bluuebunny/crossref_metadata_2025_split huggingface dataset:
The E3 Ubiquitin Ligase COP1 Regulates Thermosensory Flowering by Triggering GI Degradation in Arabidopsis
Authors: Jang Kiyoung , Gil Lee Hong , Jung Su-Jin , Paek Nam-Chon , Joon Seo Pil 
Published: July 2015

AbstractFloral transition is influenced by environmental factors such as light and temperature. Plants are capable of integrating photoperiod and ambient temperature signaling into their developmental program. Despite extensive investigations on individual genetic pathways, little is known about the molecular components that integrate both pathways. Here, we demonstrate that the RING finger–containing E3 ubiquitin ligase CONSTITUTIVE PHOTOMORPHOGENIC1 (COP1) acts as an integrator of photoperiod and ambient temperature signaling. In addition to the role in photoperiodic destabilization of CONSTANS (CO), COP1 also regulates temperature sensitivity by controlling the degradation of GIGANTEA (GI). COP1-impaired mutants showed reduced sensitivity to low ambient temperature. Notably, COP1 is more stabilized at low temperature and accelerates GI turnover in a 26S proteasome-dependent manner. The direct association of GI with the promoter of FLOWERING LOCUS T (FT) was reduced because of its ambient temperature-dependent protein stability control and thus COP1-triggered GI turnover delays flowering at low temperatures via a CO-independent pathway. Taken together, our findings indicate that environmental conditions regulate the stability of COP1 and conditional specificity of its target selection stimulates proper developmental responses and ensures reproductive success.
Fetuin-A as a predicator of sarcopenic left ventricular dysfunction
Authors: Chang Wei-Ting , Tsai Wei-Chuan , Wu Chih-Hsing , Lee Yen-Wei , Tai Yun-Lin , Li Yi-Heng , Tsai Liang-Miin , Chen Jyh-Hong , Liu Ping-Yen 
Published: July 2015

AbstractSarcopenia is an aging condition involving low muscle mass and function. Fetuin-A (FetA) appears to be a factor for body composition remodeling. We hypothesized that age increases FetA levels and deteriorates the myocardial function by affecting diastolic function, especially in people with sarcopenia. We enrolled 541 asymptomatic elderly (≥65 years) patients. Compared with non-sarcopenic population, FetA levels were significantly elevated in the ninety-two (17%) patients (79 ± 6 years; male: 34.7%) diagnosed with sarcopenia (621.1 ± 140.7 vs. 697.3 ± 179.6 μg/ml, < 0.001). Sarcopenic left ventricular dysfunction (S-LVD) was defined by the coexistence of sarcopenia and systolic impairment (LVEF < 50%) and 23 (4.3%) of them met the criteria. Patients with S-LVD showed relatively reduced systolic heart function, higher end-diastolic pressure and a higher FetA level (all p < 0.001) than did those with sarcopenia but without LV dysfunction (S-NLVD). Conversely, in the group without sarcopenia, FetA levels were similar regardless of systolic function. Multivariable logistic regression showed that older age, impaired diastolic function and higher FetA levels were significantly associated with S-LVD. In conclusion, we found that FetA was significantly higher in elderly patients with sarcopenia, which was associated with impaired diastolic and systolic functions.
Low alpha-synuclein levels in the blood are associated with insulin resistance
Authors: Rodriguez-Araujo Gerardo , Nakagami Hironori , Takami Yoichi , Katsuya Tomohiro , Akasaka Hiroshi , Saitoh Shigeyuki , Shimamoto Kazuaki , Morishita Ryuichi , Rakugi Hiromi , Kaneda Yasufumi 
Published: July 2015

AbstractMutations in the protein alpha-synuclein (SNCA) have been linked to Parkinson’s disease. We recently reported that non-mutated SNCA enhanced glucose uptake through the Gab1-PI3 kinase-Akt pathway and elucidated its effects on glucose regulation. Here, we examined the association of SNCA with insulin resistance (IR), a condition that is characterized by decreased tissue glucose uptake. Our observations include those from a population study as well as a SNCA-deficient mouse model, which had not previously been characterized in an IR scenario. In 1,152 patients, we found that serum SNCA levels were inversely correlated with IR indicators—body mass index, homeostatic model assessment for IR (HOMA-IR) and immunoreactive insulin (IRI)—and, to a lesser extent, with blood pressure and age. Additionally, SNCA-deficient mice displayed alterations in glucose and insulin responses during diet-induced IR. Moreover, during euglycemic clamp assessments, SNCA knock-out mice fed a high-fat diet (HFD) showed severe IR in adipose tissues and skeletal muscle. These findings provide new insights into IR and diabetes and point to SNCA as a potential candidate for further research.
Metagenomic insights into strategies of aerobic and anaerobic carbon and nitrogen transformation in boreal lakes
Authors: Peura Sari , Sinclair Lucas , Bertilsson Stefan , Eiler Alexander 
Published: July 2015

