bluuebunny/crossref_metadata_2025_split huggingface dataset:
Y stenting using kissing stents for the treatment of bifurcation aneurysms
Authors: Jankowitz Brian T , Thomas Ajith , Jovin Tudor , Horowitz Michael 
Published: April 2011

Background and purposeCoiling of wide neck, bifurcation aneurysms often requires creative techniques to ensure optimal and safe embolization. The Y stenting technique utilizing kissing stents provides an alternative endovascular treatment of this complex pathology.Materials and methodsA triple wire technique was used to place side by side stents within the parent artery and extending into the bilateral bifurcation vessels. The third wire enabled placement of a microcatheter within the aneurysm, which remained trapped by the opposing stents.Results9 patients obtained acceptable angiographic partial or total occlusion of their aneurysm. Follow-up was variable, ranging from none to 26 months. There were two early deaths at postprocedures day 1 and 10, with one mortality being a direct result of the intervention. One patient experienced delayed in-stent thrombosis resulting in a periprocedural morbidity and mortality of 11% and 22%, respectively. One patient required retreatment.ConclusionY stenting utilizing the triple catheter technique is an alternative endovascular treatment for wide neck, bifurcation aneurysms. Caution should be used, especially in the setting of subarachnoid hemorrhage, as the complication rate and overall risk increase significantly with this technique's complexity.
Comparing sediment bacterial communities in the macrophyte-dominated and algae-dominated areas of eutrophic Lake Taihu, China
Authors: Shao Keqiang , Gao Guang , Qin Boqiang , Tang Xiangming , Wang Yongping , Chi Kexu , Dai Jiangyu 
Published: April 2011

Bacterial community structure and the effects of several environmental factors on bacterial community distribution were investigated in the sediment of the macrophyte-dominated and algae-dominated areas in a large, shallow, eutrophic freshwater lake (Lake Taihu, China). Surface sediment samples were collected at 6 sampling sites (3 sites from each of the 2 areas) on 15 February and 15 August 2009. Based on cluster analysis of the DGGE banding patterns, there were significant seasonal variations in the structure of the sediment bacterial community in the macrophyte- and algae-dominated areas, and site-specific variation within an area and between 2 areas. However, there were no significant between-area variations due to the large within-area variation. Analysis of DNA sequences showed that there were differences in the species composition of the sediment bacteria between the macrophyte- and algae-dominated area clone libraries. In the macrophyte-dominated area library, the bacterial community was dominated by Deltaproteobacteria, Verrucomicrobia, Acidobacteria, Bacteroidetes, Gammaproteobacteria, and Betaproteobacteria. OP10 was found in the library of this area but not in the algae-dominated area library. The algae-dominated area library was dominated by Betaproteobacteria, Deltaproteobacteria, Gammaproteobacteria, and Acidobacteria. Cyanobacteria, Alphaproteobacteria, and Planctomycetes were found in this area library but not in the macrophyte-dominated area library. Canonical correspondence analysis demonstrated that total phosphorus and water temperature were the dominant environmental factors affecting bacterial community composition in the sediment.
ACC deaminase activity in avirulentAgrobacterium tumefaciensD3
Authors: Hao Youai , Charles Trevor C. , Glick Bernard R. 
Published: April 2011

Some plant-growth-promoting bacteria encode the enzyme 1-aminocyclopropane-1-carboxylic acid (ACC) deaminase, which breaks down ACC, the direct precursor of ethylene biosynthesis in all higher plants, into ammonia and α-ketobutyrate and, as a result, reduces stress ethylene levels in plants caused by a wide range of biotic and abiotic stresses. It was previously shown that ACC deaminase can inhibit crown gall development induced by Agrobacterium tumefaciens and can partially protect plants from this disease. Agrobacterium tumefaciens D3 has been previously reported to contain a putative ACC deaminase structural gene (acdS) and a regulatory gene (acdR = lrpL). In the present study, it was found that A. tumefaciens D3 is an avirulent strain. ACC deaminase activity and its regulation were also characterized. Under gnotobiotic conditions, wild-type A. tumefaciens D3 was shown to be able to promote plant root elongation, while the acdS and lrpL double mutant strain A. tumefaciens D3-1 lost that ability. When co-inoculated with the virulent strain, A. tumefaciens C58, in wounded castor bean plants, both the wild-type A. tumefaciens D3 and the mutant A. tumefaciens D3-1 were found to be able to significantly inhibit crown gall development induced by A. tumefaciens C58.
Use of protein microarray to identify gene expression changes ofYersinia pestisat different temperatures
Authors: Li Bei , Tan Yafang , Guo Jingyu , Cui Baizhong , Wang Zuyun , Wang Hu , Zhou Lei , Guo Zhaobiao , Zhu Ziwen , Du Zongmin , Yang Ruifu 
Published: April 2011

