bluuebunny/crossref_metadata_2025_split huggingface dataset:
OsMYC2, an essential factor for JA-inductive sakuranetin production in rice, interacts with MYC2-like proteins that enhance its transactivation ability
Authors: Ogawa Satoshi , Miyamoto Koji , Nemoto Keiichirou , Sawasaki Tatsuya , Yamane Hisakazu , Nojiri Hideaki , Okada Kazunori 
Published: January 2017

AbstractBiosynthesis of sakuranetin, a flavonoid anti-fungal phytoalexin that occurs in rice, is highly dependent on jasmonic acid (JA) signalling and induced by a variety of environmental stimuli. We previously identified OsNOMT, which encodes naringenin 7-O-methyltransferase (NOMT); NOMT is a key enzyme for sakuranetin production. Although OsNOMT expression is induced by JA treatment, the regulation mechanism that activates the biosynthetic pathway of sakuranetin has not yet been elucidated. In this study, we show that JA-inducible basic helix-loop-helix transcriptional factor OsMYC2 drastically enhances the activity of the OsNOMT promoter and is essential for JA-inducible sakuranetin production. In addition, we identified 2 collaborators of OsMYC2, OsMYC2-like protein 1 and 2 (OsMYL1 and OsMYL2) that further activated the OsNOMT promoter in synergy with OsMYC2. Physical interaction of OsMYC2 with OsMYL1 and OsMYL2 further supported the idea that these interactions lead to the enhancement of the transactivation activity of OsMYC2. Our results indicate that JA signalling via OsMYC2 is reinforced by OsMYL1 and OsMYL2, resulting in the inductive production of sakuranetin during defence responses in rice.
A novel chimeric lysin with robust antibacterial activity against planktonic and biofilm methicillin-resistant Staphylococcus aureus
Authors: Yang Hang , Zhang Huaidong , Wang Jing , Yu Junping , Wei Hongping 
Published: January 2017

AbstractMethicillin-resistant Staphylococcus aureus (MRSA) is one of the most threatening pathogens due to its multi-drug resistance (MDR) and strong biofilm-forming capacity. Here, we described the screening of a novel chimeolysin (ClyF) that was active against planktonic and biofilm MRSA. Biochemical tests showed that ClyF was active against all S. aureus clinical isolates tested under planktonic and biofilm conditions. Structure analysis revealed that ClyF has an enhanced thermostability and pH tolerance than its parental lysin Pc by forming a hydrophobic cleft in the catalytic domain and an Ig-like structure in the cell-wall binding domain. A single intraperitoneally or topically administration of ClyF showed good MRSA removing efficacy in mouse models of bacteremia and burn wound infection, respectively. Our data collectively demonstrated that ClyF has good bactericidal activity against planktonic and biofilm MRSA both in vitro and in vivo, and therefore represents a useful antibacterial to combat MDR S. aureus.
Oleanolic acid ameliorates high glucose-induced endothelial dysfunction via PPARδ activation
Authors: Zhang Zihui , Jiang Manli , Xie Xinya , Yang Haixia , Wang Xinfeng , Xiao Lei , Wang Nanping 
Published: January 2017

AbstractOleanolic acid (3β-hydroxyolean-12-en-28-oic acid, OA) is a pentacyclic triterpenes widely distributed in food, medicinal plants and nutritional supplements. OA exhibits various pharmacological properties, such as hepatoprotective and anti-tumor effects. In this study, we analyzed the effect of OA on endothelial dysfunction induced by high glucose in human vascular endothelial cells (ECs). Western blotting showed that OA attenuated high glucose-reduced nitric production oxide (NO) as well as Akt-Ser473 and eNOS-Ser1177 phosphorylation in cultured human umbilical vein ECs (HUVECs). Next, luciferase reporter assay showed that OA activated peroxisome proliferators-activated receptor δ (PPARδ) activity. Quantitative reverse transcriptase PCR (qRT-PCR) demonstrated that OA increased the expressions of PPARδ target genes (PDK4, ADRP and ANGPTL4) in ECs. Meanwhile, the induced expressions of PDK4, ADRP and ANGPTL4 by OA were inhibited by GSK0660, a specific antagonist of PPARδ. In addition, inhibition of PPARδ abolished OA-induced the Akt-Ser473 and eNOS-Ser1177 phosphorylation, and NO production. Finally, by using Multi Myograph System, we showed that OA prevented high glucose-impaired vasodilation. This protective effect on vasodilation was inhibited in aortic rings pretreated with GSK0660. Collectively, we demonstrated that OA improved high glucose-impaired endothelial function via a PPARδ-mediated mechanism and through eNOS/Akt/NO pathway.
Fluorescent Gold Nanoclusters for Selective Detection of Dopamine in Cerebrospinal fluid
Authors: Govindaraju Saravanan , Ankireddy Seshadri Reddy , Viswanath Buddolla , Kim Jongsung , Yun Kyusik 
Published: January 2017

