bluuebunny/crossref_metadata_2025 huggingface dataset:
In-hospital blood collection increases the rate of indeterminate results in interferon-gamma release assays
Authors: Osakabe Yuki , Yamaguchi Fumihiro , Suzuki Ayako , Kitano Haruka , Hiraiwa Mina , Shiratori Yo , Onozaki Shota , Nakamoto Mari , Kawamura Saori , Kosuge Miku , Atarashi Kenji , Cho Hidekazu , Shimizu Shohei , Fujishima Akira , Shikama Yusuke
Published: February 2022

Background:

The interferon (IFN)-γ release assay (IGRA) has recently been established as a method to evaluate the infection status of tuberculosis instead of the tuberculin skin test. However, indeterminate results can create challenges to interpretation. The IGRA has been available in Japan since 2005, including the recently launched QuantiFERON-TB Gold Plus (QFT-plus) assay.

Objectives:

The aim of this study was to investigate the clinical features and predictors of indeterminate results by the QFT-plus test in routine practice.

Methods:

This was a cross-sectional study of 1258 patients. Multivariate logistic regression models were employed to investigate the clinical factors related to indeterminate results by the QFT-plus.

Results:

Overall, 91.8% of results were found to be conclusive and 8.2% were indeterminate. The QFT-plus indeterminate results were predominantly due to a low level of IFN-γ production by mitogens. Multivariate analysis indicated that an indeterminate result was significantly associated with age, sex, corticosteroid use, autoimmune disease, and inpatient setting.

Conclusion:

Certain types of individuals are at higher risk of an indeterminate IGRA result. The QFT-plus test for hospitalized patients should be avoided as much as possible, and it is better to perform the test for those patients in outpatient settings.
New insights into hydrophobicity at nanostructured surfaces: Experiments and computational models
Authors: Macko Jan , Podrojková Natalia , Oriňaková Renata , Oriňak Andrej
Published: February 2022

This review deals with different aspects of hydrophobicity at nanostructured surfaces. Theoretical and geometric effects as well as those of surface feature geometry on hydrophobicity are explored in this article. This review includes surface modification methods used to change surface hydrophobicity and effect on adhesion of cells as nano substrate. A small chapter is devoted to hydrophobicity at self-assembled monolayers as a special type of nanostructured surface. To the different models describing hydrophobicity is devoted one up to dated chapter. Calculation methods including quantum, density functional theory, and molecular modeling bring novel perspectives to the study of hydrophobicity at nanostructured surfaces.
Reward Modulates Unconsciously Triggered Adaptive Control Processes
Authors: Diao Liuting , Li Wenping , Chang Wenhao , Ma Qingguo
Published: February 2022

Adaptive control (e.g., conflict adaptation) refers to dynamic adjustments of cognitive control processes in goal-directed behavior, which can be influenced by incentive rewards. Recently, accumulating evidence has shown that adaptive control processes can operate in the absence of conscious awareness, raising the question as to whether reward can affect unconsciously triggered adaptive control processes. Two experiments were conducted to address the question. In Experiment 1, participants performed a masked flanker-like priming task manipulated with high- and low-value performance-contingent rewards presented at the block level. In this experiment conflict awareness was manipulated by masking the conflict-inducing stimulus, and high- or low-value rewards were presented at the beginning of each block, and participants earned the reward contingent upon their responses in each trial. We observed a great conflict adaptation for high-value rewards in both conscious and unconscious conflict tasks, indicating reward-induced enhancements of consciously and unconsciously triggered adaptive control processes. Crucially, this effect still existed when controlling the stimulus-response repetitions in a rewarded masked Stroop-like priming task in Experiment 2. The results endorse the proposition that reward modulates unconsciously triggered adaptive control to conflict, suggesting that individuals may enable rewarding stimuli to dynamically regulate concurrent control processes based on previous conflict experience, regardless of whether the previous conflict was experienced consciously.
Shame, endorse, or remain silent?: State response to human rights violations in other countries
Authors: Zarpli Omer , Zengin Huseyin
Published: February 2022

Naming and shaming has been widely used by governments and non-governmental organizations to address human rights violations. Yet despite the prevalence of this foreign policy instrument, the question of when states publicly denounce norm-violators received relatively little scholarly attention. We examine this question in the context of China’s repression of its Uyghur minority. This case offers a unique opportunity to study not only when countries engage in naming and shaming but also when they explicitly defend or endorse rights violations. We analyze the official positions of 174 countries between 2019 and 2021. We find that while geopolitical alignment is a significant predictor of both shaming and defending, a nation’s strong trade links with China has a less straightforward effect. Similarly, while democracies are significantly less likely to defend China’s Uyghur policy, they are not more likely to denounce it. We also find that identity-related factors have a muted effect. The paper advances our understanding of a broader spectrum of government behavior vis-a-vis human rights violations in other countries, and has implications for the role of identity in inter-state shaming.
Effect of Lateral Retinacular Release on Medial Patellofemoral Ligament Reconstruction
Authors: Gallagher Brian W. , Mistretta Katherine L. , Abbasi Pooyan , Levine Richard G.
Published: February 2022

Background:

When performing a medial patellofemoral ligament (MPFL) reconstruction, surgeons may place the MPFL graft under higher than anatomic tension to minimize the chance of recurrent instability.

