bluuebunny/crossref_metadata_2025_split huggingface dataset:
Retention of gene diversity during the spread of a non‐native plant species
Authors: Vandepitte Katrien , Helsen Kenny , Van Acker Kasper , Mergeay Joachim , Honnay Olivier 
Published: March 2017

AbstractSpatial expansion, which is a crucial stage in the process to successful biological invasion, is anticipated to profoundly affect the magnitude and spatial distribution of genetic diversity in novel colonized areas. Here, we show that, contrasting common expectations, Pyrenean rocket (Sisymbrium austriacum), retained SNP diversity as this introduced plant species descended in the Meuse River Basin. Allele frequencies did not mirror between‐population distances along the predominant expansion axis. Reconstruction of invasion history based on the genotypes of historical herbarium specimens indicated no influence of additional introductions or multiple points of entry on this nongradual pattern. Assignment analysis suggested the admixture of distant upstream sources in recently founded downstream populations. River dynamics seem to have facilitated occasional long‐distance dispersal which brought diversity to the expansion front and so maintained evolutionary potential. Our findings highlight the merit of a historical framework in interpreting extant patterns of genetic diversity in introduced species and underscore the need to integrate long‐distance dispersal events in theoretical work on the genetic consequences of range expansion.
Evidence for the generation of myristylated FMN by bacterial luciferase
Authors: Tabib Chaitanya R. , Brodl Eveline , Macheroux Peter 
Published: March 2017

SummaryThe genes responsible for the light production in bioluminescent bacteria are present as an operon, luxCDABEG. Many strains of Photobacteria carry an additional gene, termed luxF. X‐ray crystallographic analysis of LuxF revealed the presence of four molecules of a flavin derivative, i.e. 6‐(3′‐(R)‐myristyl) flavin adenine mononucleotide (myrFMN) non‐covalently bound to the homodimer. In the present study, we exploited the binding of myrFMN to recombinant apo‐LuxF to explore the occurrence of myrFMN in various bioluminescent bacteria. MyrFMN was detected in all bacterial strains tested including Vibrio and Aliivibrio indicating that it is more widely occurring in bioluminescent bacteria than previously assumed. We also show that apo‐LuxF captures myrFMN and thereby relieves the inhibitory effect on luciferase activity. Thus our results provide support for the hypothesis that LuxF acts as a scavenger of myrFMN in bioluminescent bacteria. However, the source of myrFMN remained obscure. To address this issue, we established a cofactor regeneration enzyme‐catalyzed cascade reaction that supports luciferase activity in vitro for up to 3 days. This approach enabled us to unambiguously demonstrate that myrFMN is generated in the bacterial bioluminescent reaction. Based on this finding we postulate a reaction mechanism for myrFMN generation that is based on the luciferase reaction.
A systematic review of genetic syndromes with obesity
Authors: Kaur Y. , de Souza R. J. , Gibson W. T. , Meyre D. 
Published: March 2017

SummarySyndromic monogenic obesity typically follows Mendelian patterns of inheritance and involves the co‐presentation of other characteristics, such as mental retardation, dysmorphic features and organ‐specific abnormalities. Previous reviews on obesity have reported 20 to 30 syndromes but no systematic review has yet been conducted on syndromic obesity. We searched seven databases using terms such as ‘obesity’, ‘syndrome’ and ‘gene’ to conduct a systematic review of literature on syndromic obesity. Our literature search identified 13,719 references. After abstract and full‐text review, 119 relevant papers were eligible, and 42 papers were identified through additional searches. Our analysis of these 161 papers found that 79 obesity syndromes have been reported in literature. Of the 79 syndromes, 19 have been fully genetically elucidated, 11 have been partially elucidated, 27 have been mapped to a chromosomal region and for the remaining 22, neither the gene(s) nor the chromosomal location(s) have yet been identified. Interestingly, 54.4% of the syndromes have not been assigned a name, whereas 13.9% have more than one name. We report on organizational inconsistencies (e.g. naming discrepancies and syndrome classification) and provide suggestions for improvements. Overall, this review illustrates the need for increased clinical and genetic research on syndromes with obesity.
Cytokine and antioxidant gene profiles from peripheral blood mononuclear cells of Pelibuey lambs after Haemonchus contortus infection
Authors: Estrada‐Reyes Z. , López‐Arellano M. E. , Torres‐Acosta F. , López‐Reyes A. , Lagunas‐Martínez A. , Mendoza‐de‐Gives P. , González‐Garduño R. , Olazarán‐Jenkins S. , Reyes‐Guerrero D. , Ramírez‐Vargas G. 
Published: March 2017