AbstractSince the last two decades, protein conjugated fluorescent gold nanoclusters (NCs) owe much attention in the field of medical and nanobiotechnology due to their excellent photo stability characteristics. In this paper, we reported stable, nontoxic and red fluorescent emission BSA-Au NCs for selective detection of L-dopamine (DA) in cerebrospinal fluid (CSF). The evolution was probed by various instrumental techniques such as UV-vis spectroscopy, High resolution transmission electron microscopy (HTEM), X-ray photoelectron spectroscopy (XPS), X-ray diffraction (XRD), Fourier transform infrared spectroscopy (FTIR), photoluminescence spectroscopy (PL). The synthesised BSA-Au NCs were showing 4–6 nm with high fluorescent ~8% Quantum yield (QY). The fluorescence intensity of BSA-Au NCs was quenched upon the addition of various concentrations of DA via an electron transfer mechanism. The decrease in BSA-Au NCs fluorescence intensity made it possible to determine DA in PBS buffer and the spiked DA in CSF in the linear range from 0 to 10 nM with the limit of detection (LOD) 0.622 and 0.830 nM respectively. Best of our knowledge, as-prepared BSA-Au NCs will gain possible strategy and good platform for biosensor, drug discovery, and rapid disease diagnosis such as Parkinson’s and Alzheimer diseases.
The autophagy elongation complex (ATG5-12/16L1) positively regulates HCV replication and is required for wild-type membranous web formation
Authors: Fahmy Ahmed M. , Labonté Patrick 
Published: January 2017

AbstractHepatitis C virus (HCV) infection induces intracellular membrane rearrangements, thus forming a membranous web (MW) in which HCV replication and assembly occur. The HCV-induced MW is primarily composed of double membrane vesicles (DMVs) transfused by multi-membrane vesicles. The autophagy machinery has been proposed to participate in the formation of such vesicles. However, no clear evidence has been found linking autophagy to the formation of these DMVs. In this study, we evaluated the role of the autophagy elongation complex (ATG5-12/16L1) in HCV replication and MW formation. Using a dominant negative form of ATG12 and an siRNA approach, we demonstrated that the ATG5-12 conjugate, but not LC3-II formation, is crucial for efficient viral replication. Furthermore, purification of HCV MW revealed the presence of ATG5-12 and ATG16L1 along with HCV nonstructural proteins. Interestingly, LC3 was not recruited along with the elongation complex to the site of viral replication. Finally, inhibition of the elongation complex, but not LC3, greatly impaired the formation of the wild-type MW phenotype. To our knowledge, this study provides the first evidence of the involvement of autophagy proteins in the formation of wild-type MWs.
Methylome-wide Association Study of Atrial Fibrillation in Framingham Heart Study
Authors: Lin Honghuang , Yin Xiaoyan , Xie Zhijun , Lunetta Kathryn L. , Lubitz Steven A. , Larson Martin G. , Ko Darae , Magnani Jared W. , Mendelson Michael M. , Liu Chunyu , McManus David D. , Levy Daniel , Ellinor Patrick T. , Benjamin Emelia J. 
Published: January 2017

AbstractAtrial fibrillation (AF) is the most common cardiac arrhythmia, but little is known about the molecular mechanisms associated with AF arrhythmogenesis. DNA methylation is an important epigenetic mechanism that regulates gene expression and downstream biological processes. We hypothesize that DNA methylation might play an important role in the susceptibility to develop AF. A total of 2,639 participants from the Offspring Cohort of Framingham Heart Study were enrolled in the current study. These participants included 183 participants with prevalent AF and 220 with incident AF during up to 9 years follow up. Genome-wide methylation was profiled using the Illumina Infinium HumanMethylation450 BeadChip on blood-derived DNA collected during the eighth examination cycle (2005–2008). Two CpG sites were significantly associated with prevalent AF, and five CpGs were associated with incident AF after correction for multiple testing (FDR < 0.05). Fourteen previously reported genome-wide significant AF-related SNP were each associated with at least one CpG site; the most significant association was rs6490029 at the CUX2 locus and cg10833066 (P = 9.5 × 10−279). In summary, we performed genome-wide methylation profiling in a community-based cohort and identified seven methylation signatures associated with AF. Our study suggests that DNA methylation might play an important role in AF arrhythmogenesis.
Stromal Cell Subsets Directing Neonatal Spleen Regeneration
Authors: Tan Jonathan K. H. , Watanabe Takeshi 
Published: January 2017

