bluuebunny/crossref_metadata_2025_split huggingface dataset:
Southern Annular Mode Dynamics in Observations and Models. Part I: The Influence of Climatological Zonal Wind Biases in a Comprehensive GCM
Authors: Simpson Isla R. , Hitchcock Peter , Shepherd Theodore G. , Scinocca John F. 
Published: November 2012

Abstract
A common bias among global climate models (GCMs) is that they exhibit tropospheric southern annular mode (SAM) variability that is much too persistent in the Southern Hemisphere (SH) summertime. This is of concern for the ability to accurately predict future SH circulation changes, so it is important that it be understood and alleviated. In this two-part study, specifically targeted experiments with the Canadian Middle Atmosphere Model (CMAM) are used to improve understanding of the enhanced summertime SAM persistence. Given the ubiquity of this bias among comprehensive GCMs, it is likely that the results will be relevant for other climate models.
Here, in Part I, the influence of climatological circulation biases on SAM variability is assessed, with a particular focus on two common biases that could enhance summertime SAM persistence: the too-late breakdown of the Antarctic stratospheric vortex and the equatorward bias in the SH tropospheric midlatitude jet. Four simulations are used to investigate the role of each of these biases in CMAM. Nudging and bias correcting procedures are used to systematically remove zonal-mean stratospheric variability and/or remove climatological zonal wind biases. The SAM time-scale bias is not alleviated by improving either the timing of the stratospheric vortex breakdown or the climatological jet structure. Even in the absence of stratospheric variability and with an improved climatological circulation, the model time scales are biased long. This points toward a bias in internal tropospheric dynamics that is not caused by the tropospheric jet structure bias. The underlying cause of this is examined in more detail in Part II of this study.
Evaluation of the Complementary Relationship Using Noah Land Surface Model and North American Regional Reanalysis (NARR) Data to Estimate Evapotranspiration in Semiarid Ecosystems
Authors: Jaksa W. Thilini , Sridhar Venkataramana , Huntington Justin L. , Khanal Mandar 
Published: November 2012

Abstract
Estimating evapotranspiration using the complementary relationship can serve as a proxy to more sophisticated physically based approaches and can be used to better understand water and energy budget feedbacks. The authors investigated the existence of complementarity between actual evapotranspiration (ET) and potential ET (ETp) over natural vegetation in semiarid desert ecosystems of southern Idaho using only the forcing data and simulated fluxes obtained from Noah land surface model (LSM) and North American Regional Reanalysis (NARR) data. To mitigate the paucity of long-term meteorological data, the Noah LSM-simulated fluxes and the NARR forcing data were used in the advection–aridity (AA) model to derive the complementary relationship (CR) for the sagebrush and cheatgrass ecosystems. When soil moisture was a limiting factor for ET, the CR was stable and asymmetric, with b values of 2.43 and 1.43 for sagebrush and cheatgrass, respectively. Higher b values contributed to decreased ET and increased ETp, and as a result ET from the sagebrush community was less compared to that of cheatgrass. Validation of the derived CR showed that correlations between daily ET from the Noah LSM and CR-based ET were 0.76 and 0.80 for sagebrush and cheatgrass, respectively, while the root-mean-square errors were 0.53 and 0.61 mm day−1.
Fatigue in cystic fibrosis
Authors: Jarad N A , Sequeiros I M , Patel P , Bristow K , Sund Z 
Published: November 2012