Yersinia pestis is a bacterium that is transmitted between fleas, which have a body temperature of 26 °C, and mammalian hosts, which have a body temperature of 37 °C. To adapt to the temperature shift, phenotype variations, including virulence, occur. In this study, an antigen microarray including 218 proteins of Y. pestis was used to evaluate antibody responses in a pooled plague serum that was unadsorbed, adsorbed by Y. pestis cultivated at 26 °C, or adsorbed by Y. pestis cultivated at 26 and 37 °C to identify protein expression changes during the temperature shift. We identified 12 proteins as being expressed at 37 °C but not at 26 °C, or expressed at significantly higher levels at 37 °C than at 26 °C. The antibodies against 7 proteins in the serum adsorbed by Y. pestis cultivated at 26 and 37 °C remained positive, suggesting that they were not expressed on the surface of Y. pestis in LB broth in vitro or specifically expressed in vivo. This study proved that protein microarray and antibody profiling comprise a promising technique for monitoring gene expression at the protein level and for better understanding pathogenicity, to find new vaccine targets against plague.
Phylogeny of bradyrhizobia from Chinese cowpea miscellany inferred from 16S rRNA,atpD,glnII, and 16S–23S intergenic spacer sequences
Authors: Zhang Sufang , Xie Fuli , Yang Jiangke , Li Youguo 
Published: April 2011

The cowpea ( Vigna unguiculata L.), peanut ( Arachis hypogaea L.), and mung bean ( Vigna radiata L.) belong to a group of plants known as the “cowpea miscellany” plants, which are widely cultivated throughout the tropic and subtropical zones of Africa and Asia. However, the phylogeny of the rhizobial strains that nodulate these plants is poorly understood. Previous studies have isolated a diversity of rhizobial strains from cowpea miscellany hosts and have suggested that, phylogenetically, they are from different species. In this work, the phylogeny of 42 slow-growing rhizobial strains, isolated from root nodules of cowpea, peanut, and mung bean from different geographical regions of China, was investigated using sequences from the 16S rRNA, atpD and glnII genes, and the 16S–23S rRNA intergenic spacer. The indigenous rhizobial strains from the cowpea miscellany could all be placed in the genus Bradyrhizobium , and Bradyrhizobium liaoningense and Bradyrhizobium yuanmingense were the main species. Phylogenies derived from housekeeping genes were consistent with phylogenies generated from the ribosomal gene. Mung bean rhizobia clustered only into B. liaoningense and B. yuanmingense and were phylogenetically less diverse than cowpea and peanut rhizobia. Geographical origin was significantly reflected in the phylogeny of mung bean rhizobia. Most cowpea rhizobia were more closely related to the 3 major groups B. liaoningense, B. yuanmingense, and Bradyrhizobium elkanii than to the minor groups Bradyrhizobium japonicum or Bradyrhizobium canariense . However, most peanut rhizobia were more closely related to the 2 major groups B. liaoningense and B. yuanmingense than to the minor group B. elkanii.
Proteomic insight into phenolic adaptation of a moderately halophilicHalomonassp. strain AAD12
Authors: Ceylan Selim , Akbulut Berna Sarıyar , Denizci Aziz Akın , Kazan Dilek 
Published: April 2011

A gram-negative, moderately halophilic bacterium was isolated from Çamaltı Saltern area, located in the Aegean Region of Turkey. Analysis of its 16S rRNA gene sequence and physiological characteristics showed that this strain belonged to the genus Halomonas ; hence, it was designated as Halomonas sp. strain AAD12. The isolate tolerated up to 800 mg⋅L–1phenol; however, at elevated concentrations, phenol severely retarded cell growth. The increase in lag phase with increasing phenol concentrations indicated that the microorganism was undergoing serious adaptative changes. To understand the physiological responses of Halomonas sp. strain AAD12 to phenol, a 2-dimensional electrophoresis approach combined with mass spectrometric analysis was used. This approach showed that the expression of 14 protein spots were altered as phenol concentration increased from 200 to 800 mg⋅L–1. Among the identified proteins were those involved in protein biosynthesis, energy, transport, and stress metabolism. So far, this is the first study on phenolic adaptation of a gram-negative, moderately halophilic bacteria using proteomic tools. The results provided new insights for understanding the general mechanism used by moderately halophilic bacteria to tolerate phenol and suggested the potential for using these microorganisms in bioremediation.
Detection of a large linear plasmid inBorrelia spielmaniiisolate
Authors: Lenčáková Daniela Handžáková , Schulte-Spechtel Ulrike , Fingerle Volker , Pet’ko Branislav , Wilske Bettina 
Published: April 2011