AbstractThousands of net-heterotrophic and strongly stratifying lakes dominate the boreal landscape. Besides their central role as emitters of greenhouse gases, we have only recently begun to understand the microbial systems driving the metabolic processes and elemental cycles in these lakes. Using shotgun metagenomics, we show that the functional potential differs among lake types, with humic lakes being particularly enriched in carbon degradation genes. Most of the metabolic pathways exhibit oxygen- and temperature-dependent stratification over depth, coinciding with shifts in bacterial community composition, implying that stratification is a major factor controlling lake metabolism. In the bottom waters, rare and poorly characterized taxa, such as ε-Proteobacteria, but also autotrophs, such as photolithotrophic Chlorobia were abundant. These oxygen-depleted layers exhibited high genetic potential for mineralization, but also for fixation of carbon and nitrogen and genetic markers for both methane production and oxidation were present. Our study provides a first glimpse of the genetic versatility of freshwater anoxic zones and demonstrates the potential for complete turnover of carbon compounds within the water column.
Near-field collimation of light carrying orbital angular momentum with bull’s-eye-assisted plasmonic coaxial waveguides
Authors: Pu Mingbo , Ma Xiaoliang , Zhao Zeyu , Li Xiong , Wang Yanqin , Gao Hui , Hu Chenggang , Gao Ping , Wang Changtao , Luo Xiangang 
Published: July 2015

AbstractThe orbital angular momentum (OAM) of light, as an emerging hotspot in optics and photonics, introduces many degrees of freedom for applications ranging from optical communication and quantum processing to micromanipulation. To achieve a high degree of integration, optical circuits for OAM light are essential, which are, however, challenging in the optical regime owing to the lack of well-developed theory. Here we provide a scheme to guide and collimate the OAM beam at the micro- and nano-levels. The coaxial plasmonic slit was exploited as a naturally occurring waveguide for light carrying OAM. Concentric grooves etched on the output surface of the coaxial waveguide were utilized as a plasmonic metasurface to couple the OAM beam to free space with greatly increased beam directivity. Experimental results at λ = 532 nm validated the novel transportation and collimating effect of the OAM beam. Furthermore, dynamic tuning of the topological charges was demonstrated by using a liquid crystal spatial light modulator (SLM).
Results of an abbreviated phase-II study with the Akt Inhibitor MK-2206 in Patients with Advanced Biliary Cancer
Authors: Ahn Daniel H. , Li Junan , Wei Lai , Doyle Austin , Marshall John L. , Schaaf Larry J. , Phelps Mitch A. , Villalona-Calero Miguel A. , Bekaii-Saab Tanios 
Published: July 2015

AbstractBiliary cancers (BC) are rare, chemoresistant and are associated with a poor prognosis. Targeting the Akt pathway is of significance in BC. We hypothesized that the allosteric inhibitor MK-2206 will be active in BC. This was a multi-institutional phase II study of MK-2206 given to patients with advanced, refractory BC. The primary end point was overall response rate. We also characterized pharmacokinetic profiles of MK-2206 in these patients and explored its potential correlation with clinical outcomes. Eight patients were enrolled prior to early termination of the trial. All patients had received prior systemic therapy. The best response observed was stable disease, exceeding 12 weeks in two patients. Toxicities were mild and tolerable. MK-2206 exhibited a pharmacokinetic profile with an apparent slow absorption followed by biphasic elimination in these patients with BC. No significant association was observed between the pharmacokinetic properties of MK-2206 and clinical outcomes. MK-2206 as a single-agent in BC is tolerable with pharmacokinetic properties similar to patients with other solid tumors. No clinical activity was observed in this limited population. Further development of Akt inhibitors may need to focus on combinations with other molecular targeted agents, conventional cytotoxic chemotherapy and prospective patient selection.
Calibration of Clinical Audio Recording and Analysis Systems for Sound Intensity Measurement
Authors: Maryn Youri , Zarowski Andrzej 
Published: July 2015

Purpose
Sound intensity is an important acoustic feature of voice/speech signals. Yet recordings are performed with different microphone, amplifier, and computer configurations, and it is therefore crucial to calibrate sound intensity measures of clinical audio recording and analysis systems on the basis of output of a sound-level meter. This study was designed to evaluate feasibility, validity, and accuracy of calibration methods, including audiometric speech noise signals and human voice signals under typical speech conditions.

