bluuebunny/crossref_metadata_2025_split huggingface dataset:
Elevated CO2-induced changes in mesophyll conductance and anatomical traits in wild type and carbohydrate-metabolism mutants of Arabidopsis
Authors: Mizokami Yusuke , Sugiura Daisuke , Watanabe Chihiro K A , Betsuyaku Eriko , Inada Noriko , Terashima Ichiro 
Published: April 2019

AbstractDecreases in photosynthetic rate, stomatal conductance (gs), and mesophyll conductance (gm) are often observed under elevated CO2 conditions. However, which anatomical and/or physiological factors contribute to the decrease in gm is not fully understood. Arabidopsis thaliana wild-type and carbon-metabolism mutants (gwd1, pgm1, and cfbp1) with different accumulation patterns of non-structural carbohydrates were grown at ambient (400 ppm) and elevated (800 ppm) CO2. Anatomical and physiological traits of leaves were measured to investigate factors causing the changes in gm and in the mesophyll resistance (expressed as the reciprocal of mesophyll conductance per unit chloroplast surface area facing to intercellular space, Sc/gm). When grown at elevated CO2, all the lines showed increases in cell wall mass, cell wall thickness, and starch content, but not in leaf thickness. gm measured at 800 ppm CO2 was significantly lower than at 400 ppm CO2 in all the lines. Changes in Sc/gm were associated with thicker cell walls rather than with excess starch content. The results indicate that the changes in gm and Sc/gm that occur in response to elevated CO2 are independent of non-structural carbohydrates, and the cell wall represents a greater limitation factor for gm than starch.
UniverseMachine: The correlation between galaxy growth and dark matter halo assembly from z = 0−10
Authors: Behroozi Peter , Wechsler Risa H , Hearin Andrew P , Conroy Charlie 
Published: April 2019

ABSTRACTWe present a method to flexibly and self-consistently determine individual galaxies’ star formation rates (SFRs) from their host haloes’ potential well depths, assembly histories, and redshifts. The method is constrained by galaxies’ observed stellar mass functions, SFRs (specific and cosmic), quenched fractions, ultraviolet (UV) luminosity functions, UV–stellar mass relations, IRX–UV relations, auto- and cross-correlation functions (including quenched and star-forming subsamples), and quenching dependence on environment; each observable is reproduced over the full redshift range available, up to 0 < z < 10. Key findings include the following: galaxy assembly correlates strongly with halo assembly; quenching correlates strongly with halo mass; quenched fractions at fixed halo mass decrease with increasing redshift; massive quenched galaxies reside in higher-mass haloes than star-forming galaxies at fixed galaxy mass; star-forming and quenched galaxies’ star formation histories at fixed mass differ most at z < 0.5; satellites have large scatter in quenching time-scales after infall, and have modestly higher quenched fractions than central galaxies; Planck cosmologies result in up to 0.3 dex lower stellar – halo mass ratios at early times; and, none the less, stellar mass–halo mass ratios rise at z > 5. Also presented are revised stellar mass – halo mass relations for all, quenched, star-forming, central, and satellite galaxies; the dependence of star formation histories on halo mass, stellar mass, and galaxy SSFR; quenched fractions and quenching time-scale distributions for satellites; and predictions for higher-redshift galaxy correlation functions and weak lensing surface densities. The public data release (DR1) includes the massively parallel (>105 cores) implementation (the UniverseMachine), the newly compiled and remeasured observational data, derived galaxy formation constraints, and mock catalogues including lightcones.
DOGMA: a web server for proteome and transcriptome quality assessment
Authors: Kemena Carsten , Dohmen Elias , Bornberg-Bauer Erich 
Published: April 2019