AbstractDevelopment of lymphoid tissue is determined by interactions between stromal lymphoid tissue organiser (LTo) and hematopoietic lymphoid tissue inducer (LTi) cells. A failure for LTo to receive appropriate activating signals during embryogenesis through lymphotoxin engagement leads to a complete cessation of lymph node (LN) and Peyer’s patch development, identifying LTo as a key stromal population for lymphoid tissue organogenesis. However, little is known about the equivalent stromal cells that induce spleen development. Here, by dissociating neonatal murine spleen stromal tissue for re-aggregation and transplant into adult mouse recipients, we have identified a MAdCAM-1+CD31+CD201+ spleen stromal organizer cell-type critical for new tissue formation. This finding provides an insight into the regulation of post-natal spleen tissue organogenesis, and could be exploited in the development of spleen regenerative therapies.
A Novel and Conserved Plasmodium Sporozoite Membrane Protein SPELD is Required for Maturation of Exo-erythrocytic Forms
Authors: Al-Nihmi Faisal Mohammed Abdul , Kolli Surendra Kumar , Reddy Segireddy Rameswara , Mastan Babu S. , Togiri Jyothi , Maruthi Mulaka , Gupta Roshni , Sijwali Puran Singh , Mishra Satish , Kumar Kota Arun 
Published: January 2017

AbstractPlasmodium sporozoites are the infective forms of malaria parasite to vertebrate host and undergo dramatic changes in their transcriptional repertoire during maturation in mosquito salivary glands. We report here the role of a novel and conserved Plasmodium berghei protein encoded by PBANKA_091090 in maturation of Exo-erythrocytic Forms (EEFs) and designate it as Sporozoite surface Protein Essential for Liver stage Development (PbSPELD). PBANKA_091090 was previously annotated as PB402615.00.0 and its transcript was recovered at maximal frequency in the Serial Analysis of the Gene Expression (SAGE) of Plasmodium berghei salivary gland sporozoites. An orthologue of this transcript was independently identified in Plasmodium vivax sporozoite microarrays and was designated as Sporozoite Conserved Orthologous Transcript-2 (scot-2). Functional characterization through reverse genetics revealed that PbSPELD is essential for Plasmodium liver stage maturation. mCherry transgenic of PbSPELD localized the protein to plasma membrane of sporozoites and early EEFs. Global microarray analysis of pbspeld ko revealed EEF attenuation being associated with down regulation of genes central to general transcription, cell cycle, proteosome and cadherin signaling. pbspeld mutant EEFs induced pre-erythrocytic immunity with 50% protective efficacy. Our studies have implications for attenuating the human Plasmodium liver stages by targeting SPELD locus.
The improvement in walking speed induced by resistance training is associated with increased muscular strength but not skeletal muscle mass in older women
Authors: Santos Leandro , Ribeiro Alex S. , Schoenfeld Brad J. , Nascimento Matheus A. , Tomeleri Crisieli M. , Souza Mariana F. , Pina Fábio L. C. , Cyrino Edilson S. 
Published: January 2017

