bluuebunny/crossref_metadata_2025_split huggingface dataset:
Inhibitors of the Pseudomonas aeruginosa quorum‐sensing regulator, QscR
Authors: Liu Hai‐Bo , Lee Joon‐Hee , Kim Jung Sun , Park Sunghoon 
Published: January 2010

AbstractQscR is a quorum‐sensing (QS) signal receptor that controls expression of virulence genes in the prevalent opportunistic pathogen, Pseudomonas aeruginosa. Unlike the previously reported LuxR‐type QS receptor proteins, that is, LasR and TraR, QscR can be obtained as an apo‐protein that can reversibly form an active complex in vitro with its cognate signal molecule, 3‐oxododecanoyl‐homoserine lactone (3OC12‐HSL), and subsequently bind to target promoter DNA sequences. To search for potential QS inhibitors, an in vitro gel retardation assay was developed using the purified QscR. Both the in vitro assay and the in vivo cell‐based assay using QscR‐overproducing recombinant strains were applied in the screening process. Furanones were chosen for testing the activity as QS inhibitors because they have been reported to strongly inhibit expression of QS‐related genes in Agrobacterium tumefaciens. Among more than a hundred furanones tested, three compounds showed strong and dose‐dependent inhibitory effects on QscR in both assays. One compound in particular, designated as F2, could completely inhibit the 3OC12‐HSL‐dependent QscR activity in vitro at a concentration of 50‐fold molar excess over 3OC12‐HSL. However, with the furanones F3 and F4, which are structurally similar to F2 but with a nitro group instead of the amine moiety, significantly decreased activities were observed. These results suggest that (i) the in vitro assay is a sensitive and reliable tool for screening QS inhibitors, and (ii) furanones are potentially important QS inhibitors for many LuxR‐type receptor proteins. Biotechnol. Bioeng. 2010; 106: 119–126. © 2010 Wiley Periodicals, Inc.
Anaerobic mixed‐culture fermentation of aqueous ammonia‐treated sugarcane bagasse in consolidated bioprocessing
Authors: Fu Zhihong , Holtzapple Mark T. 
Published: January 2010

AbstractThe MixAlco process is an example of consolidated bioprocessing (CBP) in which anaerobic mixed‐culture fermentation biochemically converts any biodegradable feedstock into carboxylate salts. Downstream processing thermochemically transforms the resulting salts into mixed alcohol fuels or gasoline. To enhance digestibility, sugarcane bagasse was treated under mild conditions (55°C, 24 h, and 30% aqueous ammonia solution with a loading of 10 mL/g dry biomass). Using NH4HCO3 buffer, the feedstock (80% ammonia‐treated sugarcane bagasse/20% chicken manure) was anaerobically fermented by a mixed culture of marine microorganisms at 55°C. Four‐stage countercurrent fermentations were performed at various volatile solids loading rates (VSLRs) and liquid residence times (LRTs). The highest acid productivity (1.14 g/(L day)) occurred at a total acid concentration of 29.8 g/L. The highest conversion (65%) occurred at a total acid concentration of 27.6 g/L. The continuum particle distribution model (CPDM) predicted the experimental total acid concentrations and conversions within 4.98% and 10.41%, respectively. When using NH4HCO3 buffer, ammonia pretreatment is an attractive option. The CPDM “map” shows that both high volatile solid conversions (78.8%) and high acid concentrations (32.6 g/L) are possible with 300 g/(L liquid) substrate concentration, 30 days LRT, 2 g/(L day) solid loading rate and NH4HCO3 buffer. Biotechnol. Bioeng. 2010;106: 216–227. © 2010 Wiley Periodicals, Inc.
Employed VeriLite simulation to improve SOC design and verification
Authors: Sung Wen‐Tsai , Ou Shih‐Ching , Liu Yu‐Feng , Chen Chia‐Hao 
Published: January 2010