SummaryThe expression profiles of cytokines and antioxidant genes were determined from an experimental infection with H. contortus in Pelibuey lambs. The infection was followed for 34 days (d) to determine the number of eggs per gram (epg) and the packed cell volume (PCV). Differential white cell counts and expression profile estimations of IL‐2, IL‐4, IL‐5, IL‐6, IL‐8, IL‐10, IL‐13, FCεR1A, GPX and SOD1 were determined at 0 hour, 4 hours, 2 days and 14 days post‐infection (PI) in infected and control groups. Comparison of the fold change between 0 and 4‐hours, 4‐hours and 2‐days and 2‐ and 14‐days periods was performed. Significant differences (P<.05) between epg (>2000) and PCV (>30%) were determined after 21 days and were also observed with regard to monocyte and lymphocyte cells after 2 and 7 days PI. At 0 hour and 14 days PI, the GPX and IL‐2 genes showed a 0.37‐ and 0.49‐fold decrease in expression, respectively. In contrast, upregulation was observed at 4 hours of IL‐8 (2.58) and FCεR1A (2.71), at 2 days for IL‐4 (2.14) and IL‐8 (4.02) and at 14 days for IL‐2 (0.41), IL‐10 (2.35) and FCεR1A (2.28). The comparison between the intervals of infection showed high expression values against H. contortus infection in Pelibuey sheep after the 2nd period of PI involving a dichotomy T cells.
The Late Cretaceous Klepa basalts in Macedonia (FYROM)—Constraints on the final stage of Tethys closure in the Balkans
Authors: Prelević Dejan , Wehrheim Simon , Reutter Magnus , Romer Rolf L. , Boev Blažo , Božović Milica , van den Bogaard Paul , Cvetković Vladica , Schmid Stefan M. 
Published: March 2017

AbstractThe waning stage(s) of the Tethyan ocean(s) in the Balkans are not well understood. Controversy centres on the origin and life‐span of the Cretaceous Sava Zone, which is allegedly a remnant of the last oceanic domain in the Balkan Peninsula, defining the youngest suture between Eurasia‐ and Adria‐derived plates. In order to investigate to what extent Late‐Cretaceous volcanism within the Sava Zone is consistent with this model we present new age data together with trace‐element and Sr–Nd–Pb isotope data for the Klepa basaltic lavas from the central Balkan Peninsula. Our new geochemical data show marked differences between the Cretaceous Klepa basalts (Sava Zone) and the rocks of other volcanic sequences from the Jurassic ophiolites of the Balkans. The Klepa basalts mostly have Sr–Nd–Pb isotopic and trace‐element signatures that resemble enriched within‐plate basalts substantially different from Jurassic ophiolite basalts with MORB, BAB and IAV affinities. Trace‐element modelling of the Klepa rocks indicates 2%–20% polybaric melting of a relatively homogeneously metasomatised mantle source that ranges in composition from garnet lherzolite to ilmenite+apatite bearing spinel–amphibole lherzolite. Thus, the residual mineralogy is characteristic of a continental rather than oceanic lithospheric mantle source, suggesting an intracontinental within‐plate origin for the Klepa basalts. Two alternative geodynamic models are internally consistent with our new findings: (1) if the Sava Zone represents remnants of the youngest Neotethyan Ocean, magmatism along this zone would be situated within the forearc region and triggered by ridge subduction; (2) if the Sava Zone delimits a diffuse tectonic boundary between Adria and Europe which had already collided in the Late Jurassic, the Klepa basalts together with a number of other magmatic centres represent volcanism related to transtensional tectonics.
Regulation of Sporangium Formation by BldD in the Rare Actinomycete Actinoplanes missouriensis
Authors: Mouri Yoshihiro , Konishi Kenji , Fujita Azusa , Tezuka Takeaki , Ohnishi Yasuo 
Published: March 2017

