bluuebunny/crossref_metadata_2025_split huggingface dataset:
Utilizing genome-scale models to optimize nutrient supply for sustained algal growth and lipid productivity
Authors: Li Chien-Ting , Yelsky Jacob , Chen Yiqun , Zuñiga Cristal , Eng Richard , Jiang Liqun , Shapiro Alison , Huang Kai-Wen , Zengler Karsten , Betenbaugh Michael J. 
Published: September 2019

AbstractNutrient availability is critical for growth of algae and other microbes used for generating valuable biochemical products. Determining the optimal levels of nutrient supplies to cultures can eliminate feeding of excess nutrients, lowering production costs and reducing nutrient pollution into the environment. With the advent of omics and bioinformatics methods, it is now possible to construct genome-scale models that accurately describe the metabolism of microorganisms. In this study, a genome-scale model of the green alga Chlorella vulgaris (iCZ946) was applied to predict feeding of multiple nutrients, including nitrate and glucose, under both autotrophic and heterotrophic conditions. The objective function was changed from optimizing growth to instead minimizing nitrate and glucose uptake rates, enabling predictions of feed rates for these nutrients. The metabolic model control (MMC) algorithm was validated for autotrophic growth, saving 18% nitrate while sustaining algal growth. Additionally, we obtained similar growth profiles by simultaneously controlling glucose and nitrate supplies under heterotrophic conditions for both high and low levels of glucose and nitrate. Finally, the nitrate supply was controlled in order to retain protein and chlorophyll synthesis, albeit at a lower rate, under nitrogen-limiting conditions. This model-driven cultivation strategy doubled the total volumetric yield of biomass, increased fatty acid methyl ester (FAME) yield by 61%, and enhanced lutein yield nearly 3 fold compared to nitrogen starvation. This study introduces a control methodology that integrates omics data and genome-scale models in order to optimize nutrient supplies based on the metabolic state of algal cells in different nutrient environments. This approach could transform bioprocessing control into a systems biology-based paradigm suitable for a wide range of species in order to limit nutrient inputs, reduce processing costs, and optimize biomanufacturing for the next generation of desirable biotechnology products.
High-throughput sequencing analysis of genes encoding the B-lymphocyte receptor heavy-chain CDR3 in renal and peripheral blood of IgA nephropathy
Authors: Chen Dapeng , Zhang Zheng , Yang Yue , Hong Quan , Li Wenge , Zhuo Li 
Published: September 2019

Abstract
Aim: IgA nephropathy (IgAN) is one of the most common chronic glomerulonephritis. Its etiology and pathogenesis remain unclear. We thus explored the immune repertoire of the B-cell receptor (BCR) and the heavy-chain complementarity-determining region 3 (CDR3) in renal tissue and peripheral blood of IgAN patients. Method: Total RNAs extracted from renal tissues and peripheral blood of patients and peripheral blood of healthy controls (HCs) were analyzed via high-throughput multiplex PCR sequencing. We amplified and sequenced BCR heavy-chain CDR3 regions to explore repertoire diversity, V/J gene family distribution, CDR3 lengths, BCR heavy-chain variants, consistency between tissue and peripheral blood data, and clones ‘shared’ by these bodily compartments. Results: We identified the renal tissue and peripheral blood BCR heavy-chain CDR3 immune repertoires of 15 IgAN patients. Top1 could be more readily cloned from peripheral blood of patients than from controls (P&lt;0.05), the average CDR3 length was significantly shorter in patients than in HCs (P&lt;0.05), the variant frequency of the gene encoding the BCR heavy chain was higher in patients than in HCs (P&lt;0.05), and the BCR variant frequency was highest in IgAN kidney tissue. Preliminary screening for ‘shared’ clones showed that, in at least 13 patients, the ‘ALYFHNSAY’, ‘ARWGPMYYYMDV’, ‘ARDQGALNA’, and ‘ARVDNPADF’ CDR3 sequences were evident in peripheral blood samples from patients, but not HCs. Conclusions: We found that the ‘ALYFHNSAY’, ‘ARWGPMYYYMDV’, ‘ARDQGALNA’, and ‘ARVDNPADF’ clonal sequences may be useful for noninvasive diagnosis and treatment planning in IgAN.
Entscheidungsfindung bei nicht einwilligungsfähigen
Patienten
Authors: Gieselmann Astrid , Gather Jakov , Vollmann Jochen 
Published: September 2019