Fatigue is a debilitating symptom in patients with cystic fibrosis (CF). Although fatigue is commonly reported in these patients, an effective treatment for this symptom has not been found. The factors associated with fatigue in CF have not been investigated. We conducted a prospective, case–control study in adult patients with CF. All the patients were chronically infected with Pseudomonas aeruginosa and were enrolled in the study during disease stability. A gender and age-matched control group was also recruited. Subjective assessment included three questionnaires: the Chalder fatigue questionnaire, St Mary’s Hospital sleep questionnaire (SQ), and the scaled general health and Hillier questionnaire (GHQ). For patients with CF, spirometry, body mass index (BMI), haemoglobin level, C-reactive protein, and the burden of pulmonary exacerbations (PExs) were assessed. The control group completed all the three questionnaires, and their BMI was measured. A total of 78 participants were enrolled in the study (44 patients with CF and 34 control). Female patients with CF received antibiotics for more days than male patients with CF. The fatigue score did not differ between female and male participants in either the patients with CF or the control group; however, the fatigue score was greater for both the sexes in the patients with CF compared with the control group: p = 0.038 for female and p = 0.048 for male. The scores for the SQ and the GHQ did not differ between the two study groups. The fatigue score correlated with the total score for SQ ( p < 0.0001) in patients with CF, but not in control participants. In patients with CF and the individuals in the control group, a close correlation was found between the fatigue score and the GHQ domain-specific scores and with the total score; p < 0.0001 for patients with CF and p = 0.001 for control. No correlations were found between the fatigue score and any of the objective parameters studied.
Identifying the Target Lesions for 245 Laser Angioplasty Cases and a Review of the Literature
Authors: Kim Jung H. , Ahanchi Sadaf S. , Panneton Jean M. 
Published: November 2012

Objective: To provide a detailed report of our experience with laser atherectomy in a large patient population with an extensive follow-up period. Method: A retrospective chart review was conducted on 222 patients who underwent laser atherectomy. Results: Overall primary patency rates at 1 and 3 years were 48% and 37%, primary-assisted rates were 53% and 40%, and secondary patency rates were 69% and 51%, respectively. Limb salvage rates were 91% and 83%. The 1- and 3-year primary patency rates were significantly different between the native (51% and 39%) and the in-stent group (20% and 20%; P = .027). There were no differences in primary-assisted patency ( P = .11), secondary patency ( P = .094), and limb salvage rates ( P= .83) between the 2 groups. Conclusions: Although the primary patency of laser angioplasty was higher in native vessels versus the in-stent stenosis, there were no differences in the primary-assisted patency, secondary patency, or limb salvage rates between the 2 groups.
The heteropolymolybdate family: structural relations, nomenclature scheme and new species
Authors: Kampf A. R. , Mills S. J. , Rumsey M. S. , Dini M. , Birch W. D. , Spratt J. , Pluth J. J. , Steele I. M. , Jenkins R. A. , Pinch W. W. 
Published: November 2012

AbstractType specimens of the molybdoarsenates betpakdalite, natrobetpakdalite and obradovicite and the molybdophosphates mendozavilite, paramendozavilite and melkovite, and similar material from other sources, have been examined in an effort to elucidate the relations among these phases, which we designate as the heteropolymolybdate family of minerals. Using electron microprobe analysis, X-ray powder diffraction and single-crystal X-ray diffraction with crystal structure determination where possible, it was found that natrobetpakdalite, mendozavilite and melkovite are isostructural with betpakdalite and that obradovicite has a closely related structure.The betpakdalite and obradovicite structure types are based on frameworks containing four-member clusters of edge-sharing MoO6 octahedra that link by sharing corners with other clusters, with Fe3+O6 octahedra and with PO4 or AsO4 tetrahedra (T). The structures differ in the linkages through the Fe3+O6 octahedra, which produce different but closely related framework configurations. The structures contain two types of non-framework cation sites, which are designated A and B. In general, there are two or more A sites partially occupied by disordered, generally larger cations that are coordinated to O atoms in the framework and to H2O molecules. The B site is occupied by a smaller cation that is octahedrally coordinated to H2O molecules. The general formula for minerals with either the betpakdalite or the obradovicite structure is: [A2(H2O)nB(H2O)6][Mo8T2Fe3+3O30+7(OH)7–x], where x is the total charge of the cations in the A and B sites (+3 to +7) and n is variable, ideally 17 for arsenates and 15 for phosphates. The ideal total number of A cations is defined as 2 in the general formula, but varies from 1 to 3.8 in analysed samples. Dominant cations at the A site include K, Na and Ca and at the B site Na, Ca, Mg, Cu and Fe. The combinations that have been identified in this study define six new heteropolymolybdate species.A suffix-based nomenclature scheme is established for minerals of the betpakdalite, mendozavilite and obradovicite groups, with the following root names based on the structure types and the T-site cations: betpakdalite (T = As), mendozavilite (T = P) and obradovicite (T = As). Two suffixes of the form -AB, corresponding to the dominant cations in the two different types of non-framework cation sites complete the species name. The historical name melkovite is retained rather than introducing mendozavilite-CaCa.Our investigation of the paramendozavilite type specimen revealed no paramendozavilite, but an apparently closely related new mineral; however, another sample of paramendozavilite analysed had K > Na.
Physical mapping resources for large plant genomes: radiation hybrids for wheat D-genome progenitor Aegilops tauschii
Authors: Kumar Ajay , Simons Kristin , Iqbal Muhammad J , de Jiménez Monika Michalak , Bassi Filippo M , Ghavami Farhad , Al-Azzam Omar , Drader Thomas , Wang Yi , Luo Ming-Cheng , Gu Yong Q , Denton Anne , Lazo Gerard R , Xu Steven S , Dvorak Jan , Kianian Penny MA , Kianian Shahryar F 
Published: November 2012