ABSTRACT

The rare actinomycete
Actinoplanes missouriensis
forms sporangia, including hundreds of flagellated spores that start swimming as zoospores after their release. Under conditions suitable for vegetative growth, zoospores stop swimming and germinate. A comparative proteome analysis between zoospores and germinating cells identified 15 proteins that were produced in larger amounts in germinating cells. They include an orthologue of BldD (herein named AmBldD [BldD of
A. missouriensis
]), which is a transcriptional regulator involved in morphological development and secondary metabolism in
Streptomyces
. AmBldD was detected in mycelia during vegetative growth but was barely detected in mycelia during the sporangium-forming phase, in spite of the constant transcription of
AmbldD
throughout growth. An
AmbldD
mutant started to form sporangia much earlier than the wild-type strain, and the resulting sporangia were morphologically abnormal. Recombinant AmBldD bound a palindromic sequence, the AmBldD box, located upstream from
AmbldD
. 3′,5′-Cyclic di-GMP significantly enhanced the
in vitro
DNA-binding ability of AmBldD. A chromatin immunoprecipitation-sequencing analysis and an
in silico
search for AmBldD boxes revealed that AmBldD bound 346 genomic loci that contained the 19-bp inverted repeat 5′-NN(G/A)TNACN(C/G)N(G/C)NGTNA(C/T)NN-3′ as the consensus AmBldD-binding sequence. The transcriptional analysis of 27 selected AmBldD target gene candidates indicated that AmBldD should repress 12 of the 27 genes, including
bldM
,
ssgB
,
whiD
,
ddbA
, and
wblA
orthologues. These genes are involved in morphological development in
Streptomyces coelicolor
A3(2). Thus, AmBldD is a global transcriptional regulator that seems to repress the transcription of tens of genes during vegetative growth, some of which are likely to be required for sporangium formation.

IMPORTANCE
The rare actinomycete
Actinoplanes missouriensis
undergoes complex morphological differentiation, including sporangium formation. However, almost no molecular biological studies have been conducted on this bacterium. BldD is a key global regulator involved in the morphological development of streptomycetes. BldD orthologues are highly conserved among sporulating actinomycetes, but no BldD orthologues, except one in
Saccharopolyspora erythraea
, have been studied outside the streptomycetes. Here, it was revealed that the BldD orthologue AmBldD is essential for normal developmental processes in
A. missouriensis
. The AmBldD regulon seems to be different from the BldD regulon in
Streptomyces coelicolor
A3(2), but they share four genes that are involved in morphological differentiation in
S. coelicolor
A3(2).
Comparison of the prognostic values of inflammation markers in patients with acute pancreatitis: a retrospective cohort study
Authors: Li Yuanyuan , Zhao Ying , Feng Limin , Guo Renyong 
Published: March 2017

ObjectivesInflammation-based prognostic markers (neutrophil–lymphocyte ratio (NLR), prognostic nutritional index (PNI), red cell distribution width (RDW) and lymphocyte–monocyte ratio (LMR)) are associated with overall survival in some diseases. This study assessed their prognostic value in mortality and severity in acute pancreatitis (AP).DesignA retrospective cohort study.SettingPatients with AP were recruited from the emergency department at our hospital.ParticipantsA total of 359 patients with AP (31 non-survivors) were enrolled.Primary and secondary outcome measuresMortality and severity of AP were the primary and secondary outcome measures, respectively. Biochemistry and haematology results of the first test after admission were collected. Independent relationships between severe AP (SAP) and markers were assessed using multivariate logistic regression models. Mortality prediction ability was evaluated using receiver operating characteristic (ROC) curves. Overall survival was evaluated using the Kaplan-Meier method, with differences compared using the log-rank test. Independent relationships between mortality and each predictor were estimated using the Cox proportional hazard models.ResultsCompared with survivors of AP, non-survivors had higher RDW (p<0.001), higher NLR (p<0.001), lower LMR (p<0.001) and lower PNI (p<0.001) at baseline. C reactive protein (CRP; OR=8.251, p<0.001), RDW (OR=2.533, p=0.003) and PNI (OR=7.753, p<0.001) were independently associated with the occurrence of SAP. For predicting mortality, NLR had the largest area under the ROC curve (0.804, p<0.001), with a 16.64 cut-off value, 82.4% sensitivity and 75.6% specificity. RDW was a reliable marker for excluding death owing to its lowest negative likelihood ratio (0.11). NLR (HR=4.726, p=0.004), CRP (HR=3.503, p=0.003), RDW (HR=3.139, p=0.013) and PNI (HR=2.641, p=0.011) were independently associated with mortality of AP.ConclusionsNLR was the most powerful marker of overall survival in this patient series.
Complex Additive Geometric Multilevel Solvers for Helmholtz Equations on Spacetrees
Authors: Reps Bram , Weinzierl Tobias 
Published: March 2017