Abstract
Even in the era of next generation sequencing, in which bioinformatics tools abound, annotating transcriptomes and proteomes remains a challenge. This can have major implications for the reliability of studies based on these datasets. Therefore, quality assessment represents a crucial step prior to downstream analyses on novel transcriptomes and proteomes. DOGMA allows such a quality assessment to be carried out. The data of interest are evaluated based on a comparison with a core set of conserved protein domains and domain arrangements. Depending on the studied species, DOGMA offers precomputed core sets for different phylogenetic clades. We now developed a web server for the DOGMA software, offering a user-friendly, simple to use interface. Additionally, the server provides a graphical representation of the analysis results and their placement in comparison to publicly available data. The server is freely available under https://domainworld-services.uni-muenster.de/dogma/. Additionally, for large scale analyses the software can be downloaded free of charge from https://domainworld.uni-muenster.de.
Anxiety Sensitivity and Distress Tolerance in Smokers: Relations With Tobacco Dependence, Withdrawal, and Quitting Success†
Authors: Schlam Tanya R , Baker Timothy B , Smith Stevens S , Cook Jessica W , Piper Megan E 
Published: April 2019

Abstract

Introduction
This study examined relations of two affective vulnerabilities, high anxiety sensitivity (AS) and low distress tolerance (DT), with tobacco dependence, withdrawal, smoking cessation, and pharmacotherapy response.

Methods
Smokers interested in quitting (N = 1067; 52.2% female, 28.1% African American) were randomized to 12 weeks of nicotine patch, nicotine patch plus nicotine lozenge, or varenicline. Baseline questionnaires assessed AS, DT, negative affect, anxiety, and dependence. Withdrawal was assessed the first-week post-quit via ecological momentary assessment.

Results
DT, but not AS, predicted biochemically confirmed point-prevalence abstinence at multiple endpoints: weeks 4, 12, 26, and 52 post-quit (ps &lt; .05); relations remained after controlling for pharmacotherapy treatment, AS, baseline negative affect, anxiety, and anxiety disorder history (ps &lt; .05). Additional exploratory analyses examining week 4 abstinence showed DT predicted abstinence (p = .004) even after controlling for baseline dependence, post-quit withdrawal (craving and negative affect), and treatment. DT moderated treatment effects on abstinence in exploratory analyses (interaction p = .025); those with high DT were especially likely to be abstinent at week 4 with patch plus lozenge versus patch alone.

Conclusions
DT, but not AS, predicted abstinence over 1 year post-quit (higher DT was associated with higher quit rates), with little overlap with other affective measures. DT also predicted early abstinence independent of dependence and withdrawal symptoms. Results suggest low DT may play a meaningful role in motivation to use tobacco and constitute an additional affective risk factor for tobacco cessation failure beyond negative affect or clinical affective disorders.

Implications
People in a stop-smoking study who reported a greater ability to tolerate distress were more likely to quit smoking and remain smoke-free 1 year later. Smokers with high DT were more likely to be smoke-free 4 weeks after their target quit day if they received nicotine patch plus nicotine lozenge rather than nicotine patch alone.

Trial Registration
NCT01553084.
Differences in Magnitude of Cue Reactivity Across Durations of Smoking History: A Meta-analysis
Authors: Karelitz Joshua L 
Published: April 2019

AbstractBackgroundCue-elicited craving may vary due to duration of smoking history, increasing as more years of smoking strengthen associations between nicotine intake and cues. However, research on this relationship is virtually absent. This project assessed the relationship between cue reactivity and years of smoking.MethodsData from 53 studies (68 effect sizes) were analyzed. Eligible studies were those measuring self-reported craving following cue exposure in nontreatment seeking smokers and reporting mean years smoking. Preliminary subgroup analyses identified methodological factors influencing cue-reactivity effect sizes; primary meta-regression analysis assessed differences across years smoking; exploratory analyses assessed potential for ceiling effects.ResultsEffect sizes varied due to abstinence requirement and cue presentation modality, but not dependence severity. Unexpectedly, meta-regression analysis revealed a decline in effect sizes across years smoking. Exploratory analyses suggested declines may have been due to a ceiling effect in craving measurement for those with longer smoking histories—more experienced smokers reported higher levels of craving at baseline or following neutral cue exposure, but all reported similar levels of craving after smoking cue exposure.ConclusionsMethodological factors and duration of smoking history influenced measurement of cue reactivity. Highlighted were important relationships between years smoking and magnitude of cue reactivity, depending on use of baseline or neutral cue comparisons. Further research is needed to assess differences in cue reactivity due to duration of smoking history using participant-level data, directly testing for ceiling effects. In addition, cue-reactivity studies are needed across young adults to assess onset of associations between nicotine intake and cues.ImplicationsThis meta-analysis project contributes to the cue-reactivity literature by reporting on the previously ignored relationship between duration of smoking history and magnitude of cue-elicited craving. Results suggest that declines in cue-reactivity effect sizes across years of smoking may have been due to study-level methodological factors, but not due to differences in sample-level dependence severity. Cue-reactivity effect sizes were stable across years of smoking in studies using a neutral cue comparison but declined sharply in studies when baseline assessment (typically coupled with an abstinence requirement) was used.
Multimodal Management of a Ruptured Right Medial Parietal Arteriovenous Malformation: 2-Dimensional Operative Video
Authors: Aldea Sorin , Consoli Arturo , Rodesch Georges , Gaillard Stephan 
Published: April 2019

