bluuebunny/crossref_metadata_2025_split huggingface dataset:
Adding nutrients to the biocontrol strain JK-SH007 promotes biofilm formation and improves resistance to stress
Authors: Fu Huanhuan , Chen Feifei , Liu Wanhui , Kong Weiliang , Wang Chaoen , Fang Xueqi , Ye Jianren 
Published: February 2020

AbstractBurkholderia pyrrocinia JK-SH007 is an important biocontrol strain for the prevention and treatment of poplar canker disease. Its powerful biocontrol function is inseparable from its successful colonization of poplar trees. Bacterial biofilms can ensure the long-term colonization of a host. To explore the mechanism of action of biofilms in the biocontrol process, we manipulated various exogenous factors to explore the morphology of the JK-SH007 biofilm in vitro. The addition of glycerol and MgSO4 to TSB medium stimulated biofilm production, increased the resistance of JK-SH007 to disease, enhanced the survival of JK-SH007 in nutrient-poor environments and maintained the antagonistic ability of JK-SH007 against the poplar canker pathogen. Therefore, we constructed and optimized a biofilm-forming system to produce a large number of stable JK-SH007 biofilms. The optimized system showed that the optimal incubation time for JK-SH007 biofilm formation was 14 h, the optimal temperature of the static culture was 25 °C, and the optimal pH was 5. The optimal medium for biofilm formation was TSB medium, 1% glycerol and 50 mM MgSO4. RT-qPCR experiments showed that an increase in the expression of the suhB gene promoted JK-SH007 biofilm formation, while an increase in the expression level of the ropN gene inhibited JK-SH007 biofilm formation. The possible mechanism by which JK-SH007 was inhibited by biofilm formation under natural culture was revealed. These results indicate the importance of adding nutrients to JK-SH007 biocides produced on a commercial scale. This is the first report of JK-SH007 producing a long-lasting biofilm that guarantees antagonism.
Robust energy disaggregation using appliance-specific temporal contextual information
Authors: Schirmer Pascal Alexander , Mporas Iosif , Sheikh-Akbari Akbar 
Published: February 2020

AbstractAn extension of the baseline non-intrusive load monitoring approach for energy disaggregation using temporal contextual information is presented in this paper. In detail, the proposed approach uses a two-stage disaggregation methodology with appliance-specific temporal contextual information in order to capture time-varying power consumption patterns in low-frequency datasets. The proposed methodology was evaluated using datasets of different sampling frequency, number and type of appliances. When employing appliance-specific temporal contextual information, an improvement of 1.5% up to 7.3% was observed. With the two-stage disaggregation architecture and using appliance-specific temporal contextual information, the overall energy disaggregation accuracy was further improved across all evaluated datasets with the maximum observed improvement, in terms of absolute increase of accuracy, being equal to 6.8%, thus resulting in a maximum total energy disaggregation accuracy improvement equal to 10.0%.
Multipliers for Jacobi expansions in the Hardy spaces
Authors: Xue Zhong , Shi Yehao , Li Zhongkai 
Published: February 2020

AbstractThe purpose of the paper is to study the coefficient multipliers of the Hardy spaces $H^{p}$Hp associated with Jacobi expansions of exponential type. The main results are about the boundedness from $H^{p}$Hp to $\ell ^{q}$ℓq of the multiplier operators in terms of Jacobi expansions of exponential type for (i) $p=1$p=1, $2\le q<\infty $2≤q<∞; (ii) $\gamma ( \alpha ,\beta )^{-1}< p<1\le q<\infty $γ(α,β)−1<p<1≤q<∞, under appropriate conditions, where $\gamma (\alpha ,\beta )\in (1,\infty ]$γ(α,β)∈(1,∞] is a number depending on the parameters of the Jacobi system.
Separating the signal from the noise in metagenomic cell-free DNA sequencing
Authors: Burnham Philip , Gomez-Lopez Nardhy , Heyang Michael , Cheng Alexandre Pellan , Lenz Joan Sesing , Dadhania Darshana M. , Lee John Richard , Suthanthiran Manikkam , Romero Roberto , De Vlaminck Iwijn 
Published: February 2020

Abstract
Background
Cell-free DNA (cfDNA) in blood, urine, and other biofluids provides a unique window into human health. A proportion of cfDNA is derived from bacteria and viruses, creating opportunities for the diagnosis of infection via metagenomic sequencing. The total biomass of microbial-derived cfDNA in clinical isolates is low, which makes metagenomic cfDNA sequencing susceptible to contamination and alignment noise.