Borrelia spielmanii belongs to human pathogenic species within the Borrelia burgdorferi sensu lato complex in Europe, which is a causative agent of Lyme disease. So far, the human disease caused by B. spielmanii has been associated with skin manifestations. The aim of the study was to analyze 4 human B. spielmanii isolates by pulsed-field gel electrophoresis and to localize genes of 3 important Borrelia proteins: OspA, DbpA, and VlsE. The analysis revealed variation within linear plasmid profiles among the strains; isolate PSigII contained a large plasmid of 100 kb compared with a 50 kb plasmid present in the 3 other B. spielmanii isolates, all carried the genes ospA and dbpA. Differences in the size of linear plasmids among the Borrelia strains may be a result of host–pathogen interactions, as the PSigII strain was the only strain of the 4 tested strains to be isolated from a patient with a previous history of Lyme disease, whereas 3 other patients were diagnosed with this disease for the first time.
Human cytomegalovirus glycoprotein B genotyping from bronchoalveolar lavage specimens
Authors: Bergallo Massimiliano , Costa Cristina , Gambarino Stefano , Tornicelli Alessandra , Astegiano Sara , Terlizzi Maria Elena , Solidoro Paolo , Cavallo Rossana 
Published: April 2011

The genes encoding glycoprotein complexes of human cytomegalovirus are often polymorphic; in particular, glycoprotein B (gB), which is essential for both in vivo and in vitro replication, is encoded by the highly polymorphic gene UL55. In this study, the distribution of gB genotypes was investigated in 44 bronchoalveolar lavage specimens from adult patients positive for human cytomegalovirus DNA by a multiplex nested fast PCR able to amplify 5 gB genotypes (gB1–gB5). The distribution of gB genotypes was as follows: 12 (27.3%) gB1, 11 (25%) gB2, 9 (20.4%) gB3, 4 (9.1%) gB4, 0 gB5, and 8 (18.2%) mixed genotypes. No difference in prevalence was found in relation to clinical features, including immunological status, non-transplant or transplant condition, and type of transplanted organ, or in follow-up specimens; while gB4 and gB3 were shown to be significantly more prevalent in patients with respiratory insufficiency, and gB4 and gB2 in those with pneumonia. The prevalence of gB genotypes in the lower respiratory tract was similar to that previously reported using other specimen types and patients, with gB1 found to be the most prevalent. The association of gB genotypes with specific clinical features should be further investigated.
Combinations of Polymorphisms in Genes Involved in the 5-Fluorouracil Metabolism Pathway Are Associated with Gastrointestinal Toxicity in Chemotherapy-Treated Colorectal Cancer Patients
Authors: Afzal Shoaib , Gusella Milena , Vainer Ben , Vogel Ulla B. , Andersen Jon T. , Broedbaek Kasper , Petersen Morten , Jimenez-Solem Espen , Bertolaso Laura , Barile Carmen , Padrini Roberto , Pasini Felice , Jensen Søren A. , Poulsen Henrik E. 
Published: April 2011