Abstract
Arteriovenous malformations (AVM) of the medial surface of the cerebral hemispheres are challenging because of the limited access to the interhemispheric fissure, the presence of the bridging veins, and the difficult control of arterial feeders and deep venous drainage. We present a 20-yr-old patient with a grade 3 Spetzler Martin ruptured right medial parietal AVM revealed by headaches, left hemiparesis, and ataxia. We highlight the importance of a detailed and selective study of AVM angioarchitecture with new sequences as XperCT (Philips Medical) viewing which permits a better understanding of the anatomy and pathology and a better therapeutical planning. Selective embolization of arterial feeders with Glubran2 (GEM) allows a better control of selected sectors of the AVM which may be difficult to access at surgery. This type of planning is especially important when the AVM is in close relationship with an important sulcus, as was the case of this patient whose AVM was adherent to the postcentral sulcus. We present the surgical nuances concerning patient positioning, craniotomy, AVM dissection, and resection. Early identification and interruption of the main arterial feeders facilitate further dissection. We discuss the timing of deep venous drainage interruption in AVMs with mixed superficial and deep venous drainage. The postoperative course was favorable and the postoperative angiogram showed complete resection of the AVM. At the last follow-up, the patient had only slight left ataxia. Multimodal management with planned selective embolization may facilitate microsurgical resection of AVMs. Given the retrospective nature of this report, informed consent was not required.
Keyhole Retrosigmoid Craniotomy for Resection of Pontine Juvenile Pilocytic Astrocytoma: 2-Dimensional Operative Video
Authors: Yağmurlu Kaan , Pomeraniec John , Norat Pedro , Kalani M Yashar S , Syed Hasan 
Published: April 2019

Abstract
Resection of intrinsic brainstem tumors is fraught with a high risk of morbidity. In select cases, however, complete tumor resection is possible and can result in long-term benefit to the patient. Informed consent for the operation was obtained. In this video, we illustrate the use of a keyhole retrosigmoid craniotomy for microsurgical resection of an exophytic juvenile pilocytic astrocytoma and highlight the nuances of opening the various fissures between the brainstem and the cerebellum to obtain a more direct view of the brainstem, mapping of the brainstem surface to avoid cranial nerve nuclei, use of safe entry zones to minimize injury to critical structures, and microsurgical technique used to operate within the substance of the brainstem. In general, navigation is used to optimize placement of craniotomy and size of bony opening, to delineate the superior to inferior extent of the tumor, and to confirm that the boundary between the tumor and the normal brainstem is reached at the depth. In general, the authors attempt surgical resection of brainstem tumors that are exophytic, have clear boundaries (signal on T1 postcontrast and T2 sequences denote similar tumor boundaries), do not encapsulate the basilar artery, and do not exhibit infiltration of the deep pontine fibers (as is the case with diffuse intrinsic pontine gliomas). In properly selected patients, surgery for brainstem tumor can result in good resection with preservation of neurological function. This patient developed subtle weakness of the face after surgery, which did not improve at 3 mo, but had preserved hearing function and no further neurological deficits.
The Effectiveness of Fluoroscopically Guided Cervical Transforaminal Epidural Steroid Injection for the Treatment of Radicular Pain; a Systematic Review and Meta-analysis
Authors: Conger Aaron , Cushman Daniel M , Speckman Rebecca A , Burnham Taylor , Teramoto Masaru , McCormick Zachary L 
Published: April 2019