We introduce a family of implementations of low-order, additive, geometric multilevel solvers for systems of Helmholtz equations arising from Schrödinger equations. Both grid spacing and arithmetics may comprise complex numbers, and we thus can apply complex scaling to the indefinite Helmholtz operator. Our implementations are based on the notion of a spacetree and work exclusively with a finite number of precomputed local element matrices. They are globally matrix-free.
Combining various relaxation factors with two grid transfer operators allows us to switch from additive multigrid over a hierarchical basis method into a Bramble-Pasciak-Xu (BPX)-type solver, with several multiscale smoothing variants within one code base. Pipelining allows us to realize full approximation storage (FAS) within the additive environment where, amortized, each grid vertex carrying degrees of freedom is read/written only once per iteration. The codes realize a single-touch policy. Among the features facilitated by matrix-free FAS is arbitrary dynamic mesh refinement (AMR) for all solver variants. AMR as an enabler for full multigrid (FMG) cycling—the grid unfolds throughout the computation—allows us to reduce the cost per unknown.
The present work primary contributes toward software realization and design questions. Our experiments show that the consolidation of single-touch FAS, dynamic AMR, and vectorization-friendly, complex scaled, matrix-free FMG cycles delivers a mature implementation blueprint for solvers of Helmholtz equations in general. For this blueprint, we put particular emphasis on a strict implementation formalism as well as some implementation correctness proofs.
Two new species of Allophrys Förster from the Oriental Region (Hymenoptera: Ichneumonidae: Tersilochinae)
Authors: YUE QI , RESHCHIKOV ALEXEY , ANG YUCHEN , XU ZAI-FU , PANG HONG 
Published: March 2017

Two species of Allophrys Förster are described from the Oriental region, A. cantonensis Reshchikov& Yue, sp. nov., collected from Guangdong, China and A. falcatus Reshchikov, sp. nov. from Davao, Philippines. This is first record of the genus from China. A key to the Oriental species of the genus is provided.
Virtually Enhanced Fluid Laboratories for Teaching Meteorology
Authors: Illari Lodovica , Marshall John , McKenna W. D. 
Published: March 2017

AbstractThe “Weather in a Tank” project offers instructors a repertoire of rotating tank experiments and a curriculum in fluid dynamics to better assist students in learning how to move between phenomena in the real world and basic principles of rotating fluid dynamics that play a central role in determining the climate of the planet. Despite the increasing use of laboratory experiments in teaching meteorology, many teachers and students do not have access to suitable apparatuses and so cannot benefit from them. This article describes a “virtually enhanced” laboratory that could be very effective in getting across a flavor of the experiments and bring them to a wider audience. In the pedagogical spirit of Weather in a Tank, the focus is on how simple underlying principles, illustrated through laboratory experiments, shape the observed structure of the large-scale atmospheric circulation.
Sea Ice Summer Camp: Bringing Together Sea Ice Modelers and Observers to Advance Polar Science
Authors: Holland Marika M. , Perovich Donald 
Published: March 2017

AbstractArctic sea ice has undergone significant change with large reductions in thickness and areal extent over the historical record. Numerical models project sea ice loss to continue for the foreseeable future, with the possibility of September ice-free conditions later this century. Understanding the mechanisms behind ice loss and its consequences for the larger Arctic and global systems is important if we are to anticipate and plan for the future. Meeting this challenge requires the collective and collaborative insights of scientists investigating the system from numerous perspectives. One impediment to progress has been a disconnect between the observational and modeling research communities. Advancing the science requires enhanced integration between these communities and more collaborative approaches to understanding Arctic sea ice loss. This paper discusses a successful effort to further these aims: a weeklong sea ice summer camp held in Barrow, Alaska (now known as Utqiaġvik), in May 2016. The camp brought together 25 participants who were a heterogeneous mix of observers and modelers from 13 different institutions at career stages from graduate students to senior researchers. The summer camp provided an accelerated program on sea ice observations and models and also fostered future collaborative interdisciplinary activities. A dialogue with Barrow community members was initiated in order to further understand the local consequences of Arctic sea ice loss. The discussion herein describes lessons learned from this activity and paths forward to advance the understanding and prediction of Arctic climate change.
Efficacy and safety of topical diclofenac/menthol gel for ankle sprain: A randomized, double-blind, placebo- and active-controlled trial
Authors: Lai Pamela M. , Collaku Agron , Reed Kenneth 
Published: March 2017