AbstractThis study employed the VeriLite PC‐based FPGA platform to improve co‐design and co‐verification simulation for System‐on‐chip (SOC) design process in FPGA transactional level modeling. This VeriLite platform is a real‐time simulations system. It provided SMIMS powerful Software—VeriComm, VeriInstrument and software developer's kit (SDK), offers an incredible performance and improvement in time‐to‐market. In this investigation, the main advantages of the system allow designers to use tools such as FPGA, Matlab, and Real‐View SOC designers to perform. Users can import the input signals easily from PC into the user‐designed circuit on the FPGA of VeriLite and export the output signals to PC for observation. A powerful method is proposed that speeds up the ESL design time with a precise result. VeriLite can be an intuitive and easy to use environment provides to access the functionality of HDL simulation acceleration, IP verification, and HW/SW co‐verification. In this study, the propose method allows users to quickly develop a hardware–software co‐design/co‐verification environment finally. © 2010 Wiley Periodicals, Inc. Comput Appl Eng Educ 20: 374–382, 2012
Polycyclic Polyprenylated Acylphloroglucinols and Chromone O‐Glucosides from Hypericum henryi subsp. uraloides
Authors: Chen Xuan‐Qin , Li Yan , Cheng Xiao , Wang Kou , He Juan , Pan Zheng‐Hong , Li Ming‐Ming , Peng Li‐Yan , Xu Gang , Zhao Qin‐Shi 
Published: January 2010

AbstractTwo new C(30)‐epimeric polycyclic polyprenylated acylphloroglucinols (PPAPs), named uralodins B and C (1 and 2, resp.), were isolated from the aerial parts of Hypericum henryi subsp. uraloides together with two new chromone glucosides, urachromones A and B (3 and 4, resp.), as well as 16 known compounds. Their structures were established by extensive NMR techniques and MS analysis. The epimers 1 and 2 always behaved like a single compound when examined by TLC, and were separated by HPLC. Their configuration was distinguished by comparative analysis of the NMR data with known analogues together with the ROESY experiment. All the isolated PPAPs were evaluated for their cytotoxic activities against HepG2, SGC7901, HL‐60, and K562 cell lines. Compound 1 showed modest cytotoxic activities against SGC7901 and HL‐60 cell lines, and 2 showed modest cytotoxic activities against HepG2, SGC7901, HL‐60, and K562 cell lines.
Crystallographic Studies of Chemically Modified Nucleic Acids: A Backward Glance
Authors: Egli Martin , Pallan Pradeep S. 
Published: January 2010

AbstractChemically modified nucleic acids (CNAs) are widely explored as antisense oligonucleotide or small interfering RNA (siRNA) candidates for therapeutic applications. CNAs are also of interest in diagnostics, high‐throughput genomics and target validation, nanotechnology and as model systems in investigations directed at a better understanding of the etiology of nucleic acid structure, as well as the physicochemical and pairing properties of DNA and RNA, and for probing protein–nucleic acid interactions. In this article, we review research conducted in our laboratory over the past two decades with a focus on crystal‐structure analyses of CNAs and artificial pairing systems. We highlight key insights into issues ranging from conformational distortions as a consequence of modification to the modulation of pairing strength, and RNA affinity by stereoelectronic effects and hydration. Although crystal structures have only been determined for a subset of the large number of modifications that were synthesized and analyzed in the oligonucleotide context to date, they have yielded guiding principles for the design of new analogs with tailor‐made properties, including pairing specificity, nuclease resistance, and cellular uptake. And, perhaps less obviously, crystallographic studies of CNAs and synthetic pairing systems have shed light on fundamental aspects of DNA and RNA structure and function that would not have been disclosed by investigations solely focused on the natural nucleic acids.
Nucleic Acids with a Six‐Membered ‘Carbohydrate’ Mimic in the Backbone
Authors: Herdewijn Piet 
Published: January 2010

AbstractStarting from pyranose nucleic acids, several series of modified nucleic acids with a six‐membered carbohydrate moiety (mimic) have been synthesized and analyzed over a period of 20 years, and this work is summarized here. The process starts with structural and conformational considerations, followed by synthetic efforts and a structural analysis, and ends up with a biological confirmation of the concept, demonstrating that these modified nucleic acids represent very valuable tools in chemistry and biology.
Biological Factors Influencing Production of Xanthones in Aphloia theiformis
Authors: Danthu Pascal , Lubrano Christian , Flavet Laurence , Rahajanirina Voninavoko , Behra Olivier , Fromageot Claude , Rabevohitra Raymond , Roger Edmond 
Published: January 2010

