bluuebunny/crossref_metadata_2025_split huggingface dataset:
Properties of the B+-H2 and B+-D2 complexes: A theoretical and spectroscopic study
Authors: Poad B. L. J. , Dryza V. , Buchachenko A. A. , Kłos J. , Bieske E. J. 
Published: October 2012

The rotationally resolved infrared spectrum of the B+-D2 ion-neutral complex is recorded in the D-D stretch vibration region (2805–2875  cm−1) by detecting B+ photofragments. Analysis of the spectrum confirms a T-shaped equilibrium geometry for the B+-D2 complex with a vibrationally averaged intermolecular bond length of 2.247 Å, around 0.02 Å shorter than for the previously characterised B+-H2 complex [V. Dryza, B. L. J. Poad, and E. J. Bieske, J. Am. Chem. Soc. 130, 12986 (2008)10.1021/ja8018302]. The D-D stretch band centre occurs at 2839.76 ± 0.10 cm−1, representing a −153.8  cm−1 shift from the Q1(0) transition of the free D2 molecule. A new three dimensional ab initio potential energy surface for the B++H2 interaction is calculated using the coupled cluster RCCSD(T) method and is used in variational calculations for the rovibrational energies of B+-H2 and B+-D2. The calculations predict dissociation energies of 1254  cm−1 for B+-H2 with respect to the B++H2 (j = 0) limit, and 1313  cm−1 for B+-D2 with respect to the B++D2 (j = 0) limit. The theoretical approach reproduces the rotational and centrifugal constants of the B+-H2 and B+-D2 complexes to within 3%, and the magnitude of the contraction of the intermolecular bond accompanying excitation of the H2 or D2 sub-unit, but underestimates the H-H and D-D vibrational band shifts by 7%–8%. Combining the theoretical and experimental results allows a new, more accurate estimation for the B+-H2 band origin (3939.64 ± 0.10  cm−1).
Evaluating the Performance of Vertical Longlines to Survey Reef Fish Populations in the Northern Gulf of Mexico
Authors: Gregalis Kevan C. , Schlenker Lela S. , Drymon J. Marcus , Mareska John F. , Powers Sean P. 
Published: October 2012

AbstractA common critique of many stock assessments is the lack of fishery‐independent abundance indices and age composition data. Such data streams are essential in evaluating population trajectories that are derived largely from harvest and age composition of landings. For example, high scientific uncertainty in the most recent stock assessment of Gulf of Mexico red snapper Lutjanus campechanus resulted from a conflict between trends in fishery‐dependent and fishery‐independent data. Because sample sizes for the latter data were an order of magnitude lower, resolution of the conflicting trends was even more problematic. Recognizing the need for cost‐effective expansion of fishery‐independent data in the region, we evaluated the performance of vertical longline surveys for sampling reef fish within a large artificial reef zone in the northern Gulf of Mexico. Specifically, we (1) determined species composition and the length frequency of red snapper (the dominant species captured) as a function of hook size and bait type within our survey area during 2010; (2) evaluated the effect of different soak times on catch for various hook types (a combination of hook size and bait type); and (3) utilized our results to test the effect of artificial reef type on red snapper CPUE and mean size. During March–November 2010, we conducted 532 vertical longline sets, capturing 1,217 red snapper that ranged from 184 to 827 mm FL. Mean FL of red snapper differed among hook sizes, with 3/0 and 8/0 hooks sampling smaller fish than 11/0 hooks. Soak time trials revealed a significant effect of soak time on CPUE, with peak catch rates observed at 5 min. As habitat area increased, the mean size and CPUE of red snapper increased. We conclude that our vertical longline is an effective gear for sampling red snapper, and we recommend protocols to maximize its utility and standardize its use.
ORCID: a system to uniquely identify researchers
Authors: HAAK Laurel L. , FENNER Martin , PAGLIONE Laura , PENTZ Ed , RATNER Howard 
Published: October 2012

ABSTRACTThe Open Researcher & Contributor ID (ORCID) registry presents a unique opportunity to solve the problem of author name ambiguity. At its core the value of the ORCID registry is that it crosses disciplines, organizations, and countries, linking ORCID with both existing identifier schemes as well as publications and other research activities. By supporting linkages across multiple datasets – clinical trials, publications, patents, datasets – such a registry becomes a switchboard for researchers and publishers alike in managing the dissemination of research findings. We describe use cases for embedding ORCID identifiers in manuscript submission workflows, prior work searches, manuscript citations, and repository deposition. We make recommendations for storing and displaying ORCID identifiers in publication metadata to include ORCID identifiers, with CrossRef integration as a specific example. Finally, we provide an overview of ORCID membership and integration tools and resources.
Applications of quantum cascade lasers in plasma diagnostics: a review
Authors: Röpcke J , Davies P B , Lang N , Rousseau A , Welzel S 
Published: October 2012