Method
Calibration consisted of 3 comparisons between data from 29 measurement microphone-and-computer systems and data from the sound-level meter: signal-specific comparison with audiometric speech noise at 5 levels, signal-specific comparison with natural voice at 3 levels, and cross-signal comparison with natural voice at 3 levels. Intensity measures from recording systems were then linearly converted into calibrated data on the basis of these comparisons, and validity and accuracy of calibrated sound intensity were investigated.

Results
Very strong correlations and quasisimilarity were found between calibrated data and sound-level meter data across calibration methods and recording systems.

Conclusions
Calibration of clinical sound intensity measures according to this method is feasible, valid, accurate, and representative for a heterogeneous set of microphones and data acquisition systems in real-life circumstances with distinct noise contexts.
Dynamic epigenetic regulation of glioblastoma tumorigenicity through LSD1 modulation of MYC expression
Authors: Kozono David , Li Jie , Nitta Masayuki , Sampetrean Oltea , Gonda David , Kushwaha Deepa S. , Merzon Dmitry , Ramakrishnan Valya , Zhu Shan , Zhu Kaya , Matsui Hiroko , Harismendy Olivier , Hua Wei , Mao Ying , Kwon Chang-Hyuk , Saya Hideyuki , Nakano Ichiro , Pizzo Donald P. , VandenBerg Scott R. , Chen Clark C. 
Published: July 2015

Significance
Glioblastoma is the most common type of adult brain cancer, with near-uniform fatality within 2 y of diagnosis. Therapeutic failure is thought to be related to small subpopulations of cells that exhibit tumorigenicity, the cellular capacity to reconstitute the entire tumor mass. One fundamental issue is whether tumorigenicity exists within a static subpopulation of cells or whether the capacity is stochastically acquired. We provide evidence that tumorigenicity is a cellular property that is durable yet undergoes low-frequency stochastic changes. We showed that these changes are driven by lysine-specific demethylase 1 (LSD1)-mediated epigenetic (heritable non-DNA sequence-altering) modifications that impact expression of key transcription factors, which in turn govern transitions between tumorigenic states. These findings harbor implications for glioblastoma therapeutic development.
A finite basis theorem for difference-term varieties with a finite residual bound
Authors: Kearnes Keith , Szendrei Ágnes , Willard Ross 
Published: July 2015

We prove that if

V

\mathcal V

is a variety of algebras (i.e., an equationally axiomatizable class of algebraic structures) in a finite language,

V

\mathcal V

has a difference term, and

V

\mathcal V

has a finite residual bound, then

V

\mathcal V

is finitely axiomatizable. This provides a common generalization of R. McKenzie’s finite basis theorem for congruence modular varieties with a finite residual bound, and R. Willard’s finite basis theorem for congruence meet-semidistributive varieties with a finite residual bound.
Comparison of 4 Admission Blood Pressure Indexes for Predicting
30-Day Mortality in Patients With ST-Segment Elevation Myocardial
Infarction
Authors: Ma Wen-fang , Liang Yan , Zhu Jun , Yang Yan-min , Tan Hui-qiong , Yu Li-tian , Gao Xin , Feng Guang-xun , Li Jian-dong 
Published: July 2015

Abstract

BACKGROUND
We compared admission systolic blood pressure (SBP), diastolic blood pressure (DBP), pulse pressure (PP), and mean arterial pressure (MAP) in predicting 30-day all-cause mortality in patients with ST-segment elevation myocardial infarction (STEMI) without cardiogenic shock.

METHODS
A retrospective study was performed in 7,033 consecutive STEMI patients. Multivariate-adjusted hazard ratios (HRs) with a 10mm Hg increment and quartiles of each blood pressure were determined by Cox proportional hazard analyses; Wald χ2 tests were used to compare the strength of relationships.

RESULTS
Totally 593 (8.4%) patients died during follow-up. Of 4 indexes, only SBP (HR 0.94 per 10mm Hg, 95% confidence interval (CI) 0.91 to 0.98; P = 0.001) and PP (HR 0.89 per 10 mmHg, 95% CI 0.85 to 0.94; P &lt; 0.001) were significantly associated with 30-day all-cause mortality; these in the highest vs. lowest quartiles of SBP (≥140 vs. &lt;110mm Hg) and PP (≥60 vs. &lt;40mm Hg) had HRs of mortality of 0.70 (95% CI 0.55 to 0.87; P = 0.003) and 0.60 (95% CI 0.47 to 0.75; P &lt; 0.001), respectively. Compared with SBP, PP was a better predictor for mortality no matter in men ( χ2 = 5.9 for per 10mm Hg, χ2 = 10.8 for quartiles) or women ( χ2 = 15.1 for per 10mm Hg, χ2 = 19.5 for quartiles), and the relationship remained significant after adjustment of SBP. There was a pattern of declining risk with increasing blood pressures for mortality, and this trend was mainly observed in age groups of more than 70 years.