AbstractXanthones, and more specifically mangiferin, are molecules used in cosmetics for their photoprotective and anti‐aging properties. The richness in xanthones of Aphloia theiformis leaves, a common shrub in Madagascar, can reach almost 12% (in relation to dry biomass). Amongst the A. theiformis studied, two major groups of individuals have been determined: those presenting a high proportion of mangiferin (up to 80% of the xanthones) and those presenting a high proportion of polar xanthones (not yet identified). Our study shows that: i) for each subject, the xanthone content remains stable over time (no seasonal variation); ii) the majority of the trees developing in the light belong to the first group (rich in mangiferin), whereas the individuals growing in the undergrowth are richer in polar xanthones; iii) the distribution of the two groups seems not to have any correlation with taxonomy and, moreover, with the known varieties of A. theiformis, although the micrantha variety is richer in mangiferin. Overall, this information indicates that A. theiformis is a reservoir of xanthones and makes it possible to define a framework for its reasoned management.
Upstream Petroleum Degradation of Mangroves and Intertidal Shores: The Niger Delta Experience
Authors: Osuji Leo C. , Erondu Ebere S. , Ogali Regina E. 
Published: January 2010

AbstractThis article was inspired by a field reconnaissance survey of outcrops along the Nembe‐Brass axis of the petroliferous Niger Delta. It reviews various tradeoffs of the impact of upstream petroleum (seismic and production) operations on the mangrove ecosystems in that region, the largest in Sub‐Saharan Africa. Mangroves and intertidal shores are considered critical to the economic well‐being of this region owing to the people's dual occupation in fishing and farming. The mangrove ecosystem provides a nutrient medium, which serves as a nursery and spawning ground for many fish species and other biota. Oil and gas activities might destroy these spawn areas, causing reduction in resource output and community pressure. Devegetation of the mangrove forest as a result of seismic delineation leaves the fragile soil exposed, unprotected, and susceptible to erosion. Again, loss of vegetation might discourage the natural role of plants in air purification (CO2 utilization and O2 production). The release of nutrients (organic N2, NH3, and NO$\rm{{_{3}^{-}}}$) and polyaromatic hydrocarbons (PAHs) to the environment, with the attendant increase in microbial load, increases biochemical O2 demand (BOD) and depletes dissolved O2 (DO) in H2O to a level that is beyond the tolerance limit of organisms. This anoxic situation leads to asphyxiation and subsequent fish kill in affected areas. In order of increasing vulnerability, the mangroves and intertidal shores of the Niger Delta fall under categories 8 to 10 on the environmental sensitivity index (ESI) scale, which predisposes the areas to serious long‐term effects and clean‐up complexity. Thus, there is need to monitor mangrove systems and shoreline changes in the areas of considerable seismic and production activities, especially in the coastal Niger Delta, where pipeline corrosion due to salt intrusion into the swampy environment and ‘unsighted fingers’ of sabotage have increased the prevalence of oil spills.
Treatment of severe valvular aortic stenosis and subvalvular discrete subaortic stenosis and septal hypertrophy with Percutaneous CoreValve Aortic Valve Implantation
Authors: Finkelstein Ariel , Keren Gad , Banai Shmuel 
Published: January 2010

AbstractBackground: Percutaneous Aortic Valve Implantation (PAVI) is a procedure gaining popularity and becoming more widely used for the treatment of patients with severe aortic stenosis who are at high risk for surgery. Here we show, for the first time, that a successful and complete elimination of both valvular and subvalvular pressure gradients can be achieved with a slight modification of the valve implantation technique. Methods and Results: A 91‐year‐old woman presented with shortness of breath at rest, effort angina, and pulmonary congestion. Echocardiography revealed calcified aortic stenosis with a peak gradient of 75 mm Hg accros the valve, and discrete subaortic stenosis (DSS) and marked hypertrophy of the basal septum with systolic anterior motion of the mitral valve (SAM). The intra ventricular gradient had a dynamic pattern across the DSS and the septal hypertrophy and measured 75 mm Hg. The total gradient across the left ventricular outflow (valvular and subvalvular) was 125 mmHg. PAVI with a 23 mm CoreValve was performed with an intentional lower positioning of the valve towards the LV outflow tract; so that the valve struts cover the subaortic membrane and part of the thickened basal septum. At the end of the procedure, the SAM disappeared, and the left ventricular ouflow was widely open. At 1 month follow up the patient was asymptomatic, no pressure gradient was measured between the LV apex and the aorta. Conclusions: This is the first report of successful treatment of severe valvular aortic stenosis and combined subvalvular aortic stenosis due to DSS and septal hypertrophy with SAM with percutaneous aortic valve implantation. © 2010 Wiley‐Liss, Inc.
Carotid stenting and bivalirudin with and without vascular closure: 3‐year analysis of procedural outcomes
Authors: Schneider Laurence M. , Polena Sotir , Roubin Gary , Iyer Sriram , Vitek Jiri , Panagopoulos Georgia , Mussap Christian J. , Vitellas Michael , Mahdavi Ramyar , Brennan Christina 
Published: January 2010

