xiaoru , Chang Jingbo , Zhou Guihua , Mao Shun , Kron Michael , Chen Junhong 
Published: September 2017

AbstractThe Ebola virus transmits a highly contagious, frequently fatal human disease for which there is no specific antiviral treatment. Therefore, rapid, accurate, and early diagnosis of Ebola virus disease (EVD) is critical to public health containment efforts, particularly in developing countries where resources are few and EVD is endemic. We have developed a reduced graphene oxide-based field-effect transistor method for real-time detection of the Ebola virus antigen. This method uses the attractive semiconductor characteristics of graphene-based material, and instantaneously yields highly sensitive and specific detection of Ebola glycoprotein. The feasibility of this method for clinical application in point-of-care technology is evaluated using Ebola glycoprotein suspended in diluted PBS buffer, human serum, and plasma. These results demonstrate the successful fabrication of a promising field-effect transistor biosensor for EVD diagnosis.
Differential gene expression profiling linked to tumor progression of splenic marginal zone lymphoma
Authors: Higuchi Tomonori , Hashida Yumiko , Taniguchi Ayuko , Kamioka Mikio , Daibata Masanori 
Published: September 2017

AbstractThe genetic events that lead to aggressive transformation of cases of splenic marginal zone lymphoma (SMZL) after the chronic clinical stage have not been well understood. We aimed to find candidate genes associated with aggressive features of SMZL. We have successfully established two SMZL cell lines, designated SL-15 and SL-22, derived from the same patient’s tumor clone in chronic and aggressive phases, respectively. Microarray analysis identified cell cycle-associated genes—specifically PLK1—as the most significantly upregulated in primary aggressive SMZL cells compared with cells from chronic phase. EPHA4 and MS4A1 (CD20) were found to be downregulated dramatically. These gene expression patterns were reproduced in both cell lines. Genetic knockdown of PLK1 resulted in inhibition of cell proliferation and induction of apoptosis in SL-22 cells, which expressed higher levels of PLK1 than SL-15 cells. SL-22 cells needed higher concentrations of chemical PLK1 inhibitors to achieve greater effects. In addition, we found homozygous deletion of the MS4A1 gene as a newly identified molecular mechanism of CD20-negative conversion. Our findings are expected to stimulate further studies on whether PLK1 could be a potential therapeutic target for this tumor. Furthermore, cases with CD20-negatively converted lymphomas should be screened for the genomic loss of MS4A1.
The life-span trajectory of visual perception of 3D objects
Authors: Freud Erez , Behrmann Marlene 
Published: September 2017

AbstractDeriving a 3D structural representation of an object from its 2D input is one of the great challenges for the visual system and yet, this type of representation is critical for the successful recognition of and interaction with objects. Perhaps reflecting the importance of this computation, infants have some sensitivity to 3D structural information, and this sensitivity is, at least, partially preserved in the elderly population. To map precisely the life-span trajectory of this key visual computation, in a series of experiments, we compared the performance of observers from ages 4 to 86 years on displays of objects that either obey or violate possible 3D structure. The major findings indicate that the ability to derive fine-grained 3D object representations emerges after a prolonged developmental trajectory and is contingent on the explicit processing of depth information even in late childhood. In contrast, the sensitivity to object 3D structure remains stable even through late adulthood despite the overall reduction in perceptual competence. Together, these results uncover the developmental process of an important perceptual skill, revealing that the initial, coarse sensitivity to 3D information is refined, automatized and retained over the lifespan.
Synergies between Urban Heat Island and Heat Waves in Athens (Greece), during an extremely hot summer (2012)
Authors: Founda Dimitra , Santamouris Mattheos 
Published: September 2017

AbstractHeat waves (HWs) are recognized as a serious threat for human health worldwide, with urban areas being more vulnerable due to the urban heat island (UHI) effect and population density. Yet, in the climate change context, HWs are becoming more frequent, stronger and longer, which, coupled with intensifying urbanization exacerbates thermal risk for urban residents. Despite the profound impact of this global phenomenon there is no clear consensus so far on possible synergies between UHIs and HWs. The study sheds light on the complex synergies between UHIs and HWs focusing on coastal sites. A quite challenging period comprising five HW episodes during summer 2012 in Athens (Greece) was selected for analysis. A positive feedback between UHIs and HWs was found, with intensification of the average UHI magnitude by up to 3.5 °C during HWs, compared to summer background conditions. Our results contribute significantly to understanding synergies between UHIs and HWs that may strongly increase thermal risk in cities and vulnerability of urban population.
Carnosic acid prevents dextran sulfate sodium-induced acute colitis associated with the regulation of the Keap1/Nrf2 pathway
Authors: Yang Neng , Xia Zongling , Shao Naiyuan , Li Bowen , Xue Lian , Peng Ya , Zhi Feng , Yang Yilin 
Published: September 2017