Results
Here, we report low biomass background correction (LBBC), a bioinformatics noise filtering tool informed by the uniformity of the coverage of microbial genomes and the batch variation in the absolute abundance of microbial cfDNA. We demonstrate that LBBC leads to a dramatic reduction in false positive rate while minimally affecting the true positive rate for a cfDNA test to screen for urinary tract infection. We next performed high-throughput sequencing of cfDNA in amniotic fluid collected from term uncomplicated pregnancies or those complicated with clinical chorioamnionitis with and without intra-amniotic infection.

Conclusions
The data provide unique insight into the properties of fetal and maternal cfDNA in amniotic fluid, demonstrate the utility of cfDNA to screen for intra-amniotic infection, support the view that the amniotic fluid is sterile during normal pregnancy, and reveal cases of intra-amniotic inflammation without infection at term.
Uncovering a hidden diversity: optimized protocols for the extraction of dsDNA bacteriophages from soil
Authors: Göller Pauline C. , Haro-Moreno Jose M. , Rodriguez-Valera Francisco , Loessner Martin J. , Gómez-Sanz Elena 
Published: February 2020

Abstract
Background
Bacteriophages (phages) are the most numerous biological entities on Earth and play a crucial role in shaping microbial communities. Investigating the bacteriophage community from soil will shed light not only on the yet largely unknown phage diversity, but may also result in novel insights towards their functioning in the global biogeochemical nutrient cycle and their significance in earthbound ecosystems. Unfortunately, information about soil viromes is rather scarce compared to aquatic environments, due to the heterogeneous soil matrix, which rises major technical difficulties in the extraction process. Resolving these technical challenges and establishing a standardized extraction protocol is, therefore, a fundamental prerequisite for replicable results and comparative virome studies.

Results
We here report the optimization of protocols for the extraction of phage DNA from agricultural soil preceding metagenomic analysis such that the protocol can equally be harnessed for phage isolation. As an optimization strategy, soil samples were spiked with Listeria phage A511 (Myovirus), Staphylococcus phage 2638AΔLCR (Siphovirus) and Escherichia phage T7 (Podovirus) (each 106 PFU/g soil). The efficacy of phage (i) elution, (ii) filtration, (iii) concentration and (iv) DNA extraction methods was tested. Successful extraction routes were selected based on spiked phage recovery and low bacterial 16S rRNA gene contaminants. Natural agricultural soil viromes were then extracted with the optimized methods and shotgun sequenced. Our approach yielded sufficient amounts of inhibitor-free viral DNA for shotgun sequencing devoid of amplification prior library preparation, and low 16S rRNA gene contamination levels (≤ 0.2‰). Compared to previously published protocols, the number of bacterial read contamination was decreased by 65%. In addition, 379 novel putative complete soil phage genomes (≤ 235 kb) were obtained from over 13,000 manually identified viral contigs, promising the discovery of a large, previously inaccessible viral diversity.

Conclusion
We have shown a considerably enhanced extraction of the soil phage community by protocol optimization that has proven robust in both culture-dependent as well as through viromic analyses. Our huge data set of manually curated soil viral contigs substantially increases the amount of currently available soil virome data, and provides insights into the yet largely undescribed soil viral sequence space.
The experience of sudden loss of a colleague or neighbor following the MH17 plane crash in the Ukraine: a qualitative interview study
Authors: Yzermans C. Joris , Baliatsas Christos , Van der Velden Peter G. , Dückers Michel L. A. 
Published: February 2020

Abstract
Background
The literature on loss and traumatic grief after disasters provides findings on the impact of losing a partner, child or close friend on partners, parents and friends. However, little attention has been given to the broader everyday social environment of deceased persons. The present study constitutes a qualitative exploration of the impact on colleagues and neighbors following the MH17 airplane disaster in the Ukraine, July 2014.

Methods
Eighteen structured interviews were conducted with eleven colleagues and seven neighbors. The interviews focused on the relation(−ship) with the victim, on the disaster, the first days and weeks hereafter, and the status one and a half years after the crash.