AbstractObjective: The purpose of the present study was to analyze whether improvements in fast walking speed induced by resistance training (RT) are associated with changes in body composition, muscle quality, and muscular strength in older women. Methods: Twenty‐three healthy older women (69.6 ± 6.4 years, 64.95 ± 12.9 kg, 1.55 ± 0.07 m, 27.06 ± 4.6 kg/m²) performed a RT program for 8 weeks consisting of 8 exercises for the whole body, 3 sets of 10–15 repetitions maximum, 3 times a week. Anthropometric, body composition (fat‐free mass [FFM], skeletal muscle mass [SMM], legs lean soft tissue [LLST], fat mass), knee extension muscular strength (KE1RM), muscle quality index (MQI [KE1RM/LLST]), and 10‐meter walking test (10‐MWT) were performed before and after the intervention. Results: Significant (P < .05) changes were observed from pre‐ to post‐training for FFM (+1.6%), MQI (+7.2%), SMM (+2.4%), LLST (+1.8%), KE1RM (+8.6%), fat mass (−1.4%), and time to perform 10‐MWT (−3.7%). The percentage change in 10‐MWT was significantly associated with percentage change in MQI (r = −0.46, P = .04) and KE1RM (r = −0.45, P = .04), however not associated percentage of changes in SMM (r = 0.01, P = .97), LLST (r = −0.22, P = .33), and body fat (r = 0.10, P = .66). Conclusion: We conclude that the improvement in the 10‐MWT after an 8‐week RT program is associated with increases in lower limb muscular strength and muscle quality, but not with muscle mass or body fat changes in older women.
Better diagnostic signatures from RNAseq data through use of auxiliary co-data
Authors: Novianti Putri W , Snoek Barbara C , Wilting Saskia M , van de Wiel Mark A 
Published: January 2017

Abstract

Summary
Our aim is to improve omics based prediction and feature selection using multiple sources of auxiliary information: co-data. Adaptive group regularized ridge regression (GRridge) was proposed to achieve this by estimating additional group-based penalty parameters through an empirical Bayes method at a low computational cost. We illustrate the GRridge method and software on RNA sequencing datasets. The method boosts the performance of an ordinary ridge regression and outperforms other classifiers. Post-hoc feature selection maintains the predictive ability of the classifier with far fewer markers.

Availability and Implementation
GRridge is an R package that includes a vignette. It is freely available at (https://bioconductor.org/packages/GRridge/). All information and R scripts used in this study, including those on retrieval and processing of the co-data, are available from http://github.com/markvdwiel/GRridgeCodata.

Supplementary information
Supplementary data are available at Bioinformatics online.
Tools for Practical Psychotherapy: A Transtheoretical Collection (or Interventions Which Have, At Least, Worked for Us)
Authors: YAGER JOEL , FEINSTEIN ROBERT E. 
Published: January 2017

Background and Objectives:
Regardless of their historical and theoretical roots, strategies, tactics, and techniques used in everyday psychotherapy across diverse theoretical schools contain common factors and methods from other specific psychotherapeutic modalities that contribute substantially to psychotherapy outcomes. Common factors include alliance, empathy, goal consensus/collaboration, positive regard/affirmation, and congruence/genuineness, among others. All therapies also recognize that factors specific to therapists impact treatment. Starting with these common factors, we add psychotherapeutic methods from many theoretical orientations to create a collection of clinical tools. We then provide concrete suggestions for enacting psychotherapy interventions, which constitute a transtheoretical collection.

Methods:
We begin with observations made by earlier scholars, our combined clinical and teaching experiences, and oral traditions and clinical pearls passed down from our own supervisors and mentors. We have compiled a list of tools for students with foundational knowledge in the basic forms of psychotherapy, which may expand their use of additional interventions for practicing effective psychotherapy.

Results:
Our toolbox is organized into 4 categories: Relating; Exploring; Explaining; and Intervening. We note how these tools correspond to items previously published in a list of core psychotherapy competencies.

Conclusions:
In our view, the toolbox can be used most judiciously by students and practitioners schooled and grounded in frameworks for conducting established psychotherapies. Although they are still a work in progress, these tools can authorize and guide trainees and practitioners to enact specific approaches to psychotherapy utilizing other frameworks. We believe that psychotherapy education and training might benefit from explicitly focusing on the application of such interventions.
Novel insights into karyotype evolution and whole genome duplications in legumes
Authors: Wong Melissa M.L. , Vaillancourt René E. , Freeman Jules S. , Hudson Corey J. , Bakker Freek T. , Cannon Charles H. , Ratnam Wickneswari 
Published: January 2017