Abstract
Purpose: The purpose of this study was to investigate whether specific combinations of polymorphisms in genes encoding proteins involved in 5-fluorouracil (5-FU) pharmacokinetics and pharmacodynamics are associated with increased risk of treatment-induced toxicity.
Experimental Design: We analyzed two cohorts of 161 and 340 patients, the exploration and validation cohort, respectively. All patients were treated similarly with 5-FU–based adjuvant chemotherapy. We analyzed 13 functional polymorphisms and applied a four-fold analysis strategy using individual polymorphisms, haplotypes, and phenotypic enzyme activity or expression classifications based on combinations of functional polymorphisms in specific genes. Furthermore, multifactor dimensionality reduction analysis was used to identify a genetic interaction profile indicating an increased risk of toxicity.
Results: Alleles associated with low activity of methylene tetrahydrofolate reductase (MTHFR) were associated with decreased risk of toxicity [ORExploration 0.39 (95% CI: 0.21–0.71, P = 0.003), ORValidation 0.63 (95% CI: 0.41–0.95, P = 0.03)]. A specific combination of the MTHFR 1298A&gt;C and thymidylate synthase (TYMS) 3′-UTR (untranslated region) ins/del polymorphisms was significantly associated with increased toxicity in both cohorts [ORExploration 2.40 (95% CI: 1.33–4.29, P = 0.003), ORValidation 1.81 (95% CI: 1.18–2.79, P = 0.007)]. The specific combination was also associated with increased cumulative incidence and earlier occurrence of severe toxicity during treatment.
Conclusions: Our results indicate that MTHFR activity and a specific combination of the MTHFR 1298A&gt;C and TYMS 3′-UTR ins/del polymorphisms are possible predictors of 5-FU treatment–related toxicity. Clin Cancer Res; 17(11); 3822–9. ©2011 AACR.
Long-term anticoagulation treatment for acute venous thromboembolism in patients with and without cancer
Authors: Spirk David , Ugi Jörg , Korte Wolfgang , Husmann Marc , Hayoz Daniel , Baldi Thomas , Frauchiger Beat , Banyai Martin , Aujesky Drahomir , Baumgartner Iris , Kucher Nils 
Published: April 2011

SummaryIn patients with acute cancer-associated thrombosis, current consensus guidelines recommend anticoagulation therapy for an indefinite duration or until the cancer is resolved. Among 1,247 patients with acute venous thromboembolism (VTE) enrolled in the prospective Swiss Venous Thromboembolism Registry (SWIVTER) II from 18 hospitals, 315 (25%) had cancer of whom 179 (57%) had metastatic disease, 159 (50%) ongoing or recent chemotherapy, 83 (26%) prior cancer surgery, and 63 (20%) recurrent VTE. Long-term anticoagulation treatment for >12 months was more often planned in patients with versus without cancer (47% vs. 19%; p<0.001), with recurrent cancer-associated versus first cancer-associated VTE (70% vs. 41%; p<0.001), and with metastatic versus non-metastatic cancer (59% vs. 31%; p<0.001). In patients with cancer, recurrent VTE (OR 3.46; 95%CI 1.83–6.53), metastatic disease (OR 3.04; 95%CI 1.86–4.97), and the absence of an acute infection (OR 3.55; 95%CI 1.65–7.65) were independently associated with the intention to maintain anticoagulation for >12 months. In conclusion, long-term anticoagulation treatment for more than 12 months was planned in less than half of the cancer patients with acute VTE. The low rates of long-term anticoagulation in cancer patients with a first episode of VTE and in patients with non-metastatic cancer require particular attention.
Downstream Self-Destruction of Storm Tracks
Authors: Kaspi Yohai , Schneider Tapio 
Published: April 2011

Abstract
The Northern Hemisphere storm tracks have maximum intensity over the Pacific and Atlantic basins; their intensity is reduced over the continents downstream. Here, simulations with an idealized aquaplanet general circulation model are used to demonstrate that even without continents, storm tracks have a self-determined longitudinal length scale. Their length is controlled primarily by the planetary rotation rate and is similar to that of Earth’s storm tracks for Earth’s rotation rate. Downstream, storm tracks self-destruct: the downstream eddy kinetic energy is lower than it would be without the zonal asymmetries that cause localized storm tracks. Likely involved in the downstream self-destruction of storm tracks are the energy fluxes associated with them. The zonal asymmetries that cause localized storm tracks enhance the energy transport through the generation of stationary eddies, and this leads to a reduced baroclinicity that persists far downstream of the eddy kinetic energy maxima.
Characterizing the FY-3A Microwave Temperature Sounder Using the ECMWF Model
Authors: Lu Qifeng , Bell William , Bauer Peter , Bormann Niels , Peubey Carole 
Published: April 2011