Abstract

Background
Development of a high quality reference sequence is a daunting task in crops like wheat with large (~17Gb), highly repetitive (>80%) and polyploid genome. To achieve complete sequence assembly of such genomes, development of a high quality physical map is a necessary first step. However, due to the lack of recombination in certain regions of the chromosomes, genetic mapping, which uses recombination frequency to map marker loci, alone is not sufficient to develop high quality marker scaffolds for a sequence ready physical map. Radiation hybrid (RH) mapping, which uses radiation induced chromosomal breaks, has proven to be a successful approach for developing marker scaffolds for sequence assembly in animal systems. Here, the development and characterization of a RH panel for the mapping of D-genome of wheat progenitor Aegilops tauschii is reported.

Results
Radiation dosages of 350 and 450 Gy were optimized for seed irradiation of a synthetic hexaploid (AABBDD) wheat with the D-genome of Ae. tauschii accession AL8/78. The surviving plants after irradiation were crossed to durum wheat (AABB), to produce pentaploid RH1s (AABBD), which allows the simultaneous mapping of the whole D-genome. A panel of 1,510 RH1 plants was obtained, of which 592 plants were generated from the mature RH1 seeds, and 918 plants were rescued through embryo culture due to poor germination (<3%) of mature RH1 seeds. This panel showed a homogenous marker loss (2.1%) after screening with SSR markers uniformly covering all the D-genome chromosomes. Different marker systems mostly detected different lines with deletions. Using markers covering known distances, the mapping resolution of this RH panel was estimated to be <140kb. Analysis of only 16 RH lines carrying deletions on chromosome 2D resulted in a physical map with cM/cR ratio of 1:5.2 and 15 distinct bins. Additionally, with this small set of lines, almost all the tested ESTs could be mapped. A set of 399 most informative RH lines with an average deletion frequency of ~10% were identified for developing high density marker scaffolds of the D-genome.

Conclusions
The RH panel reported here is the first developed for any wild ancestor of a major cultivated plant species. The results provided insight into various aspects of RH mapping in plants, including the genetically effective cell number for wheat (for the first time) and the potential implementation of this technique in other plant species. This RH panel will be an invaluable resource for mapping gene based markers, developing a complete marker scaffold for the whole genome sequence assembly, fine mapping of markers and functional characterization of genes and gene networks present on the D-genome.
Visualization of odor-induced neuronal activity by immediate early gene expression
Authors: Bepari Asim K , Watanabe Keisuke , Yamaguchi Masahiro , Tamamaki Nobuaki , Takebayashi Hirohide 
Published: November 2012