Results
Especially for colleagues and neighbors with an intensive, long-lasting relation and ties based on friendship and trust, the impact of the sudden death was large. The MH17 disaster was considered a special event, different from, for instance, an “ordinary” accident. It was actively covered by the media and a recurrent conversation topic in meetings with other people. In the workplace, employers and less involved colleagues show empathy for a limited period of time, but grief has an expiration date – a moment where it gets more difficult to others or influences productivity. The appreciation for rituals in the workplace or in the neighborhood varies.

Conclusions
The interviews indicate a “hierarchy of bereavement”. People are not part of the typical inner circle, but feel “affected” and experience little social recognition and acknowledgment, particularly in the longer term. As such, colleagues and neighbors may experience loneliness and/or isolation. Generally, there is no need to consult a practitioner, despite the experience of health complaints such as intrusive dreaming and lack of sleep.
Variability in lutetium-177 SPECT quantification between different state-of-the-art SPECT/CT systems
Authors: Peters Steffie M. B. , Meyer Viol Sebastiaan L. , van der Werf Niels R. , de Jong Nick , van Velden Floris H. P. , Meeuwis Antoi , Konijnenberg Mark W. , Gotthardt Martin , de Jong Hugo W. A. M. , Segbers Marcel 
Published: February 2020

Abstract
Background
Quantitative SPECT imaging in targeted radionuclide therapy with lutetium-177 holds great potential for individualized treatment based on dose assessment. The establishment of dose-effect relations requires a standardized method for SPECT quantification. The purpose of this multi-center study is to evaluate quantitative accuracy and inter-system variations of different SPECT/CT systems with corresponding commercially available quantitative reconstruction algorithms. This is an important step towards a vendor-independent standard for quantitative lutetium-177 SPECT.

Methods
Four state-of-the-art SPECT/CT systems were included: Discovery™ NM/CT 670Pro (GE Healthcare), Symbia Intevo™, and two Symbia™ T16 (Siemens Healthineers). Quantitative accuracy and inter-system variations were evaluated by repeatedly scanning a cylindrical phantom with 6 spherical inserts (0.5 – 113 ml). A sphere-to-background activity concentration ratio of 10:1 was used. Acquisition settings were standardized: medium energy collimator, body contour trajectory, photon energy window of 208 keV (± 10%), adjacent 20% lower scatter window, 2 × 64 projections, 128 × 128 matrix size, and 40 s projection time. Reconstructions were performed using GE Evolution with Q.Metrix™, Siemens xSPECT Quant™, Siemens Broad Quantification™ or Siemens Flash3D™ algorithms using vendor recommended settings. In addition, projection data were reconstructed using Hermes SUV SPECT™ with standardized reconstruction settings to obtain a vendor-neutral quantitative reconstruction for all systems. Volumes of interest (VOI) for the spheres were obtained by applying a 50% threshold of the sphere maximum voxel value corrected for background activity. For each sphere, the mean and maximum recovery coefficient (RCmean and RCmax) of three repeated measurements was calculated, defined as the imaged activity concentration divided by the actual activity concentration. Inter-system variations were defined as the range of RC over all systems.

Results
RC decreased with decreasing sphere volume. Inter-system variations with vendor-specific reconstructions were between 0.06 and 0.41 for RCmean depending on sphere size (maximum 118% quantification difference), and improved to 0.02–0.19 with vendor-neutral reconstructions (maximum 38% quantification difference).

Conclusion
This study shows that eliminating sources of possible variation drastically reduces inter-system variation in quantification. This means that absolute SPECT quantification for 177Lu is feasible in a multi-center and multi-vendor setting; however, close agreement between vendors and sites is key for multi-center dosimetry and quantitative biomarker studies.
Iliac Crest Bone Grafting for the Management of Anterior Shoulder Instability in Patients with Glenoid Bone Loss: a Systematic Review of Contemporary Literature
Authors: Malahias Michael-Alexander , Chytas Dimitrios , Raoulis Vasileios , Chronopoulos Efstathios , Brilakis Emmanouil , Antonogiannakis Emmanouil 
Published: February 2020

Abstract
Background
A number of clinical trials have been published assessing the role of iliac crest bone grafting for the management of recurrent anterior instability with glenoid bone loss in contemporary practice. We therefore performed a systematic review of contemporary literature to examine the effect of iliac crest bone grafting on postoperative outcomes of these patients. Our hypothesis is that contemporary iliac crest bone block techniques are associated with low reoperation and complication rates combined with satisfactory functional results.