Purpose This study was performed to evaluate topical 1% diclofenac/3% menthol gel in treating ankle sprain. Design In this randomized, double-blind, placebo-controlled trial, adolescents and adults with acute ankle sprain (N = 385) applied 4 g of gel containing 1% diclofenac/3% menthol (n = 117), 1% diclofenac (n = 112), 3% menthol (n = 77), or placebo (n = 75) four times daily. The primary outcome was the area under the curve of pain intensity (PI) on movement [0 (no pain) to 10 (extreme pain)] from 24 to 72 hours post-application (AUC1–3 days). Secondary outcomes included pain relief (PR); PI; time to onset of PR, meaningful PR, cooling, and complete recovery; PI difference; sum of PI difference; total PR; reduction in ankle swelling; and the patient’s global assessment of response to treatment. Results There were no statistically significant differences in AUC1–3 between 1% diclofenac/3% menthol and placebo, diclofenac, or menthol gels and no meaningful advantages of 1% diclofenac/3% menthol for any secondary outcome. There was a higher incidence of skin and application-site events with 1% diclofenac/3% menthol than with placebo or 1% diclofenac. Conclusion No significant improvement was observed with topical 1% diclofenac/3% menthol gel compared with placebo, 1% diclofenac, or 3% menthol gel in treating pain from ankle sprain. ClinicalTrials.Gov Identifier: NCT02100670
A Case of Anagrelide-Induced Nonischemic Cardiomyopathy in a Patient With Essential Thrombocythemia
Authors: Singh Pritpal 
Published: March 2017

Background: Anagrelide is an established treatment option for essential thrombocythemia (ET). Cardiovascular adverse events can occur with its use including heart failure and cardiomyopathy. Case Report: A 52-year-old African American male with ET presented with chest pain, shortness of breath, and dyspnea on exertion. His ET was managed with hydroxyurea 1500 mg by mouth twice a day and anagrelide 1 mg by mouth 3 times a day. The patient was receiving anagrelide for approximately 2 years prior to presentation. The patient’s platelet count was 2.07 × 105 cells/mm3. Transthoracic echocardiography revealed decreased left systolic dysfunction. Also, cardiac magnetic resonance imaging showed an increased left ventricle cavity size with severely depressed systolic dysfunction and an ejection fraction (EF) of 18%. Anagrelide therapy was discontinued and the patient was maintained on hydroxyurea for ET. Three months later, following treatment by a heart failure clinic, the patient’s EF was 55%. Five months after discontinuation, the patient improved from New York Heart Association (NYHA) class II to NYHA class I. Conclusion: A 52-year-old man with ET presented with an EF of 18% after 2 years of anagrelide therapy. His EF increased from 18% to 55% 3 months after discontinuation of anagrelide.
A Pilot Study for Antimicrobial Stewardship Post-Discharge: Avoiding Pitfalls at the Transitions of Care
Authors: Jones Justin M. , Leedahl Nathan D. , Losing Ashley , Carson Paul J. , Leedahl David D. 
Published: March 2017

Purpose: Lack of patient follow-up is a major concern during care transitions, and the role of an antimicrobial stewardship program (ASP) in assessing antimicrobial regimens after hospital discharge is not well described. We implemented an expanded ASP to include patients recently discharged from the hospital and measured its impact on inappropriate antimicrobial therapy 72 hours after inpatient culture data were finalized. Methods: A prospective cohort study was conducted at a 583-bed tertiary care center in the Upper Midwest of America. All patients discharged from our facility on antimicrobial therapy with pending culture results between February 3, 2016, and March 2, 2016, were included for review. If a pathogen nonsusceptible to all prescribed antimicrobials was identified post-discharge, a recommendation for therapy modification was communicated to the prescriber. Results: Thirty-eight patients discharged from our hospital on antimicrobial therapy with pending culture results were evaluated for intervention. When final culture susceptibilities were considered, 5 of 38 patients had been prescribed an inappropriate antimicrobial agent. An ASP pharmacist intervened on 4 of 5 patients, resulting in 3 of 5 patients transitioning to appropriate antimicrobial therapy. When compared to a historical cohort, our transitions-of-care ASP yielded a 3.6-fold increase in antimicrobial-related interventions among discharged patients while reducing inappropriate outpatient antimicrobial therapy by 39%. Conclusion: We believe this is the first pharmacist-driven ASP represented in the medical literature which evaluated all available inpatient culture data to serve patients discharged from the hospital. Antimicrobial stewardship for patients in care transitions may provide an opportunity to increase ASP interventions and reduce inappropriate antimicrobial therapy.