Abstract
Over the past few years mid-infrared absorption spectroscopy based on quantum cascade lasers operating over the region from 3 to 12 µm and called quantum cascade laser absorption spectroscopy or QCLAS has progressed considerably as a powerful diagnostic technique for in situ studies of the fundamental physics and chemistry of molecular plasmas. The increasing interest in processing plasmas containing hydrocarbons, fluorocarbons, nitrogen oxides and organo-silicon compounds has led to further applications of QCLAS because most of these compounds and their decomposition products are infrared active. QCLAS provides a means of determining the absolute concentrations of the ground states of stable and transient molecular species at time resolutions below a microsecond, which is of particular importance for the investigation of reaction kinetics and dynamics. Information about gas temperature and population densities can also be derived from QCLAS measurements. Since plasmas with molecular feed gases are used in many applications such as thin film deposition, semiconductor processing, surface activation and cleaning, and materials and waste treatment, this has stimulated the adaptation of QCLAS techniques to industrial requirements including the development of new diagnostic equipment. The recent availability of external cavity (EC) QCLs offers a further new option for multi-component detection. The aim of this paper is fourfold: (i) to briefly review spectroscopic issues arising from applying pulsed QCLs, (ii) to report on recent achievements in our understanding of molecular phenomena in plasmas and at surfaces, (iii) to describe the current status of industrial process monitoring in the mid-infrared and (iv) to discuss the potential of advanced instrumentation based on EC-QCLs for plasma diagnostics.
High-efficiency dye-sensitized solar cells using ferrocene-based electrolytes and natural photosensitizers
Authors: Sönmezoğlu Savaş , Akyürek Cafer , Akin Seçkin 
Published: October 2012

Abstract
A new and promising dye-sensitized solar cell (DSSC) bilayer design was developed using an Fe2+/Fe3+ (ferrocene) liquid electrolyte and natural dyes extracted from Hypericum perforatum, Rubia tinctorum L. and Reseda luteola. The photovoltaic parameters controlling the device performance were then investigated. A DSSC based on quercetin dye displayed the most efficient solar to electricity conversion efficiency compared with other dyes with a maximum η value of 2.17%. Maximum overall conversion efficiencies under simulated sunlight that was comparable to natural photosynthesis were increased by 15%. The identification of appropriate additives for improving V
OC without causing dye degradation may result in further enhancement of cell performance, making the practical application of such systems more suitable for achieving economically viable solar energy devices.
Plasma chemistry model of surface microdischarge in humid air and dynamics of reactive neutral species
Authors: Sakiyama Yukinori , Graves David B , Chang Hung-Wen , Shimizu Tetsuji , Morfill Gregor E 
Published: October 2012

Abstract
We present a numerical model of a surface microdischarge (SMD) in humid air at atmospheric pressure. Our model includes over 50 species and 600 elementary reactions and consists of two, coupled well-mixed regions: a discharge layer with both charged and neutral species and an afterglow region consisting only of neutral species. Multiple time steps employed in our model enable capturing rapid dynamic behaviour in the discharge layer as well as the relatively slow diffusion and reaction in the afterglow. A short duration, high electric field is assumed to be excited at 10 kHz in the discharge region with power density maintained at 0.05 W cm−2. Among the predicted dominant species in the afterglow are O3, N2O5, N2O, HNO3, H2, NO3, H2O2, HNO2 and NO2. The results are in qualitative agreement with Fourier transform infrared absorption spectroscopy. Our simulation results show that density of those reactive species continues to evolve significantly in time, even after ∼15 min of SMD exposure. This result suggests that SMD treatments on the order of minutes or less may involve significant neutral species concentration and flux transients, potentially affecting interpretation of results.
Instrumented Minimally Invasive Spinal-Transforaminal Lumbar Interbody Fusion (MIS-TLIF)
Authors: Kim Jin-Sung , Jung Byungjoo , Lee Sang-Ho 
Published: October 2012

Study Design:
A retrospective study.