Abstract
China’s Feng-Yun-3A (FY-3A), launched in May 2008, is the first in a series of seven polar-orbiting meteorological satellites planned for the next decade by China. The FY-3 series is set to become an important data source for numerical weather prediction (NWP), reanalysis, and climate science. FY-3A is equipped with a microwave temperature sounding instrument (MWTS). This study reports an assessment of the MWTS instrument using the ECMWF NWP model, radiative transfer modeling, and comparisons with equivalent observations from the Advanced Microwave Sounding Unit-A (AMSU-A). The study suggests the MWTS instrument is affected by biases related to large shifts, or errors, in the frequency of the channel passbands as well as radiometer nonlinearity. The passband shifts, relative to prelaunch measurements, are 55, 39, and 33 MHz for channels 2–4, respectively. Relative to the design specification the shifts are 60, 80, and 83 MHz, with uncertainties of ±2.5 MHz. The radiometer nonlinearity results in a positive bias in measured brightness temperatures and is manifested as a quadratic function of measured scene temperatures. By correcting for both of these effects the quality of the MWTS data is improved significantly, with the standard deviations of the (observed minus simulated) differences based on short-range forecast fields reduced by 30%–50% relative to simulations using prelaunch measurements of the passband, to values close to those observed for AMSU-A-equivalent channels. The new methodology could be applied to other microwave temperature sounding instruments and illustrates the value of NWP fields for the on-orbit characterization of satellite sensors.
A Land and Ocean Microwave Cloud Classification Algorithm Derived from AMSU-A and -B, Trained Using MSG-SEVIRI Infrared and Visible Observations
Authors: Aires Filipe , Marquisseau Francis , Prigent Catherine , Sèze Geneviève 
Published: April 2011

AbstractA statistical cloud classification and cloud mask algorithm is developed based on Advanced Microwave Sounding Unit (AMSU-A and -B) microwave (MW) observations. The visible and infrared data from the Meteosat Third Generation-Spinning Enhanced Visible and Infrared Imager (MSG-SEVIRI) are used to train the microwave classifier. The goal of the MW algorithms is not to fully reproduce this MSG-SEVIRI cloud classification, as the MW observations do not have enough information on clouds to reach this level of precision. The objective is instead to obtain a stand-alone MW cloud mask and classification algorithm that can be used efficiently in forthcoming retrieval schemes of surface or atmospheric parameters from microwave satellite observations. This is an important tool over both ocean and land since the assimilation of the MW observations in the operational centers is independent from the other satellite observations.Clear sky and low, medium, and opaque–high clouds can be retrieved over ocean and land at a confidence level of more than 80%. An information content analysis shows that AMSU-B provides significant information over both land and ocean, especially for the classification of medium and high clouds, whereas AMSU-A is more efficient over ocean when discriminating clear situations and low clouds.
Impact of Interactive Aerosol on the African Easterly Jet in the NASA GEOS-5 Global Forecasting System
Authors: Reale Oreste , Lau K. M. , da Silva Arlindo 
Published: April 2011

Abstract
The real-time treatment of interactive, realistically varying aerosols in a global operational forecasting system, as opposed to prescribed (fixed or climatologically varying) aerosols, is a very difficult challenge that has only recently begun to be addressed. Experiment results from a recent version of the NASA’s Goddard Earth Observing System (GEOS-5) forecasting system, inclusive of interactive-aerosol direct effects, are presented in this work. Five sets of 30 five-day forecasts are initialized from a high quality set of analyses previously produced and documented, to cover the period from 15 August to 16 September 2006, which corresponds to the NASA African Monsoon Multidisciplinary Analysis (NAMMA) observing campaign. Four forecast sets are at two different horizontal resolutions, with and without interactive-aerosol treatment. A fifth forecast set is performed with climatologically varying aerosols. The net impact of the interactive aerosol, associated with a strong Saharan dust outbreak, is a temperature increase at the dust level, and a decrease in the near-surface levels, in agreement with previous observational and modeling studies. Moreover, forecasts in which interactive aerosols are included depict an African easterly jet (AEJ) at slightly higher elevation, and slightly displaced northward, with respect to the forecasts in which aerosols are not included. The shift in the AEJ position goes in the direction of the observations and agrees with previous results.
Spatial Forecast Verification: Baddeley’s Delta Metric Applied to the ICP Test Cases
Authors: Gilleland Eric 
Published: April 2011

Abstract
A mathematical displacement metric, Baddeley’s Δ, is examined for verifying gridded forecasts against gridded observations using the Spatial Forecast Verification Methods Intercomparison Project test cases. Results are compared with several other new approaches. The metric performs similarly to other displacement methods, complementing neighborhood techniques.