ZusammenfassungMedizinische Entscheidungen in Situationen zu treffen, in denen Patienten nicht
einwilligungsfähig sind, zählt zu den besonders schwierigen und belastenden
Aufgaben von Ärzten und Pflegenden. In der Psychiatrie sind Professionelle
jedoch besonders häufig in dieser Situation, da psychische Störungen
vorübergehend oder dauerhaft mit Einwilligungsunfähigkeit einhergehen können.
Wie dennoch Entscheidungen über die Behandlung getroffen werden können,
beschreibt unser Autoren-Team.
Utility of Specialized Imaging for Diagnosis of Chronic Wrist Pain
Authors: Dreckmann Stephanie C. , von Schroeder Herbert P. , Novak Christine B. , Baltzer Heather L. 
Published: September 2019

Abstract
Background Patients with chronic wrist pain often undergo imaging (such as magnetic resonance imaging [MRI], computed tomography [CT], or ultrasound [US]) prior to specialist assessment.
Questions Is specialized wrist imaging performed prior to expert consultation necessary? Are there demographic differences between patients who do or do not receive preconsultation imaging?
Patients and Methods A total of 115 patients referred to a tertiary hand center for chronic wrist pain and assessed by a hand surgeon were included. At initial consultation, surgeons were blinded to referral information and previous imaging results. The specialist performed a history, physical examination and reviewed X-rays. They established a clinical diagnosis and whether any additional investigations were needed. Prior MRI, CT, and/or US results were then reviewed and the specialists' clinical diagnosis was compared with the blinded referral diagnosis. Preconsultation imaging was categorized as having no value for diagnosis/management, some value, or high value.
Results A total of 82 patients had imaging prior to specialist referral (69 MRIs, 11 CTs, and 16 ultrasounds). The majority of additional imaging (73%) was classified as unnecessary, including 77% of the MRIs and 100% of the ultrasounds. Of all the investigations performed, two CT scans were labeled highly valuable clinical aids. Older patients and those with radial-sided pain were less likely to receive preconsultation imaging. Six patients required further imaging after consultation.
Conclusion Clinical assessment and X-rays are typically sufficient for a hand specialist to diagnose and manage chronic wrist pain and few patients require additional imaging.
Level of Evidence This is a Level III study.
Proton beam emittance growth in multipicosecond laser-solid interactions
Authors: Campbell Paul T , Canning D , Hussein A E , Ratnayaka K D W , Thomas A G R , Krushelnick K , Willingale L 
Published: September 2019

Abstract
High intensity laser-solid interactions can accelerate high energy, low emittance proton beams via the target normal sheath acceleration (TNSA) mechanism. Such beams are useful for a number of applications, including time-resolved proton radiography for basic plasma and high energy density physics studies. In experiments using the OMEGA EP laser system, we perform the first measurements of TNSA proton beams generated by up to 100 ps, kilojoule-class laser pulses with relativistic intensities. By systematically varying the laser pulse duration, we measure degradation of the accelerated proton beam quality as the pulse length increases. Two dimensional particle-in-cell simulations and simple scaling arguments suggest that ion motion during the rise time of the longer pulses leads to extended preformed plasma expansion from the rear target surface and strong filamentary field structures which can deflect ions away from uniform trajectories and therefore lead to large emittance growth.
One-dimensional SU(N) clusters of fermions in optical lattices
Authors: Gordillo M C 
Published: September 2019

Abstract
The behaviour of fermion clusters with SU(N) symmetry loaded in one-dimensional optical lattices and described by continuous Hamiltonians was studied using a diffusion Monte Carlo (DMC) technique. The state diagrams of SU(6) and SU(2) arrangements with the same number of particles were calculated and found virtually identical. The only difference was the absence of a band insulator in the SU(N) case in the range of optical lattice depths considered (V
0 = 0–12 E

R
; E

R
, recoil energy of the lattice) in the non-interacting limit for N > 2. The appearance of that state was signalled by a noticeable change in the shape of the momentum distributions in going from a metal to a band insulator.
Oceanic conditions associated with Euro-Atlantic high pressure and UK drought
Authors: Svensson Cecilia , Hannaford Jamie 
Published: September 2019