AbstractBackgroundSensitive detection of sensory-evoked neuronal activation is a key to mechanistic understanding of brain functions. Since immediate early genes (IEGs) are readily induced in the brain by environmental changes, tracing IEG expression provides a convenient tool to identify brain activity. In this study we used in situ hybridization to detect odor-evoked induction of ten IEGs in the mouse olfactory system. We then analyzed IEG induction in the cyclic nucleotide-gated channel subunit A2 (Cnga2)-null mice to visualize residual neuronal activity following odorant exposure since CNGA2 is a key component of the olfactory signal transduction pathway in the main olfactory system.ResultsWe observed rapid induction of as many as ten IEGs in the mouse olfactory bulb (OB) after olfactory stimulation by a non-biological odorant amyl acetate. A robust increase in expression of several IEGs likec-fosandEgr1was evident in the glomerular layer, the mitral/tufted cell layer and the granule cell layer. Additionally, the neuronal IEGNpas4showed steep induction from a very low basal expression level predominantly in the granule cell layer. InCnga2-null mice, which are usually anosmic and sexually unresponsive, glomerular activation was insignificant in response to either ambient odorants or female stimuli. However, a subtle induction ofc-fostook place in the OB of a fewCnga2-mutants which exhibited sexual arousal. Interestingly, very strong glomerular activation was observed in the OB ofCnga2-null male mice after stimulation with either the neutral odor amyl acetate or the predator odor 2, 3, 5-trimethyl-3-thiazoline (TMT).ConclusionsThis study shows for the first time that in vivo olfactory stimulation can robustly induce the neuronal IEGNpas4in the mouse OB and confirms the odor-evoked induction of a number of IEGs. As shown in previous studies, our results indicate that a CNGA2-independent signaling pathway(s) may activate the olfactory circuit inCnga2-null mice and that neuronal activation which correlates to behavioral difference in individual mice is detectable by in situ hybridization of IEGs. Thus, the in situ hybridization probe set we established for IEG tracing can be very useful to visualize neuronal activity at the cellular level.
Burden of influenza, healthcare seeking behaviour and hygiene measures during the A(H1N1)2009 pandemic in France: a population based study
Authors: Van Cauteren Dieter , Vaux Sophie , de Valk Henriette , Le Strat Yann , Vaillant Véronique , Lévy-Bruhl Daniel 
Published: November 2012

Abstract

Background
Influenza surveillance systems do not allow the identification of the true burden of illness caused by influenza in the community because they are restricted to consulting cases. A study was conducted to estimate the incidence and the burden of self-defined influenza, and to describe healthcare seeking behavior for self-defined influenza during the A(H1N1)2009 pandemic in the French population.

Methods
We conducted a random-based retrospective cross-sectional telephone survey between May 2009 and April 2010 among a random sample of the French population.

Results
For the 10 076 people included, 107 episodes of self-defined influenza were reported. The annual incidence of self-defined influenza was estimated at 13 942 cases per 100 000 inhabitants (CI95% 10 947 – 16 961), 62.1% (CI95% 50.5 – 72.5) of cases consulted a physician and 11.3% (CI95% 5.5 - 21.7) used a face mask. Following recommendations, 37.5% (CI95% 35.5 – 39.5) of people in the survey reported washing their hands more often during the pandemic season, and there was a positive association with being vaccinated against A(H1N1)2009 influenza, being a women, being a child (< 15 years) or living in a big city (≥ 100 000 inhabitants).

Conclusions
Self-defined influenza causes a significant burden of illness in the French population and is a frequent cause for consultation. These results allow a more accurate interpretation of influenza surveillance data and an opportunity to adapt future health education messages.
Establishment of automated culture system for murine induced pluripotent stem cells
Authors: Koike Hiroyuki , Kubota Koji , Sekine Keisuke , Takebe Takanori , Ouchi Rie , Zheng Yun-Wen , Ueno Yasuharu , Tanigawa Naoki , Taniguchi Hideki 
Published: November 2012

Abstract

Background
Induced pluripotent stem (iPS) cells can differentiate into any cell type, which makes them an attractive resource in fields such as regenerative medicine, drug screening, or in vitro toxicology. The most important prerequisite for these industrial applications is stable supply and uniform quality of iPS cells. Variation in quality largely results from differences in handling skills between operators in laboratories. To minimize these differences, establishment of an automated iPS cell culture system is necessary.

Results
We developed a standardized mouse iPS cell maintenance culture, using an automated cell culture system housed in a CO2 incubator commonly used in many laboratories. The iPS cells propagated in a chamber uniquely designed for automated culture and showed specific colony morphology, as for manual culture. A cell detachment device in the system passaged iPS cells automatically by dispersing colonies to single cells. In addition, iPS cells were passaged without any change in colony morphology or expression of undifferentiated stem cell markers during the 4 weeks of automated culture.