AbstractObjectives: The purpose of this study was to examine the outcome of carotid stenting using bivalirudin and the influence of vascular closure devices (VCD) on the incidence and severity of peri‐procedural hypotension. Background: Bivalirudin, a short‐acting direct thrombin inhibitor, has been shown to be an effective anticoagulant in coronary interventions, with less risk of bleeding compared with heparin. Routine use of VCD has become the standard of care, facilitating patient ambulation after percutaneous carotid and coronary interventions. The combined use of these two therapies (bivalirudin and VCD) may improve outcomes in carotid interventions where prolonged patient immobilization may exacerbate hypotension following stenting. Methods: A total of 514 patients underwent 536 carotid stenting procedures in the 3‐year period from September 2004 to September 2007. All patients received adjunctive bivalirudin, with and without VCD. This cohort was analyzed for peri‐procedural and 30‐day clinical outcomes and length of hospitalization. Results: Thirty‐day stroke and death rate was 1.7%. A total of 83 patients (15.4%) experienced intra‐ or post‐procedural hypotension (systolic BP < 80 mm Hg). There were four (0.7%) major bleeding complications requiring transfusion, and length of stay was delayed more than 24 hr in five patients (0.93%), all of whom were in the manual compression group. Conclusions: This was a negative study, with no significant difference on prolonged hypotensive events in patients with vascular closure device and bivalirudin, compared with those with manual compression and bivalirudin. Vascular closure devices were safe and effective with a low incidence of complications. In carotid artery stenting, bivalirudin is safe with low incidence of major bleeding and acceptable 30‐day adverse event rates (stroke and death). © 2010 Wiley‐Liss, Inc.
Age‐related changes in cell dynamics of the postnatal mouse olfactory neuroepithelium: Cell proliferation, neuronal differentiation, and cell death
Authors: Kondo Kenji , Suzukawa Keigo , Sakamoto Takashi , Watanabe Kenta , Kanaya Kaori , Ushio Munetaka , Yamaguchi Takuhiro , Nibu Ken‐Ichi , Kaga Kimitaka , Yamasoba Tatsuya 
Published: January 2010

AbstractAge‐related changes in cell proliferation, neuronal differentiation, and cell death in mouse olfactory neuroepithelium were investigated. Mice at the age of 10 days through 16 months were given a single injection of bromodeoxyuridine (BrdU). The olfactory mucosae were fixed at 9 timepoints ranging from 2 hours to 3 months after the injection and examined using double immunostaining for BrdU and olfactory marker protein (OMP), and double staining with terminal deoxynucleotidyl transferase‐mediated biotinylated dUTP nick end labeling (TUNEL) and immunostaining for OMP. The number of BrdU‐labeled cells/mm epithelial length initially increased, peaked at 2–3 days after the BrdU injection, then declined at each age. The number of BrdU‐ and TUNEL‐labeled neuronal cells both decreased with increasing age, suggesting that the rates of both cell proliferation and cell death in the olfactory neuroepithelium decrease with increasing age. Double‐labeled cells for BrdU and OMP appeared at 7 days after injection in all age groups, suggesting that the time required for neuronal differentiation is broadly similar irrespective of age. In older age groups, smaller amounts of the newly produced cohort are integrated into the OMP‐positive ORN population, and even once it is integrated it is eliminated from the population more rapidly compared to the younger age groups. Furthermore, TUNEL assay showed that the fraction of apoptotic cells distributed in the OMP‐positive layer/total apoptotic cells decreased with age. This observation suggests that the turnover of mature ORNs is slower in the older neuroepithelium compared to the younger neuroepithelium. J. Comp. Neurol. 518:1962–1975, 2010. © 2010 Wiley‐Liss, Inc.
Identification of novel spinal cholinergic genetic subtypes disclose Chodl and Pitx2 as markers for fast motor neurons and partition cells
Authors: Enjin Anders , Rabe Nadine , Nakanishi Stan T. , Vallstedt Anna , Gezelius Henrik , Memic Fatima , Lind Magnus , Hjalt Tord , Tourtellotte Warren G. , Bruder Carl , Eichele Gregor , Whelan Patrick J. , Kullander Klas 
Published: January 2010