AbstractCrohn’s disease and ulcerative colitis are inflammatory bowel diseases (IBDs) with high prevalence in humans. Carnosic acid (CA) has been reported to possess antioxidative properties; however, its role in IBDs has not been determined. In the present study, we found that CA significantly prevented the loss of body weight and shortening of colon length in acute colitis induced by dextran sodium sulfate (DSS). Pronounced infiltration of immune cells and a loss of crypt architecture and goblet cells were ameliorated by CA. CA significantly decreased the activity of MPO and infiltration of F4/80+macrophages in the colon. DSS-induced pro-inflammatory cytokine mRNA and protein levels in the colon were also attenuated by CA. CA decreased the activation of p65 and c-Jun signalling. CA inhibited DSS-induced NLRP3 inflammasome activation by reducing caspase 1 activity. In addition, CA increased the level of Nrf2 and prevented the degradation of Nrf2 via ubiquitination by blocking the interaction between Cullin3 and Keap1, which resulted in the decrease of Nrf2 target genes. Finally, GSH levels and SOD activity were increased after CA treatment, while MDA and iNOS levels were significantly reduced. Taken together, our data showed that CA may be useful as a potential therapeutic candidate for IBDs.
Spatial features of synaptic adaptation affecting learning performance
Authors: Berger Damian L. , de Arcangelis Lucilla , Herrmann Hans J. 
Published: September 2017

AbstractRecent studies have proposed that the diffusion of messenger molecules, such as monoamines, can mediate the plastic adaptation of synapses in supervised learning of neural networks. Based on these findings we developed a model for neural learning, where the signal for plastic adaptation is assumed to propagate through the extracellular space. We investigate the conditions allowing learning of Boolean rules in a neural network. Even fully excitatory networks show very good learning performances. Moreover, the investigation of the plastic adaptation features optimizing the performance suggests that learning is very sensitive to the extent of the plastic adaptation and the spatial range of synaptic connections.
The salivary microbiome is consistent between subjects and resistant to impacts of short-term hospitalization
Authors: Cabral Damien J. , Wurster Jenna I. , Flokas Myrto E. , Alevizakos Michail , Zabat Michelle , Korry Benjamin J. , Rowan Aislinn D. , Sano William H. , Andreatos Nikolaos , Ducharme R. Bobby , Chan Philip A. , Mylonakis Eleftherios , Fuchs Beth Burgwyn , Belenky Peter 
Published: September 2017

AbstractIn recent years, a growing amount of research has begun to focus on the oral microbiome due to its links with health and systemic disease. The oral microbiome has numerous advantages that make it particularly useful for clinical studies, including non-invasive collection, temporal stability, and lower complexity relative to other niches, such as the gut. Despite recent discoveries made in this area, it is unknown how the oral microbiome responds to short-term hospitalization. Previous studies have demonstrated that the gut microbiome is extremely sensitive to short-term hospitalization and that these changes are associated with significant morbidity and mortality. Here, we present a comprehensive pipeline for reliable bedside collection, sequencing, and analysis of the human salivary microbiome. We also develop a novel oral-specific mock community for pipeline validation. Using our methodology, we analyzed the salivary microbiomes of patients before and during hospitalization or azithromycin treatment to profile impacts on this community. Our findings indicate that azithromycin alters the diversity and taxonomic composition of the salivary microbiome; however, we also found that short-term hospitalization does not impact the richness or structure of this community, suggesting that the oral cavity may be less susceptible to dysbiosis during short-term hospitalization.
Sex differences in the C57BL/6 model of Mycobacterium tuberculosis infection
Authors: Dibbern Jannike , Eggers Lars , Schneider Bianca E. 
Published: September 2017