Objective:
To determine the clinical and radiologic outcomes of the long-term results of instrumented minimally invasive spinal-transforaminal lumbar interbody fusion (MIS-TLIF) in unstable, single-level, low-grade, isthmic spondylolisthesis (IS) or degenerative spondylosis (DS) including degenerative spondylolisthesis, foraminal stenosis with central stenosis, degenerative disk disease, and recurrent disk herniation.

Summary of Background Data:
MIS-TLIF is a common surgical procedure to treat lumbar spondylolisthesis. However, there are no studies that have documented the long-term results of MIS-TLIF.

Methods:
Forty-four patients who had undergone instrumented MIS-TLIF between July 2003 and January 2005 were retrospectively reviewed. The visual analog scale, Oswestry Disability Index, patient satisfaction rate, and the patient’s return-to-work status were used to assess clinical and functional outcomes. Radiologic follow-up were carried out in patients to check for adjacent segmental degeneration (ASD). The plain radiographs, computed tomography and magnetic resonance imaging, were used in all patients in last follow-up period.

Results:
The mean visual analog scale scores for back and leg pain decreased from 5.8 and 7 to 3.5 and 3.7, respectively, in the DS group (n=19) and from 6.8 and 6.9 to 1.8 and 2.0, respectively, in the IS group (n=25) (P<0.001). The mean Oswestry Disability Index scores improved from 61.7% to 21.5% in the DS group and from 53.9% to 16% in the IS group (P<0.001). Patient satisfaction rate was 80% and 81% in the DS and IS groups, respectively. Evidence of fusion was observed radiologically in 24 (96%) and 19 (100%) of the patients in the IS and the DS group, respectively, giving an overall fusion rate of 97.7% (43/44). The final ASD rate, observed using radiography, was 68.4% (13/19) in the DS and 40% (10/25) in the IS group. However, 15.8% (3/19) in the DS and 4% (1/25) in the IS group had symptoms associated with ASD.

Conclusions:
The long-term clinical and radiologic outcomes after instrumented MIS-TLIF in patients with unstable single-level spine are favorable.
Functional Analysis of Three Arabidopsis ARGONAUTES Using Slicer-Defective Mutants
Authors: Carbonell Alberto , Fahlgren Noah , Garcia-Ruiz Hernan , Gilbert Kerrigan B. , Montgomery Taiowa A. , Nguyen Tammy , Cuperus Josh T. , Carrington James C. 
Published: October 2012

Abstract
In RNA-directed silencing pathways, ternary complexes result from small RNA-guided ARGONAUTE (AGO) associating with target transcripts. Target transcripts are often silenced through direct cleavage (slicing), destabilization through slicer-independent turnover mechanisms, and translational repression. Here, wild-type and active-site defective forms of several Arabidopsis thaliana AGO proteins involved in posttranscriptional silencing were used to examine several AGO functions, including small RNA binding, interaction with target RNA, slicing or destabilization of target RNA, secondary small interfering RNA formation, and antiviral activity. Complementation analyses in ago mutant plants revealed that the catalytic residues of AGO1, AGO2, and AGO7 are required to restore the defects of Arabidopsis ago1-25, ago2-1, and zip-1 (AGO7-defective) mutants, respectively. AGO2 had slicer activity in transient assays but could not trigger secondary small interfering RNA biogenesis, and catalytically active AGO2 was necessary for local and systemic antiviral activity against Turnip mosaic virus. Slicer-defective AGOs associated with miRNAs and stabilized AGO-miRNA-target RNA ternary complexes in individual target coimmunoprecipitation assays. In genome-wide AGO-miRNA-target RNA coimmunoprecipitation experiments, slicer-defective AGO1-miRNA associated with target RNA more effectively than did wild-type AGO1-miRNA. These data not only reveal functional roles for AGO1, AGO2, and AGO7 slicer activity, but also indicate an approach to capture ternary complexes more efficiently for genome-wide analyses.
Two Direct Targets of Cytokinin Signaling Regulate Symbiotic Nodulation in Medicago truncatula
Authors: Ariel Federico , Brault-Hernandez Marianne , Laffont Carole , Huault Emeline , Brault Mathias , Plet Julie , Moison Michael , Blanchet Sandrine , Ichanté Jean Laurent , Chabaud Mireille , Carrere Sébastien , Crespi Martin , Chan Raquel L. , Frugier Florian 
Published: October 2012