CONCLUSIONS
Pulse pressure was an independent predictor of mortality in patients with STEMI, and low admission blood pressure should serve as a warning sign.
Predicting Risk of End-Stage Liver Disease in Antiretroviral-Treated Human Immunodeficiency Virus/Hepatitis C Virus-Coinfected Patients
Authors: Lo Re Vincent , Kallan Michael J. , Tate Janet P. , Lim Joseph K. , Goetz Matthew Bidwell , Klein Marina B. , Rimland David , Rodriguez-Barradas Maria C. , Butt Adeel A. , Gibert Cynthia L. , Brown Sheldon T. , Park Lesley S. , Dubrow Robert , Reddy K. Rajender , Kostman Jay R. , Justice Amy C. , Localio A. Russell 
Published: July 2015

Abstract
Background.  End-stage liver disease (ESLD) is an important cause of morbidity among human immunodeficiency virus (HIV)/hepatitis C virus (HCV)-coinfected patients. Qua.jpegying the risk of this outcome over time could help determine which coinfected patients should be targeted for risk factor modification and HCV treatment. We evaluated demographic, clinical, and laboratory variables to predict risk of ESLD in HIV/HCV-coinfected patients receiving antiretroviral therapy (ART).
Methods.  We conducted a retrospective cohort study among 6016 HIV/HCV-coinfected patients who received ART within the Veterans Health Administration between 1997 and 2010. The main outcome was incident ESLD, defined by hepatic decompensation, hepatocellular carcinoma, or liver-related death. Cox regression was used to develop prognostic models based on baseline demographic, clinical, and laboratory variables, including FIB-4 and aspartate aminotransferase-to-platelet ratio index, previously validated markers of hepatic fibrosis. Model performance was assessed by discrimination and decision curve analysis.
Results.  Among 6016 HIV/HCV patients, 532 (8.8%) developed ESLD over a median of 6.6 years. A model comprising FIB-4 and race had modest discrimination for ESLD (c-statistic, 0.73) and higher net benefit than alternative strategies of treating no or all coinfected patients at relevant risk thresholds. For FIB-4 &gt;3.25, ESLD risk ranged from 7.9% at 1 year to 26.0% at 5 years among non-blacks and from 2.4% at 1 year to 14.0% at 5 years among blacks.
Conclusions.  Race and FIB-4 provided important predictive information on ESLD risk among HIV/HCV patients. Estimating risk of ESLD using these variables could help direct HCV treatment decisions among HIV/HCV-coinfected patients.
Protein binding and methylation on looping chromatin accurately predict distal regulatory interactions
Authors: Whalen Sean , Truty Rebecca M. , Pollard Katherine S. 
Published: July 2015

AbstractIdentifying the gene targets of distal regulatory sequences is a challenging problem with the potential to illuminate the causal underpinnings of complex diseases. However, current experimental methods to map enhancer-promoter interactions genome-wide are limited by their cost and complexity. We presentTargetFinder, a computational method that reconstructs a cell’s three-dimensional regulatory landscape from two-dimensional genomic features.TargetFinderachieves outstanding predictive accuracy across diverse cell lines with a false discovery rate up to fifteen times smaller than common heuristics, and reveals that distal regulatory interactions are characterized by distinct signatures of protein interactions and epigenetic marks on the DNA loop between an active enhancer and targeted promoter. Much of this signature is shared across cell types, shedding light on the role of chromatin organization in gene regulation and establishingTargetFinderas a method to accurately map long-range regulatory interactions using a small number of easily acquired datasets.
Examining the cultural value of festivals
Authors: George Jodie 
Published: July 2015

Purpose– Within Australia, cultural festivals focusing on music, food and art represent important social and economic opportunities for rural communities. However, tensions may also arise within communities where stakeholder ideologies are at odds regarding the place identity being presented for consumption by tourism practices. Thus, using Mitchell’s model of creative destruction/creative enhancement as a theoretical framework and through qualitative analysis, the purpose of this paper is to critically examine three South Australian festivals from multiple perspectives, to identify what relevant stakeholders consider festivals contribute to the community and how this may impact on the success of the festival itself.Design/methodology/approach– Using Mitchell’s model of creative destruction/creative enhancement as a theoretical framework and through qualitative analysis, this research critically examines three South Australian festivals from multiple perspectives, to identify what relevant stakeholders consider festivals contribute to the community and how this may impact on the success of the festival itself.Findings– Findings suggest that those communities who present a more complex understanding of the “rural idyll” through the integration of multiple local products will experience greater success, both for internal and external audiences.Originality/value– This research represents a unique contribution to the literature on festivals by combining the theoretical construct of cultural value with Mitchell’s model of creative destruction and creative enhancement, particularly within South Australia where little such work has been one, despite the fact that it presents itself as the “Festival State”.
Hecke characters associated to Drinfeld modular forms
Authors: Böckle Gebhard , Centeleghe Tommaso 
Published: July 2015