AbstractGlobally, tuberculosis (Tb) notification data show a male-to-female ratio of 1.7 and higher, but the underlying reasons for the male bias remain elusive. Despite the well-known gender bias in human pulmonary Tb, a majority of experimental animal studies either do not separate and analyze data by sex or do not report the sex of their subjects at all. In the present study, we report increased male susceptibility in one of the most commonly used mouse models for Tb, C57BL/6 mice. Our study revealed that disease progression upon aerosol infection withMycobacterium tuberculosis(Mtb) was accelerated in males resulting in increased morbidity and mortality compared to females. ElevatedMtbloads in males were associated with an early exaggerated pulmonary inflammatory response which likely was detrimental to the host, as reflected by exacerbated pathology and increased mortality. Our data emphasis the urgent need to include and separately analyze both sexes in future animal studies of Tb in order to appreciate the differences in immune responses and disease pathogenesis between males and females.
Introduced ascidians harbor highly diverse and host-specific symbiotic microbial assemblages
Authors: Evans James S. , Erwin Patrick M. , Shenkar Noa , López-Legentil Susanna 
Published: September 2017

AbstractMany ascidian species have experienced worldwide introductions, exhibiting remarkable success in crossing geographic borders and adapting to local environmental conditions. To investigate the potential role of microbial symbionts in these introductions, we examined the microbial communities of three ascidian species common in North Carolina harbors. Replicate samples of the globally introduced speciesDistaplia bermudensis,Polyandrocarpa anguinea, andP. zorritensis(n = 5), and ambient seawater (n = 4), were collected in Wrightsville Beach, NC. Microbial communities were characterized by next-generation (Illumina) sequencing of partial (V4) 16S rRNA gene sequences. Ascidians hosted diverse symbiont communities, consisting of 5,696 unique microbial OTUs (at 97% sequenced identity) from 44 bacterial and three archaeal phyla. Permutational multivariate analyses of variance revealed clear differentiation of ascidian symbionts compared to seawater bacterioplankton, and distinct microbial communities inhabiting each ascidian species. 103 universal core OTUs (present in all ascidian replicates) were identified, including taxa previously described in marine invertebrate microbiomes with possible links to ammonia-oxidization, denitrification, pathogenesis, and heavy-metal processing. These results suggest ascidian microbial symbionts exhibit a high degree of host-specificity, forming intimate associations that may contribute to host adaptation to new environments via expanded tolerance thresholds and enhanced holobiont function.
Evaluation of single-cell genomics to address evolutionary questions using three SAGs of the choanoflagellate Monosiga brevicollis
Authors: López-Escardó David , Grau-Bové Xavier , Guillaumet-Adkins Amy , Gut Marta , Sieracki Michael E. , Ruiz-Trillo Iñaki 
Published: September 2017

AbstractSingle-cell genomics (SCG) appeared as a powerful technique to get genomic information from uncultured organisms. However, SCG techniques suffer from biases at the whole genome amplification step that can lead to extremely variable numbers of genome recovery (5–100%). Thus, it is unclear how useful can SCG be to address evolutionary questions on uncultured microbial eukaryotes. To provide some insights into this, we here analysed 3 single-cell amplified genomes (SAGs) of the choanoflagellate Monosiga brevicollis, whose genome is known. Our results show that each SAG has a different, independent bias, yielding different levels of genome recovery for each cell (6–36%). Genes often appear fragmented and are split into more genes during annotation. Thus, analyses of gene gain and losses, gene architectures, synteny and other genomic features can not be addressed with a single SAG. However, the recovery of phylogenetically-informative protein domains can be up to 55%. This means SAG data can be used to perform accurate phylogenomic analyses. Finally, we also confirm that the co-assembly of several SAGs improves the general genomic recovery. Overall, our data show that, besides important current limitations, SAGs can still provide interesting and novel insights from poorly-known, uncultured organisms.
Dormant 5-lipoxygenase in inflammatory macrophages is triggered by exogenous arachidonic acid
Authors: Sorgi Carlos A. , Zarini Simona , Martin Sarah A. , Sanchez Raphael L. , Scandiuzzi Rodrigo F. , Gijón Miguel A. , Guijas Carlos , Flamand Nicolas , Murphy Robert C. , Faccioli Lucia H. 
Published: September 2017