AbstractObjectiveDetermine the effectiveness of fluoroscopically guided cervical transforaminal epidural steroid injection (CTFESI) for the treatment of radicular pain.DesignSystematic review and meta-analysis.SubjectsPersons aged ≥18 years with cervical radicular pain due to disc herniation or degenerative spondylosis.ComparisonSham, placebo procedure, or active standard of care treatment, excluding alternative versions of epidural steroid injection.OutcomesThe primary outcome measure was patient-reported improvement in pain of at least 50% from baseline, assessed four or more weeks after the treatment intervention. Secondary outcomes included validated functional assessment tools and avoidance of spinal surgery.MethodsRandomized or nonrandomized comparative studies and nonrandomized studies without internal control were included. Three reviewers independently assessed publications in the Medline, PubMed, and Cochrane databases up to July 2018. The Grades of Recommendation, Assessment, Development and Evaluation (GRADE) system was used to evaluate risk of bias and overall quality of evidence. A meta-analysis was conducted for comparative measures of effect and for within-group response rates if applicable.ResultsThere were no studies with an internal comparison group (control group) meeting the review’s definition of comparison group. Therefore, comparative measures of effect were not calculated. In cohort studies, pooled response rates were 48% (95% confidence interval [CI] = 34–61%) at one month and 55% (95% CI = 45–64%) at three months.ConclusionsApproximately 50% of patients experience ≥50% pain reduction at short- and intermediate-term follow-up after CTFESI. However, the literature is very low quality according the GRADE criteria, primarily due to a lack of studies with placebo/sham or active standard of care control comparison groups.
Traumatic childhood experiences and multiple dimensions of poor sleep among adult women
Authors: McWhorter Ketrell L , Parks Christine G , D’Aloisio Aimee A , Rojo-Wissar Darlynn M , Sandler Dale P , Jackson Chandra L 
Published: April 2019

Abstract

Study Objectives
Exposure to traumatic childhood experiences (TCEs) may contribute to poor sleep in adulthood. Previous studies have been limited to mainly investigating physical and sexual abuse and did not consider betrayal trauma, or whether the victim regarded the perpetrator as someone socially close to them, the age group at occurrence, and trauma-related distress/anxiety.

Methods
We used a large cohort of US women, 35–74 years old, enrolled in the Sister Study from 2003 to 2009. Self-reports of specific TCEs occurring before the age of 18 years included sexual, physical, and psychological/emotional trauma; natural disasters; major accidents; and household dysfunction. Participants self-reported average sleep duration (short: &lt;7 hours vs recommended: 7–9 hours), sleep onset latency (SOL) at least 30 vs less than 30 minutes, at least 3 night awakenings once asleep at least 3 times/week (Night awakenings [NA], yes vs no), and napping at least 3 vs less than 3 times/week.

Results
Among 40 082 women, 55% reported a TCE, with 82% reporting betrayal trauma. Compared to women reporting no TCE, women with any TCE were more likely to report short sleep (prevalence ratio [PR] = 1.08, [95% confidence interval (CI) = 1.04 to 1.11]), longer SOL (1.11, [1.06 to 1.16]), frequent NAs (1.06, [1.00 to 1.11]), and frequent napping (1.05, [0.99 to 1.12]). The relationship between experiencing any TCE and short sleep was stronger for TCEs by a perpetrator considered socially close vs not close (1.12, [1.09 to 1.16]), SOL (1.27, [1.22 to 1.33]), NA (1.20, [1.14 to 1.27]), and napping (1.24, [1.17 to 1.32]).