AbstractSpinal cholinergic neurons are critical for motor function in both the autonomic and somatic nervous systems and are affected in spinal cord injury and in diseases such as amyotrophic lateral sclerosis (ALS) and spinal muscular atrophy. Using two screening approaches and in situ hybridization, we identified 159 genes expressed in typical cholinergic patterns in the spinal cord. These include two general cholinergic neuron markers, one gene exclusively expressed in motor neurons, and nine genes expressed in unknown subtypes of somatic motor neurons. Further, we present evidence that chondrolectin (Chodl) is expressed by fast motor neurons and that estrogen‐related receptor β (ERRβ) is a candidate marker for slow motor neurons. In addition, we suggest paired‐like homeodomain transcription factor 2 (Pitx2) as a marker for cholinergic partition cells. J. Comp. Neurol. 518:2284–2304, 2010. © 2010 Wiley‐Liss, Inc.
Bilateral effects of unilateral cochlear implantation in congenitally deaf cats
Authors: O'Neil Jahn N. , Limb Charles J. , Baker Christa A. , Ryugo David K. 
Published: January 2010

AbstractCongenital deafness results in synaptic abnormalities in auditory nerve endings. These abnormalities are most prominent in terminals called endbulbs of Held, which are large, axosomatic synaptic endings whose size and evolutionary conservation emphasize their importance. Transmission jitter, delay, or failures, which would corrupt the processing of timing information, are possible consequences of the perturbations at this synaptic junction. We sought to determine whether electrical stimulation of the congenitally deaf auditory system via cochlear implants would restore the endbulb synapses to their normal morphology. Three and 6‐month‐old congenitally deaf cats received unilateral cochlear implants and were stimulated for a period of 10–19 weeks by using human speech processors. Implanted cats exhibited acoustic startle responses and were trained to approach their food dish in response to a specific acoustic stimulus. Endbulb synapses were examined by using serial section electron microscopy from cohorts of cats with normal hearing, congenital deafness, or congenital deafness with a cochlear implant. Synapse restoration was evident in endbulb synapses on the stimulated side of cats implanted at 3 months of age but not at 6 months. In the young implanted cats, postsynaptic densities exhibited normal size, shape, and distribution, and synaptic vesicles had density values typical of hearing cats. Synapses of the contralateral auditory nerve in early implanted cats also exhibited synapses with more normal structural features. These results demonstrate that electrical stimulation with a cochlear implant can help preserve central auditory synapses through direct and indirect pathways in an age‐dependent fashion. J. Comp. Neurol. 518:2382–2404, 2010. © 2010 Wiley‐Liss, Inc.
An adaptive joining mechanism for improving the connection ratio of ZigBee wireless sensor networks
Authors: Sung Tien‐Wen , Yang Chu‐Sing 
Published: January 2010

AbstractWireless sensor networks (WSNs) are well suited to many applications, including environment surveillance and target tracking. ZigBee is an IEEE 802.15.4‐based standard that is considered suitable for WSNs. The functional operations of a ZigBee network rely on self‐organized network connections and the proper deployment of sensor devices. However, the devices comprising a ZigBee network may become isolated from the network after the joining phase due to the configuration constraints of the ZigBee standard. This means that some deployed devices cannot join the network even though they can communicate with other joined nodes. These isolated devices reduce the efficiency of network operation and increase deployment costs. This paper proposes a ZigBee‐compatible adaptive joining mechanism with connection shifting schemes to improve the connectivity of ZigBee networks, allowing them to operate at the expected efficiency. Simulation results show that the proposed mechanism significantly improves the join ratio of deployed sensor devices in ZigBee WSNs. Copyright © 2009 John Wiley & Sons, Ltd.
Controls in quality assessment in gynecologic cytology: A rational approach to workload limits for the ThinPrep imaging system
Authors: Renshaw Andrew A. , Elsheikh Tarik M. 
Published: January 2010

AbstractMajor components of good quality assurance (QA) in cytology laboratories are measuring the screening accuracy of cytotechnologists (CTs) and determining appropriate workload limits for them. Currently, the FDA approved workload limits for image assisted Paps, however, are too high. In addition, the CLIA 88 mandated QA measures, by themselves, are insufficient to accurately measure the screening performance of CTs. Although the use of “controls” is fundamental to good practice in the clinical laboratory; this has not been emphasized in gynecologic cytology. In this review, we underscore the importance of using controls, such as monitoring morning and afternoon abnormal rates, in assessing CT performance and assigning reasonable workload limits. Using controls, however, requires significant alteration in the laboratory workflow, and much lower and variable workload limits for CTs, compared to those approved by FDA. Diagn. Cytopathol. 2010;38:772–775. © 2010 Wiley‐Liss, Inc.