AbstractThe differentiation of resident tissue macrophages from embryonic precursors and that of inflammatory macrophages from bone marrow cells leads to macrophage heterogeneity. Further plasticity is displayed through their ability to be polarized as subtypes M1 and M2 in a cell culture microenvironment. However, the detailed regulation of eicosanoid production and its involvement in macrophage biology remains unclear. Using a lipidomics approach, we demonstrated that eicosanoid production profiles between bone marrow-derived (BMDM) and peritoneal macrophages differed drastically. In polarized BMDMs, M1 and M2 phenotypes were distinguished by thromboxane B2, prostaglandin (PG) E2, and PGD2production, in addition to lysophospholipid acyltransferase activity. AlthoughAlox5expression and the presence of 5-lipoxygenase (5-LO) protein in BMDMs was observed, the absence of leukotrienes production reflected an impairment in 5-LO activity, which could be triggered by addition of exogenous arachidonic acid (AA). The BMDM 5-LO regulatory mechanism was not responsive to PGE2/cAMP pathway modulation; however, treatment to reduce glutathione peroxidase activity increased 5-LO metabolite production after AA stimulation. Understanding the relationship between the eicosanoids pathway and macrophage biology may offer novel strategies for macrophage-associated disease therapy.
Neurogenetic plasticity and sex influence the link between corticolimbic structural connectivity and trait anxiety
Authors: Kim M. Justin , Avinun Reut , Knodt Annchen R. , Radtke Spenser R. , Hariri Ahmad R. 
Published: September 2017

AbstractCorticolimbic pathways connecting the amygdala and ventral prefrontal cortex (vPFC) are linked with trait anxiety, but it remains unclear what potential genetic moderators contribute to this association. We sought to address this by examining the inter-individual variability in neuroplasticity as modeled by a functional polymorphism (rs6265) in the human gene for brain derived neurotrophic factor (BDNF). Amygdala-vPFC pathway fractional anisotropy (FA) from 669 diffusion magnetic resonance images was used to examine associations with trait anxiety as a function of rs6265 genotype. We first replicated the inverse correlation between trait anxiety and amygdala-vPFC pathway FA in women. Furthermore, we found a moderating influence of rs6265 genotype such that the association between trait anxiety and right amygdala-vPFC pathway FA was strongest in women carrying the Met allele, which is linked with decreased activity-dependent neuroplasticity. Results indicate that the microstructural integrity of pathways supporting communication between the amygdala and vPFC help shape the expression of trait anxiety in women, and that this association is further modulated by genetically driven variability in neuroplasticity.
LNGFR targets the Wnt/β-catenin pathway and promotes the osteogenic differentiation in rat ectomesenchymal stem cells
Authors: Li Gang , Liu Junyu , Wang Yingying , Yang Kun , Zhao Manzhu , Xiao Yong , Wen Xiujie , Liu Luchuan 
Published: September 2017

AbstractConsiderable evidence has shown that the Wnt/β-catenin pathway is involved in osteogenic differentiation in various stem cells. However, the role of Wnt/β-catenin pathway in regulating the osteogenic differentiation of rat ectomesenchymal stem cells (EMSCs), which are considered to be the progenitors of dental mesenchymal stem cells, remains unknown. In this study, we demonstrated that nuclear β-catenin was upregulated during EMSC osteogenic differentiation. The Wnt signalling inhibitor IWR-1-endo inhibited EMSC osteogenic differentiation, while the Wnt signalling agonist SKL2001 promoted it. Moreover, nuclear β-catenin was further upregulated by the overexpression of low-affinity nerve growth factor receptor (LNGFR) during EMSC osteogenic differentiation. Further experiments demonstrated that LNGFR overexpression enhanced EMSC osteogenic differentiation, while LNGFR silencing decreased it. Additionally, IWR-1-endo attenuated LNGFR-enhanced EMSC osteogenic differentiation. Collectively, our data reveal that LNGFR targets the Wnt/β-catenin pathway and positively regulates EMSC osteogenic differentiation, suggesting that Wnt/β-catenin pathway may be involved in the development of teeth and that the targeting Wnt/β-catenin pathway may have great potential for applications in dental tissue engineering regeneration.
Analysis of bacterial and fungal communities in Marcha and Thiat, traditionally prepared amylolytic starters of India
Authors: Sha Shankar Prasad , Jani Kunal , Sharma Avinash , Anupma Anu , Pradhan Pooja , Shouche Yogesh , Tamang Jyoti Prakash 
Published: September 2017

AbstractMarcha and thiat are traditionally prepared amylolytic starters use for production of various ethnic alcoholic beverages in Sikkim and Meghalaya states in India. In the present study we have tried to investigate the bacterial and fungal community composition of marcha and thiat by using high throughput sequencing. Characterization of bacterial community depicts phylum Proteobacteria is the most dominant in both marcha (91.4%) and thiat (53.8%), followed by Firmicutes, and Actinobacteria. Estimates of fungal community composition showed Ascomycota as the dominant phylum. Presence of Zygomycota in marcha distinguishes it from the thiat. The results of NGS analysis revealed dominance of yeasts in marcha whereas molds out numbers in case of thiat. This is the first report on microbial communities of traditionally prepared amylolytic starters of India using high throughput sequencing.