Methods
The US National Library of Medicine (PubMed/MEDLINE), the Cochrane Database of Systematic Reviews, and EMBASE were searched between January 2008 and December 2019 for relevant publications.

Results
Following the application of the inclusion-exclusion criteria, nine articles were found eligible for our analysis. In total, 261 patients (mean age range, 25.5–37.5 years; mean follow-up range, 20.6–42 months) were included in the studies of the current review. The mean modified Coleman score was 48.6 (range 37–65), indicating an overall low-to-moderate methodological quality. In the short term, the overall all-cause reoperation rate was 6.1%, while the rate of recurrent instability was 4.8%. The graft non-union rate was 2.2%, while the rate of osteolysis, graft fracture, and infection was 0.4%, 0.9%, and 1.7%, respectively. Finally, hardware-related complications, such as screw breakage or symptomatic mechanical irritation around the screw insertion, occurred in 3.9% of the patients.

Conclusions
Iliac crest bone block techniques in contemporary practice are safe and effective in the short-term (< 4 years) follow-up for the management of anterior shoulder instability with substantial glenoid bone deficiency. However, further studies of higher quality and longer follow-up are required to establish the therapeutic value of these techniques as well as to clarify whether there are differences in the outcomes of arthroscopic and open iliac crest bone block procedures.
Impact of bottle size on in-home consumption of wine: feasibility and acceptability randomised cross-over study
Authors: Mantzari Eleni , Galloway Catherine , Hollands Gareth , Pechey Rachel , Zupan Zorana , Pilling Mark , Marteau Theresa 
Published: February 2020

AbstractBackgroundReducing alcohol consumption across populations would prevent many non-communicable diseases. Large packages increase food and non-alcoholic drink consumption and large glasses increase wine consumption. Smaller bottles may reduce alcohol consumption but their impact is uncertain. This study aims to (i) explore the feasibility and acceptability of conducting a large-scale randomised study to assess the impact of bottle size on in-home wine consumption and (ii) estimate the effect size and variance of the intervention on consumption to inform the design of future studies.MethodsCross-over randomised study in which 16 households in Cambridge, England, consuming at least two 750-ml bottles of wine each week, received a pre-set volume of wine biweekly for 4 weeks, in 750-ml and 375-ml bottles, in random order. Consumption was assessed by recording the number of empty and partially full bottles at the end of each biweekly period. At the end of the study, household representatives were interviewed about their experiences of participating in the study.ResultsThe study procedures proved feasible. Comparable to similar trials, 14% of identified eligible households (18/125) consented to participate in the study. Attrition between consent and study completion was 11% (2/18) and 0% between study periods and 13% of households (2/16) correctly identified the study aim. The study procedures were considered acceptable. After adjusting for guest and out-of-home consumption, the difference in consumption between the 750-ml (3385.2 ml; SD = 1698.5) and 375-ml bottles (3376.7 ml; SD = 1719.0) was 8.4 ml (SD = 1235.4; 95%CI − 596.9, 613.8). Results suggest a possible order effect, with households receiving the 375-ml bottles first consuming more wine out of the 750-ml bottles and vice versa. This might also reflect an increase in consumption with study duration. Households receiving the 375-ml bottles first (6315.9 ml; SD = 3293.5) also drank less wine overall than those receiving the 750-ml bottles first (7335.4 ml; SD = 3735.4).DiscussionThe findings support the feasibility and acceptability of running a large-scale randomised study to assess the impact of bottle size on in-home wine consumption. Due to the heterogeneous patterning of results, a future study will be powered using the variance observed in the current study to detect a meaningful reduction of 250 ml of wine when consumed from smaller compared with larger bottles.Trial registrationOpen Science Framework (OSF):rmk43; May 23, 2017.
A Phytopharmacological review of a Mediterranean plant: Lavandula stoechas L
Authors: Ez zoubi Yassine , Bousta Dalila , Farah Abdellah 
Published: February 2020