In this article we explain how the results in our previous article on ‘algebraic Hecke characters and compatible systems of mod$p$Galois representations over global fields’ allow one to attach a Hecke character to every cuspidal Drinfeld modular eigenform from its associated crystal that was constructed in earlier work of the author. On the technical side, we prove along the way a number of results on endomorphism rings of${\it\tau}$-sheaves and crystals. These are needed to exhibit the close relation between Hecke operators as endomorphisms of crystals on the one side and Frobenius automorphisms acting on étale sheaves associated to crystals on the other. We also present some partial results on the ramification of Hecke characters associated to Drinfeld modular eigenforms. An important phenomenon absent from the case of classical modular forms is that ramification can also result from places of modular curves of good but non-ordinary reduction. In an appendix, jointly with Centeleghe we prove some basic results on$p$-adic Galois representations attached to$\text{GL}_{2}$-type cuspidal automorphic forms over global fields of characteristic $p$.
Rock physics of fibrous rocks akin to Roman concrete explains uplifts at Campi Flegrei Caldera
Authors: Vanorio Tiziana , Kanitpanyacharoen Waruntorn 
Published: July 2015

Cementing Roman concrete to a caldera
Ancient concrete would seem to have little to do with volcano geology. However, Vanorio and Kanitpanyacharoen found similarities between the caprock of the Campi Flegrei caldera near Naples, Italy, and the Roman-era concrete for which the region was known. Both materials require a similar set of chemical reactions to give it the high strength caused by microstructures of intertwining fibrous minerals. The high strength of the natural rock explains the ability of the caldera to withstand periods of high-rate uplift without eruption. The Romans living in the caldera, where the town of Pozzuoli is today, may have been trying to mimic nature to produce this iconic material.

Science
, this issue p.
617
Draft Genome Sequence of a Natural Root Isolate, Bacillus subtilis UD1022, a Potential Plant Growth-Promoting Biocontrol Agent
Authors: Bishnoi Usha , Polson Shawn W. , Sherrier D. Janine , Bais Harsh P. 
Published: July 2015

ABSTRACT

Bacillus subtilis
, which belongs to the phylum
Firmicutes
, is the most widely studied Gram-positive model organism. It is found in a wide variety of environments and is particularly abundant in soils and in the gastrointestinal tracts of ruminants and humans. Here, we present the complete genome sequence of the newly described
B. subtilis
strain UD1022. The UD1022 genome consists of a 4.025-Mbp chromosome, and other major findings from our analysis will provide insights into the genomic basis of it being a plant growth-promoting rhizobacterium (PGPR) with biocontrol potential.
Complete Genome Sequence of a CTX-M-15-Producing Klebsiella pneumoniae Outbreak Strain from Multilocus Sequence Type 514
Authors: Becker Laura , Bunk Boyke , Eller Christoph , Steglich Matthias , Pfeifer Yvonne , Werner Guido , Nübel Ulrich 
Published: July 2015

ABSTRACT

We report here the genome sequence of a multidrug-resistant
Klebsiella pneumoniae
strain, which caused an outbreak in a neonatal ward in 2011. The genome consists of a single chromosome (5,278 kb) and three plasmids (362 kb, 5 kb, and 4 kb).
Genome Sequence of
Vibrio
VPAP30, Isolated from an Episode of Massive Mortality of Reared Larvae of the Scallop
Argopecten purpuratus
Authors: Rojas Rodrigo , Miranda Claudio D. , Romero Jaime , Asenjo Freddy , Valderrama Katherinne , Segovia Cristopher , Ugalde Juan A. , Santander Javier 
Published: July 2015

ABSTRACT

We report here the 5.167-Mbp draft genome sequence of
Vibrio
VPAP30, isolated from an
Argopecten purpuratus
larval culture.
Vibrio
VPAP30 is the etiological agent of a vibriosis outbreak causing a complete collapse of a larval culture of the scallop
A. purpuratus
, which occurred in a commercial hatchery in Chile.