Abstract
Persistent atmospheric high pressures can lead to long-lasting droughts and heatwaves with severe societal and environmental impacts, as evident in summer 2018 in Europe. It is known that oceanic and atmospheric features connected with the tropical Pacific influence the atmospheric circulation regimes over the North Atlantic/European sector leading to blocking high pressures in the cold season. Here we show that in the warm season, different combinations of sea surface temperatures in the North Pacific and the North Atlantic are associated with distinctly different atmospheric circulation patterns over northwest Europe some three months later. While most studies are restricted to atmospheric variables, for the UK we also investigate the hydrological impact and find that the effect of the preferred seasonal storm tracks is more clearly seen in regional streamflow observations than in precipitation, presumably because streamflows integrate the influences of precipitation and evapotranspiration. These relationships open up the possibility of skilful statistical forecasts for much of spring to autumn, which will usefully complement the currently available skilful winter forecasts based on general circulation models. Our results deliver new understanding of the truly global driving processes of UK droughts and highlight the potential for improved early warning for the wider European domain.
Cytomegalovirus Infection in Solid Organ and Hematopoietic Cell Transplantation: State of the Evidence
Authors: Haidar Ghady , Boeckh Michael , Singh Nina 
Published: September 2019

AbstractThis review focuses on recent advances in the field of cytomegalovirus (CMV). The 2 main strategies for CMV prevention are prophylaxis and preemptive therapy. Prophylaxis effectively prevents CMV infection after solid organ transplantation (SOT) but is associated with high rates of neutropenia and delayed-onset postprophylaxis disease. In contrast, preemptive therapy has the advantage of leading to lower rates of CMV disease and robust humoral and T-cell responses. It is widely used in hematopoietic cell transplant recipients but is infrequently utilized after SOT due to logistical considerations, though these may be overcome by novel methods to monitor CMV viremia using self-testing platforms. We review recent developments in CMV immune monitoring, vaccination, and monoclonal antibodies, all of which have the potential to become part of integrated strategies that rely on viral load monitoring and immune responses. We discuss novel therapeutic options for drug-resistant or refractory CMV infection, including maribavir, letermovir, and adoptive T-cell transfer. We also explore the role of donor factors in transmitting CMV after SOT. Finally, we propose a framework with which to approach CMV prevention in the foreseeable future.
Extradural Devascularization for Resection of a Lesser Sphenoid Wing Meningioma: 2-Dimensional Operative Video
Authors: Gallardo-Ceja David , Sanchez-Correa Thalia E , Mendez-Rosito Diego 
Published: September 2019

Abstract
We describe the case of a 42-yr-old female patient with a 2-yr history of headache that has progressively worsened. Physical examination revealed no neurological deficit. Magnetic resonance imaging showed a large tumor of the left lesser sphenoid wing that enhanced with gadolinium and produced displacement of the midline and the Sylvian fissure. A thorough analysis of the origin of the tumor was done to establish the surgical strategy. With the patient positioned supine with the head slightly turned to the right side, fixed in a 3-pin head clamp, a pterional craniotomy was performed. Since the origin of the tumor is in the lesser wing an early extradural devascularization of the tumor was done with drilling out all the hyperostotic bone of the lesser sphenoid wing, including the lateral base of the anterior clinoid process. Intradural debulking and resection showed the effect of extradural devascularization with an important decrease in bleeding, allowing the total resection of the tumor. An immediate postop magnetic resonance showed a complete removal of the tumor. The patient presented a paresis of the oculomotor nerve that completely resolved in the 3-mo follow-up. In the following video illustration, we narrate this operative case and highlight the nuances of this approach.
1
The patient has given assent and written consent for videos, images, or clinical or genetic information to be published.
Exploring the effect of online banking on bank performance using data envelopment analysis
Authors: Owusu Kwateng Kwame , Osei-Wusu Edna Edwina , Amanor Kofi 
Published: September 2019

Purpose
Increased competition in the banking sector coupled with long queues in the banking hall has necessitated the introduction of internet banking among banks in Ghana. As a result, internet banking has attracted a great deal of attention from both academicians and practitioners. The purpose of this paper is to examine the effect of internet banking on the performance of banking institutions in Ghana.