AbstractThe Mediterranean region is characterized by a diverse vegetation cover, and theLavandulagenus is one of the most important medicinal and aromatic plants in this region. It has been used in traditional medicine as a treatment for anxiety and insomnia and to improve sleep quality for a long history. Lavender is commonly used in perfumes, soaps, bath powders, and scented sachets. It can flavor teas or food even at low concentrations. Several ethnopharmacological studies have demonstrated its use in treating several diseases; it has anti-inflammatory, antioxidant, antispasmodic, sedative, insecticidal, antimicrobial and antifungal activities. This paper reviews the geographical distribution, traditional uses, chemical composition, and pharmacological activities of theLavandula stoechas.
The development of PROmunication: a training-tool for clinicians using patient-reported outcomes to promote patient-centred communication in clinical cancer settings
Authors: Skovlund Pernille C. , Ravn Sissel , Seibaek Lene , Thaysen Henriette Vind , Lomborg Kirsten , Nielsen Berit Kjærside 
Published: February 2020

Abstract
Background
The value of using real-time patient-reported outcome (PRO) measures in cancer communication has gained attention both in the clinic and in research. Despite this, no internationally accepted guidelines or training programs for clinicians on how to engage in patient-centred communication based on PROs exist. Lack of training may complicate implementation and systematic use of PROs in the clinic. We aimed to develop a short and feasible manual and training session in PRO-based dialogue rooted in patient-centred communication, coined PROmunication.

Methods
PROmunication was implemented in two studies using PROs in different clinical cancer settings. We interviewed clinicians twice during the development phase. First, adopting a clinical perspective, they provided ideas for content, length and structure of the training session and the manual. Second, they approved the draft of the manual with minor adjustments on how to document clinician-patient communication. The final version of the PROmunication tool was built on clinicians’ input, theory on patient-centred communication, a literature review, and didactic considerations.

Results
The one-page manual gave clinicians a brief and clear overview of how to prepare for, undergo and document a PRO-based consultation. Illustrations and verbal phrases were offered to operationalize and facilitate patient-centred communication. The training session included elements like evidence-based knowledge about the rationale, benefits and challenges of using PROs and comprised theory, experimental training and instructions for the use of the manual in clinical practice. Ad hoc training and feedback in the clinic followed the training session.

Conclusions
This paper presents the development of a short, theory-driven manual and training session intended to support and engage clinicians in PRO-based dialogue leading to patient-centred communication. Further testing of the tool is necessary and adjustments may be required if the PROmunication tool should be applied in other clinical settings were patients are seen regularly. An evaluation of the tool is planned to be performed in future studies. Training in PROmunication may further systematic and consistent use of PRO data in the consultation, leading to patient-centred consultations and increased patient involvement.
The GhREV transcription factor regulate the development of shoot apical meristem in cotton (Gossypium hirsutum)
Authors: YANG Doudou , Jing AN , Fangjun LI , Egrinya ENEJI A. , Xiaoli TIAN , Zhaohu LI 
Published: February 2020

AbstractBackgroundManual topping is a routine agronomic practice for balancing the vegetative and reproductive growth of cotton (Gossypium hirsutum) in China, but its cost-effectiveness has decreased over time. Therefore, there is an urgent need to replace manual topping with new approaches, such as biological topping. In this study, we examined the function of GhREV transcription factors (a class III homeodomain-leucine zipper family, HD-ZIP III) in regulating the development of shoot apical meristem (SAM) in cotton with the purpose of providing candidate genes for biological topping of cotton in the future.ResultsWe cloned four orthologous genes ofAtREVin cotton, namelyGhREV1,GhREV2,GhREV3, andGhREV4. All theGhREVsexpressed in roots, stem, leaves, and SAM. Compared withGhREV1andGhREV3, the expression level ofGhREV2andGhREV4was higher in the SAM. However, only GhREV2 had transcriptional activity. GhREV2 is localized in the nucleus; and silencing it via virus-induced gene silencing (VIGS) produced an abnormal SAM. Two key genes, GhWUSA10 and GhSTM, which involved in regulating the development of plant SAM, showed about 50% reduction in their transcripts in VIGS-GhREV2plants.ConclusionGhREV2 positively regulates the development of cotton SAM by regulatingGhWUSA10andGhSTM potentially.