ABSTRACTLegumes (family Fabaceae) are globally important crops due to their nitrogen fixing ability. Papilionoideae, the best-studied subfamily, have undergone a Whole Genome Duplication (WGD) around 59 million years ago. Recent study found varying WGD ages in subfamilies Mimosoideae and Caesalpinioideae and proposed multiple occurrences of WGD across the family based on gene duplication patterns. Despite that, the genome evolution of legume ancestor into modern legumes after the WGD is not well-understood. We aimed to study genome evolution at the subfamily level using gene-based linkage maps forAcacia auriculiformisandA. mangium(Mimosoideae) and we discovered evidence for a WGD event inAcacia. In additional to synonymous substitution rate (Ks) analysis, we used ancestral karyotype prediction to further corroborate this WGD and elucidate underlying mechanisms of karyotype evolution in Fabaceae. Using publicly available transcriptome resources from 25 species across the family Fabaceae and 2 species from order Fabales, we found that the variations in WGD ages highly correlate (R=0.8606, p-value<0.00001) with the divergence age ofVitis viniferaas an outgroup. If the variation of Ks is corrected, the age of WGDs of the family Fabaceae should be the same and therefore, parsimony would favour a single WGD near the base of Fabaceae over multiple independent WGDs across Fabaceae. In addition, we demonstrated that genome comparison of Papilionoideae with other subfamily provide important insights in understanding genome evolution in legumes.
Electrochemical study of the corrosion rate of API steels in clay soils
Authors: Quej-Ake L.M. , Marín-Cruz J. , Contreras A. 
Published: January 2017

Purpose
The purpose of this paper was to study the corrosion process of API X52, X60, X65, X70 and X80 steels exposed to two clay soils collected in two states of Mexico (Tabasco and Campeche). To saturate the soils, 60 mL of deionized water was added to simulate the conditions for dry and wet season, due to in field, the climate change could modifies the physicochemical properties of the soils for each season of the year and this generate a variable environment, which affect the electrochemical responses on steel–soil interface.

Design/methodology/approach
The corrosion evaluation was carried out simulating the conditions of deteriorated coating (bare steel); this includes steel surface exposed to clay soil affected by seasonal fluctuations in a tropical zone. These soils were characterized, without any further treatment as were found in the field (dry season). Moreover, some samples were taken and prepared to analyze in laboratory. For each soil sample, 60 mL of deionized water was added to simulate the rainy season (saturated soils). Electrochemical evaluations were carried out after 3 h of exposure time at room temperature. Because soil is a system with high resistivity and impedance, it is necessary to carry out IR-drop compensation using two platinum rods that were used as an auxiliary electrode. In addition, the IR-drop correction obtained from the experimental potentiodynamic curves was investigated.

Findings
In clay from Campeche (Clay-C), the more susceptible steel to corrosion was X65, whereas in clay from Tabasco (Clay-T), the more susceptible steel to corrosion was X80 steel. Electrochemical results show that despite higher-degree steels providing higher strength and hardness, the order of corrosion susceptibility is random, which can be attributed to different microstructures in the steels. The complexity of the corrosion process on five steels was evident when steel samples were exposed to different soils. The higher corrosion rate was obtained in X65 steel (0.5 mm/year).

Practical implications
The paper clearly identifies any implication for the research.

Originality/value
The electrochemical responses of different steels exposed in two types of clay soil explained the corrosion complexity that can be attributed to changes in physicochemical properties of the soils, which are because of changes in seasons (dry and rainy) and the microstructure of each steel related to the process of fabrication. Suggesting that the increase in mechanical properties such as hardness and resistance of the pipeline steels could not be associated with its corrosion resistance, the corrosion susceptibility is more dependent on the microstructure of the steels.
A mediated model of relationship quality factors affecting behavioural intention at a luxury motor vehicle dealership
Authors: Van Tonder Estelle , Petzer Daniël Johannes , van Zyl Karlien 
Published: January 2017

Purpose
The aim of this study is to determine whether customer satisfaction, trust and commitment as relationship quality factors can be valuable to a luxury motor vehicle dealership in generating favourable behavioural intentions concerning post-purchase service and repair offerings.

Design/methodology/approach
A descriptive research design was followed, and self-administered questionnaires were fielded among customers of the luxury motor vehicle dealership. A total of 301 questionnaires were returned and the interrelationships between the constructs were examined using structural equation modelling.

Findings
It was discovered that customers who trust the dealership may be more committed, and commitment may strengthen the relationship between customer satisfaction and a favourable behavioural intention towards the dealership.

Research limitations/implications
The findings of the study add to the developing body of empirical literature on relationship quality and behavioural intention.

Practical implications
The study indicates how relationship quality factors can influence behavioural intentions of customers, assist in building long-term relationships with customers and retain current customers where post-purchase service and repairs of luxury goods are concerned.

Originality/value
The study provides an emerging market perspective of the interrelationships between relationship quality factors affecting behavioural intention regarding service and repairs of luxury goods.