Design/methodology/approach
In total, 20 banks in Ghana were selected from the Bank of Ghana website for the study. The financial information about the banks’ operations was retrieved from the financial statements of the respective banks for the end of the year 2016. The data envelopment analysis-bootstrap approach with principal component analysis and cluster analysis was used to estimate 49 models.

Findings
The findings of the study indicated that the integration of internet banking into traditional banking methods has led to superior bank performance in Ghana. It was observed that while the independent application of internet banking as a strategy to raise performance was not yielding higher returns due to the low patronage of internet services among banking consumers, its integration with possible traditional methods is widely observed among the top performers in the banking industry.

Practical implications
Traditional banking methods, integrated banking service strategies and the internet banking service-oriented strategy emerged as the main banking strategies among the banks.

Originality/value
Extant literature is quite silent on the effect of internet banking on bank performance in Africa. However, this paper is among the first significant attempts to examine the effect of internet banking on bank performance.
Cox regression with survival‐time‐dependent missing covariate values
Authors: Yi Yanyao , Ye Ting , Yu Menggang , Shao Jun 
Published: September 2019

AbstractAnalysis with time‐to‐event data in clinical and epidemiological studies often encounters missing covariate values, and the missing at random assumption is commonly adopted, which assumes that missingness depends on the observed data, including the observed outcome which is the minimum of survival and censoring time. However, it is conceivable that in certain settings, missingness of covariate values is related to the survival time but not to the censoring time. This is especially so when covariate missingness is related to an unmeasured variable affected by the patient's illness and prognosis factors at baseline. If this is the case, then the covariate missingness is not at random as the survival time is censored, and it creates a challenge in data analysis. In this article, we propose an approach to deal with such survival‐time‐dependent covariate missingness based on the well known Cox proportional hazard model. Our method is based on inverse propensity weighting with the propensity estimated by nonparametric kernel regression. Our estimators are consistent and asymptotically normal, and their finite‐sample performance is examined through simulation. An application to a real‐data example is included for illustration.
Comparing Model Performance in Characterizing the PK/PD of the Anti‐Myostatin Antibody Domagrozumab
Authors: Tiwari Abhinav , Bhattacharya Indranil , Chan Phylinda L.S. , Harnisch Lutz 
Published: September 2019

Modeling and simulation provides quantitative information on target coverage for dose selection. Optimal model selection often relies on fit criteria and is not necessarily mechanistically driven. One such case is discussed where healthy volunteer data of an anti‐myostatin monoclonal antibody domagrozumab were used to develop different target‐mediated drug disposition models; a quasi‐steady state (QSS) rapid binding approximation model, a Michaelis−Menten (MM)‐binding kinetics (MM‐BK) model, and an MM‐indirect response (MM‐IDR) model. Whereas the MM‐BK model was identified as optimal in fitting the data, with all parameters estimated with high precision, the QSS model also converged but was not able to capture the nonlinear decline. Although the least mechanistic model, MM‐IDR, had the lowest objective function value, the MM‐BK model was further developed as it provided a reasonable fit and allowed simulations regarding growth differentiation factor‐8 target coverage for phase II dose selection with sufficient certainty to allow for testing of the underlying mechanistic assumptions.
Vegetation response to climatic changes in western Amazonia over the last 7,600 years
Authors: Nascimento Majoi N. , Martins Gabriel S. , Cordeiro Renato C. , Turcq Bruno , Moreira Luciane S. , Bush Mark B. 
Published: September 2019