Conclusions
Our results show that use of this compact, automated cell culture system facilitates stable iPS cell culture without obvious effects on iPS cell pluripotency or colony-forming ability. The feasibility of iPS cell culture automation may greatly facilitate the use of this versatile cell source for a variety of biomedical applications.
What should we be selecting for? A systematic approach for determining which personal characteristics to assess for during admissions
Authors: Conlon Peter , Hecker Kent , Sabatini Susan 
Published: November 2012

Abstract

Background
Admission committees are responsible for creating fair, defensible, reliable, and valid processes that assess those attributes considered important for professional success. There is evidence for the continuing use of academic ability as a selection criterion for health professional schools; however, there is little evidence for the reliability and validity of measures currently in place to assess personal characteristics. The Ontario Veterinary College (OVC) initiated a review of its admissions criteria in order to implement an evidence-based method to determine which characteristics veterinary stakeholders consider important to assess for admission.

Methods
Eleven characteristics were identified by the OVC Admissions Committee and a survey was sent to all licensed veterinarians in Ontario (n=4,068), OVC students (n=450), and OVC faculty, interns and residents (n=192). A paired comparison method was used to identify the relative rank order of the characteristics, and multivariate analysis of variance with post hoc analyses was used to determine between group differences in the returned survey data.

Results
Surveys were returned from 1,312 participants (27.86% response rate; female 59.70%). The relative rank of the characteristics was reasonably consistent among participant groups, with ethical behaviour, sound judgment, communication, and critical and creative thinking being ranked as the top four. However, the importance of certain characteristics like communication and empathy were perceived differently by groups. For instance, females scored communication (F(1, 1289) = 20.24, p < .001, d = .26) and empathy (F(1, 1289) = 55.41, p < .001, d = 0.42) significantly higher than males, while males scored knowledge of profession (F(1, 1289) = 12.81, p < .001, d = 0.20), leadership (F(1, 1289) = 10.28, p = .001, d = 0.18), and sound judgment (F(1, 1289) = 13.56, p < .001, d = 0.21) significantly higher than females.

Conclusions
The data from the paired comparison method provide convergent evidence for the characteristics participant groups identify as most important in determining who should be admitted to a veterinary program. The between group analyses provides important information regarding characteristics most important to various subgroups; this has implications for what characteristics are selected for at admission as well as on who is selecting for them.
Increased blood glycohemoglobin A1c levels lead to overestimation of arterial oxygen saturation by pulse oximetry in patients with type 2 diabetes
Authors: Pu Li Jin , Shen Ying , Lu Lin , Zhang Rui Yan , Zhang Qi , Shen Wei Feng 
Published: November 2012

AbstractBackgroundNon-enzymatic glycation increases hemoglobin-oxygen affinity and reduces oxygen delivery to tissues by altering the structure and function of hemoglobin.ObjectivesWe investigated whether an elevated blood concentration of glycosylated hemoglobin (HbA1c) could induce falsely high pulse oximeter oxygen saturation (SpO2) in type 2 diabetic patients during mechanical ventilation or oxygen therapy.MethodsArterial oxygen saturation (SaO2) and partial pressure of oxygen (PO2) were determined with simultaneous monitoring of SpO2in 261 type 2 diabetic patients during ventilation or oxygen inhalation.ResultsBlood concentration of HbA1c was >7% in 114 patients and ≤ 7% in 147 patients. Both SaO2(96.2 ± 2.9%, 95% confidence interval [CI] 95.7-96.7% vs. 95.1 ± 2.8%, 95% CI 94.7-95.6%) and SpO2(98.0 ± 2.6%, 95% CI 97.6-98.5% vs. 95.3 ± 2.8%, 95% CI 94.9-95.8%) were significantly higher in patients with HbA1c >7% than in those with HbA1c ≤ 7% (Data are mean ± SD, all p < 0.01), but PO2did not significantly differ between the two groups. Bland-Altman analysis demonstrated a significant bias between SpO2and SaO2(1.83 ±0.55%, 95% CI 1.73% -1.94%) and limits of agreement (0.76% and 2.92%) in patients with HbA1c >7%. The differences between SpO2and SaO2correlated closely with blood HbA1c levels (Pearson’s r = 0.307, p < 0.01).ConclusionsElevated blood HbA1c levels lead to an overestimation of SaO2by SpO2, suggesting that arterial blood gas analysis may be needed for type 2 diabetic patients with poor glycemic control during the treatment of hypoxemia.