Abstract
Cytokinin regulates many aspects of plant development, and in legume crops, this phytohormone is necessary and sufficient for symbiotic nodule organogenesis, allowing them to fix atmospheric nitrogen. To identify direct links between cytokinins and nodule organogenesis, we determined a consensus sequence bound in vitro by a transcription factor (TF) acting in cytokinin signaling, the nodule-enhanced Medicago truncatula Mt RR1 response regulator (RR). Among genes rapidly regulated by cytokinins and containing this so-called RR binding site (RRBS) in their promoters, we found the nodulation-related Type-A RR Mt RR4 and the Nodulation Signaling Pathway 2 (NSP2) TF. Site-directed mutagenesis revealed that RRBS cis-elements in the RR4 and NSP2 promoters are essential for expression during nodule development and for cytokinin induction. Furthermore, a microRNA targeting NSP2 (miR171 h) is also rapidly induced by cytokinins and then shows an expression pattern anticorrelated with NSP2. Other primary targets regulated by cytokinins depending on the Cytokinin Response1 (CRE1) receptor were a cytokinin oxidase/dehydrogenase (CKX1) and a basic Helix-Loop-Helix TF (bHLH476). RNA interference constructs as well as insertion of a Tnt1 retrotransposon in the bHLH gene led to reduced nodulation. Hence, we identified two TFs, NSP2 and bHLH476, as direct cytokinin targets acting at the convergence of phytohormonal and symbiotic cues.
Plastid Localization of the Key Carotenoid Enzyme Phytoene Synthase Is Altered by Isozyme, Allelic Variation, and Activity
Authors: Shumskaya Maria , Bradbury Louis M.T. , Monaco Regina R. , Wurtzel Eleanore T. 
Published: October 2012

Abstract
Plant carotenoids have unique physiological roles related to specific plastid suborganellar locations. Carotenoid metabolic engineering could enhance plant adaptation to climate change and improve food security and nutritional value. However, lack of fundamental knowledge on carotenoid pathway localization limits targeted engineering. Phytoene synthase (PSY), a major rate-controlling carotenoid enzyme, is represented by multiple isozymes residing at unknown plastid sites. In maize (Zea mays), the three isozymes were transiently expressed and found either in plastoglobuli or in stroma and thylakoid membranes. PSY1, with one to two residue modifications of naturally occurring functional variants, exhibited altered localization, associated with distorted plastid shape and formation of a fibril phenotype. Mutating the active site of the enzyme reversed this phenotype. Discovery of differential PSY locations, linked with activity and isozyme type, advances the engineering potential for modifying carotenoid biosynthesis.
Tyr682 in the Aβ‐precursor protein intracellular domain regulates synaptic connectivity, cholinergic function, and cognitive performance
Authors: Matrone Carmela , Luvisetto Siro , La Rosa Luca R. , Tamayev Robert , Pignataro Annabella , Canu Nadia , Yang Li , Barbagallo Alessia P. M. , Biundo Fabrizio , Lombino Franco , Zheng Hui , Ammassari‐Teule Martine , D'Adamio Luciano 
Published: October 2012

SummaryProcessing of Aβ‐precursor protein (APP) plays an important role in Alzheimer's disease (AD) pathogenesis. The APP intracellular domain contains residues important in regulating APP function and processing, in particular the 682YENPTY687 motif. To dissect the functions of this sequence in vivo, we created an APP knock‐in allele mutating Y682 to Gly (APPYG/YG mice). This mutation alters the processing of APP and TrkA signaling and leads to postnatal lethality and neuromuscular synapse defects when expressed on an APP‐like protein 2 KO background. This evidence prompted us to characterize further the APPYG/YG mice. Here, we show that APPYG/YG mice develop aging‐dependent decline in cognitive and neuromuscular functions, a progressive reduction in dendritic spines, cholinergic tone, and TrkA levels in brain regions governing cognitive and motor functions. These data are consistent with our previous findings linking NGF and APP signaling and suggest a causal relationship between altered synaptic connectivity, cholinergic tone depression and TrkA signaling deficit, and cognitive and neuromuscular decline in APPYG/YG mice. The profound deficits caused by the Y682 mutation underscore the biological importance of APP and indicate that APPYG/YG are a valuable mouse model to study APP functions in physiological and pathological processes.
Common genetic variants of the β2‐adrenergic receptor affect its translational efficiency and are associated with human longevity
Authors: Zhao Ling , Yang Fan , Xu Ke , Cao Huiqing , Zheng Gu‐Yan , Zhang Yan , Li Jianxin , Cui Hanbin , Chen Xiaomin , Zhu Zhiming , He Hongbo , Mo Xianming , Kennedy Brian K. , Suh Yousin , Zeng Yi , Tian Xiao‐Li 
Published: October 2012