AbstractAimOngoing and future anthropogenic climate change poses one of the greatest threats to biodiversity, affecting species distributions and ecological interactions. In the Amazon, climatic changes are expected to induce warming, disrupt precipitation patterns and of particular concern, to increase the intensity and frequency of droughts. Yet the response of ecosystems to intense warm, dry events is not well understood. In the Andes the mid‐Holocene dry event (MHDE), c. 9,000 to 4,000 years ago, was the warmest and driest period of the last 100,000 years which coincided with changes in evaporation and precipitation that caused lake levels to drop over most of tropical South America. This event probably approximates our near‐climatic future, and a critical question is: How much did vegetation change in response to this forcing?LocationLake Pata, Brazilian Western Amazonia.TaxonTerrestrial and aquatic plants.MethodsWe used pollen, charcoal, total organic carbon (TOC), total nitrogen (TN), δ13C and δ15N data from a new high‐resolution core that spans the last c. 7,600 years history of Lake Pata.ResultsWe found that in the wettest section of Amazonia changes associated with the MHDE were detected in the geochemistry analysis but that vegetation changed very little in response to drought during the Holocene. This is the first high‐resolution core without apparent hiatuses that spans most of the Holocene (last 7,600 cal yr bp) from Lake Pata, Brazil. Changes in the organic geochemistry of sediments indicated that between c. 6,500 and 3,600 cal yr bp lake levels dropped. Vegetation, however, showed little change as near‐modern forests were seen throughout the record, evidencing the substantial resilience of this system. Only a few species replacements and minor fluctuations in abundance were observed in the pollen record.Main conclusionsThe mid‐Holocene warming and reduced precipitation had a limited impact on western Amazonian forests. We attribute much of the resilience to a lack of fire in this system, and that if human‐set fires were to be introduced, the forest destruction from that cause would override that induced by climate alone.
A host target of a bacterial cysteine protease virulence effector plays a key role in convergent evolution of plant innate immune system receptors
Authors: Prokchorchik Maxim , Choi Sera , Chung Eui‐Hwan , Won Kyungho , Dangl Jeffery L. , Sohn Kee Hoon 
Published: September 2019

Summary

Some virulence effectors secreted from pathogens target host proteins and induce biochemical modifications that are monitored by nucleotide‐binding and leucine‐rich repeat (NLR) immune receptors. Arabidopsis RIN4 protein (AtRIN4: RPM1‐interacting protein 4) homologs are present in diverse plant species and targeted by several bacterial type III effector proteins including the cysteine protease AvrRpt2.

RIN4 is ‘guarded’ by several independently evolved NLRs from various plant species, including Arabidopsis RPS2. Recently, it was shown that the MR5 NLR from a wild apple relative can recognize the AvrRpt2 effector from Erwinia amylovora, but the details of this recognition remained unclear.

The present contribution reports the mechanism of AvrRpt2 recognition by independently evolved NLRs, MR5 from apple and RPS2, both of which require proteolytically processed RIN4 for activation. It shows that the C‐terminal cleaved product of apple RIN4 (MdRIN4) but not AtRIN4 is necessary and sufficient for MR5 activation. Additionally, two polymorphic residues in AtRIN4 and MdRIN4 are identified that are crucial in the regulation of and physical association with NLRs.

It is proposed that polymorphisms in RIN4 from distantly related plant species allow it to remain an effector target while maintaining compatibility with multiple NLRs.
Barriers and enablers that influence guideline-based care of geriatric fall patients presenting to the emergency department
Authors: Parks Adam , Eagles Debra , Ge Yipeng , Stiell Ian G , Cheung Warren J 
Published: September 2019

BackgroundGeriatric patients commonly present to the ED after a fall. Recent evidence suggests that ED physicians are poorly adherent to published ED-specific geriatric fall guidelines. This study applied a theoretical domains framework (TDF) approach to systematically investigate barriers and enablers in the provision of guideline-based care to ED geriatric fall patients.MethodsFrom June to September 2017, semistructured interviews of staff ED physicians practising in Ontario, Canada, were conducted and analysed. An interview guide based on the TDF was used to capture 14 domains influencing provision of guideline-based care. Relevant domains were identified based on frequencies of beliefs, existence of conflicting beliefs and evidence of strong beliefs that would influence provision of guideline-based care.ResultsEleven interviews were conducted with practising ED physicians. Thirty belief statements were identified across 13 relevant TDF domains (all exceptOptimism). Prominent themes included lack of knowledge, paucity of evidence, heterogeneous self-perceived skills, perceived increased time and workload, importance of allied health support, inconsistently available allied health workers, lack of positive reinforcement, emotions negatively impacting these clinical encounters and support for memory aids. Overall, ED physicians were supportive of guideline implementation, and believe it will lead to better outcomes for geriatric fall patients.ConclusionThis study identified important barriers and enablers to provision of guideline-based care in geriatric ED fall patients. Based on these findings, future implementation of guidelines nationally and internationally should focus on improving knowledge and training on guidelines, improving positive reinforcement for guideline-appropriate management, greater allied health support and further research to support guidelines.