Conclusions
TCEs were associated with poor sleep in women with greater impact when the perpetrator was regarded as close. More research is warranted to better understand pathways between childhood trauma and sleep health in adulthood to develop effective interventions.
Origins of Afrotropical freshwater fishes
Authors: Lavoué Sébastien 
Published: April 2019

AbstractThe Afrotropics house a diverse freshwater ichthyofauna with > 3000 species, almost all of which are endemic. Recent progress in dated phylogenetics and palaeontology of several groups of Afrotropical freshwater fishes (AFFs) has allowed the testing of palaeoecology- and palaeogeography-based hypotheses explaining their early presence in Africa. Seven hypotheses were tested for 37 most-inclusive monophyletic groups of AFFs. Results indicated that ten lineages originated from direct, but asynchronous, marine-to-freshwater shifts. These lineages contribute < 2% to the current AFF species richness. Eleven lineages colonized the Afrotropics from the Orient after the Afro-Arabian plate collided with Eurasia in the early Oligocene. These lineages contribute ~20% to the total diversity. There are seven sister relationships between Afrotropical and Neotropical taxa. For only three of them (4% of the species diversity), the continental drift vicariance hypothesis was not rejected. Distributions of the other four younger trans-Atlantic lineages are better explained by post-drifting long-distance dispersal. In those cases, I discuss the possibility of dispersal through the Northern Hemisphere as an alternative to direct trans-Atlantic dispersal. The origins of ten AFF lineages, including the most species-rich Pseudocrenilabrinae (> 1100 species), are not yet established with confidence.
A web-based platform of nucleotide sequence alignments of plants
Authors: Santos Chiara , Carneiro João , Pereira Filipe 
Published: April 2019

AbstractIn recent years, a large number of nucleotide sequences have become available for plant species by the advent of massive parallel sequencing. The use of genomic data has been important for agriculture, food science, medicine or ecology. Despite the increasing amount of data, nucleotide sequences are usually available in public databases as isolated records with some descriptive information. Researchers interested in studying a wide range of specific plant families are forced to do multiple searches, sequence downloads, data curation and sequence alignments. In order to help researches overcoming these problems, we have built a comprehensive on-line resource of curated nucleotide sequence alignments for plant research, named PlantAligDB (available athttp://plantaligdb.portugene.com). The latest release incorporates 514 alignments with a total of 66,052 sequences from six important genomic regions:atpF-atpH,psbA-trnH,trnL,rbcL,matK and ITS. The alignments represent 223 plant families from a variety of taxonomic groups. The users can quickly search the database, download and visualize the curated alignments and phylogenetic trees using dynamic browser-based applications. Different measures of genetic diversity are also available for each plant family. We also provide the workflow script that allows the user to do the curation process, explaining the steps involved. Overall, the PlantAligDB provides a complete, quality checked and regularly updated collection of alignments that can be used in taxonomic, DNA barcoding, molecular genetics, phylogenetic and evolutionary studies.
Giraffe Translocation Population Viability Analysis
Authors: Lee Derek E. , Fienieg Elmar , Van Oosterhout Cock , Muller Zoe , Strauss Megan , Carter Kerryn D. , Scheijen Ciska P.J. , Deacon Francois 
Published: April 2019

ABSTRACTMost populations of giraffes have declined in recent decades, leading to the recent decision to upgrade the species to vulnerable status, and some subspecies to endangered. Translocations have been used as a conservation tool to re-introduce giraffes to previously occupied areas or establish new populations, but guidelines for founding populations are lacking. To provide general guidelines for translocation projects regarding feasibility, we simulated various scenarios of translocated giraffe populations to identify viable age and sex distributions of founding populations using Population Viability Analysis (PVA) implemented in Vortex software. We explored the parameter space for demography (population growth rates: λ = 1.001, 1.010, 1.024), and the genetic load (number of lethal equivalents: LE = 2.5, 6.29, 12.6), examining how variation in founding numbers (N = 5 to 80 females) and sex ratios (M:F = 0.1 to 0.5) affected 100-year probability of extinction and genetic diversity. We found that even very small numbers of founders (N ≤10 females) can appear to be successful in the first decades due to transient positive population growth, but with moderate population growth rate and moderate genetic load, long-term population viability (probability of extinction <0.01) was only achieved with ≥30 females and ≥3 males released. To maintain >95% genetic diversity of the source population in an isolated population, 50 females and 5 males are recommended to comprise the founding population. Sensitivity analyses revealed first-year survival and reproductive rate were the simulation parameters with the greatest proportional influence on probability of extinction and genetic diversity. These simulations highlight important considerations for translocation success, and data gaps including true genetic load in wild giraffe populations.