Summaryβ‐adrenoceptors are the common pharmacological targets for the treatment of cardiovascular diseases and asthma. Genetic modifications of β‐adrenergic system in engineered mice affect their lifespan. Here, we tested whether genes encoding for key components of the β‐adrenergic signaling pathway are associated with human longevity. We performed a 10‐year follow‐up study of the Chinese longitudinal healthy longevity survey. The Han Chinese population in this study consisted of 963 long‐lived and 1028 geography‐matched young individuals. Sixteen SNPs from ADRB1, ADRB2, ADCY5, ADCY6, and MAPK1 were selected and genotyped. Two SNPs, rs1042718 (C/A) and rs1042719 (G/C), of ADRB2 in linkage disequilibrium (D' = 1.0; r2 = 0.67) were found to be associated with enhanced longevity in men in two geographically isolated populations. Bonferroni‐corrected P‐values in a combined analysis were 0.00053–0.010. Men with haplotype A‐C showed an increased probability to become centenarians (the frequency of A‐C in long‐lived and young individuals are 0.332 and 0.250, respectively, OR = 1.49, CI 95% = 1.17–1.88, P = 0.0007), in contrast to those with haplotype C‐G (the frequency of C‐G in long‐lived and young individuals are 0.523 and 0.635, respectively, OR = 0.63, CI 95% = 0.51–0.78, P = 0.000018). The permuted P‐values were 0.00005 and 0.0009, respectively. ADRB2 encodes the β2‐adrenergic receptor; the haplotype A‐C markedly reduced its translational efficiency compared with C‐G (P = 0.002) in transfected HEK293 cells. Thus, our data indicate that enhanced production of β2‐adrenergic receptors caused by genetic variants is inversely associated with human lifespan.
Parvovirus transmission by blood products – a cause for concern?
Authors: Norja Päivi , Lassila Riitta , Makris Mike 
Published: October 2012

SummaryThe introduction of dual viral inactivation of clotting factor concentrates has practically eliminated infections by viruses associated with significant pathogenicity over the last 20 years. Despite this, theoretical concerns about transmission of infection have remained, as it is known that currently available viral inactivation methods are unable to eliminate parvovirus B19 or prions from these products. Recently, concern has been raised following the identification of the new parvoviruses, human parvovirus 4 (PARV4) and new genotypes of parvovirus B19, in blood products. Parvoviruses do not cause chronic pathogenicity similar to human immunodeficiency virus or hepatitis C virus, but nevertheless may cause clinical manifestations, especially in immunosuppressed patients. Manufacturers should institute measures, such as minipool polymerase chain reaction testing, to ensure that their products contain no known viruses. So far, human bocavirus, another new genus of parvovirus, has not been detected in fractionated blood products, and unless their presence can be demonstrated, routine testing during manufacture is not essential. Continued surveillance of the patients and of the safety of blood products remains an important ongoing issue.
CBL mutations do not frequently occur in paediatric acute myeloid leukaemia
Authors: Coenen Eva A. , Driessen Emma M. C. , Zwaan C.Michel , Stary Jan , Baruchel Andre , de Haas Valerie , de Bont Eveline S. J. M. , Reinhardt Dirk , Kaspers Gertjan J. L. , Arentsen‐Peters Susan T. C. J. M. , Meyer Claus , Marschalek Rolf , Pieters Rob , Stam Ronald W. , van den Heuvel‐Eibrink Marry M. 
Published: October 2012

SummaryRAS‐pathway mutations, causing a proliferative advantage, occur in acute myeloid leukaemia (AML) and MLL‐rearranged leukaemia. Recently, mutations in the Casitas B lineage lymphoma (CBL) gene were reported to be involved in RAS‐pathway activation in various myeloid malignancies, but their role in paediatric AML is still unknown.We performed mutation analysis of 283 newly diagnosed and 33 relapsed paediatric AML cases. Only two mutant cases (0·7%) were identified in the newly diagnosed paediatric AML samples, of which one was MLL‐rearranged. Both mutant cases showed CBL mRNA expression in the range of the non‐mutated cases. Phosphorylated extracellular signal‐regulated kinase (pERK) was not correlated with CBL protein expression (n = 11).In conclusion, we report a very low CBL mutation frequency in paediatric AML, which, together with the lack of difference in protein and mRNA expression, illustrates the limited role of CBL in paediatric AML.