Purpose:

To investigate whether a lateral retinacular release (LRR) significantly decreases patellofemoral contact pressures after an overtensioned (OT) MPFL reconstruction.

Study Design:

Controlled laboratory study.

Methods:

Mean and peak pressure across the patellofemoral joint at 30°, 45°, and 60° of flexion was assessed in 14 cadaveric knee specimens with intact MPFL, transected MPFL, reconstructed MPFL with graft OT, and OT MPFL with LRR. The Wilcoxon signed rank test was used to determine differences across states, with W and C values calculated when possible.

Results:

Mean pressure decreased significantly after MPFL transection compared with intact at 30° (456.9 ± 116.8 vs 410.9 ± 109.4 N, P = .006, W < 7) and 45° (404.9 ± 91.7 vs 369.4 ± 85.3 N, P = .005, W < 5) and increased significantly from intact to OT graft at 30° (456.9 ± 116.8 vs 563.0 ± 11.2 N, P = .003, W < 7), 45° (404.9 ± 91.7 vs 481.4 ± 14.8 N, P = .005, W < 5), and 60° (272.9 ± 139.0 vs 367.0 ± 53.7 N, P = .007, W < 3). Peak pressure increased significantly between intact and OT graft at 30° (1364.0 ± 478.2 vs 2094.4 ± 619.8 N, P = .002, W < 9), 45° (1224.7 ± 491.5 vs 1676.7 ± 779.1 N, P = .005, W < 5), and 60° (1117.7 ± 566.8 vs 1604.2 ± 772.9 N, W < 3). In knees with significantly increased mean pressure after overtensioning, mean pressure increased by 23.3% (11/14 knees) at 30°, 18.3% (10/14 knees) at 45°, and 35.0% (10/14 knees) at 60°. Peak pressure increased significantly by 35.3% (30°), 25.2% (45°), and 29.3% (60°). A significant decrease in mean pressure, toward but not to baseline, was observed between the OT and LRR states at 30° (563.0 ± 11.2 vs 501.5 ± 9.3 N, W < 7) and 60° (367.0 ± 53.7 vs 302.0 ± 13.8 N, W < 5) and a decrease in peak pressure at 30° (2094.4 ± 619.8 vs 1886.5 ± 655.3 N; W < 9).

Conclusion:

LRR led to a statistically significant decrease in pressure across the patellofemoral joint in knees that demonstrated increased contact pressures after an OT MPFL graft.

Clinical Relevance:

LRR after an MPFL reconstruction in which the MPFL graft has been OT may help reduce patellofemoral contact pressures at the time of surgery.
Studying the Poetics of Violence: A Critical Take on the Selected Works of Dalit and Tribal Women Poets
Authors: Singh Anjali
Published: February 2022

Toni Morrison’s The Bluest Eye helped me to understand what it meant to be born black, poor woman in the USA. Her work gave me an ideal platform to explore what it means to be born a poor Dalit woman in contemporary India. In order to understand the layered connotation of the lives of Dalit women, I deliberated upon the selected poetry by Dalit and tribal women poets and came to the conclusion that apparent similarity between the two contexts comes under scanner and ends abruptly with the following comment by Bell Hook in her book Feminist Theory: From Margin to Centre. She writes, ‘when the child of two black parents is coming out of the womb the factor that is considered first is skin colour, then gender, because race and gender will determine that child’s fate’. On the contrary, a child of two parents from a lower caste will remain a low caste because caste is infallible and independent of the truce of fate-determining the skin colour that may redefine the gender experience. As a Telugu Dalit poet, Chillappa Swaroopa Rani laments, ‘Stamped with a low caste, I was born/that day it-self branded slut.’ Thus, the thrust of this article is not to bring forth the comparative study between the two contexts but to crystallize the issues of Dalit women as enunciated in their poetry and to engage with the nuances of gender and caste that punctuate their day-to-day lives. This article encompasses the post-colonial feminism theoretical framework that resists the universalization of feminist issues seen and perceived only from the ‘Euro-American feminists’ point of view and ignores the differences in race, ethnicity, regional diversity, etc., through which a woman experiences her gender biases. The selected Dalit poets are Rajni Tilak, Poonam Tushamed, Rajni Anuragi, Sushila Takbhure, Kunti and Nirmal Putul. The main issues expressed in a tribal poet’s works remain Jal-Jungle-Zameen, human trafficking, a lack of legal documentation, witch hunting, etc., while Dalit poets stress on police atrocities, a lack of basic amenities, a lack of quality schools for their children, a lack of access to health care, the domineering influence of patriarchy that punctures their private and public domain, etc.
Common Characteristics and Clinical Management Recommendations for Juvenile Recurrent Parotitis: A 10‐Year Tertiary Center Experience
Authors: Benaim Ezer , Fan Timothy , Dash Anwesh , Gillespie M. Boyd , McLevy‐Bazzanella Jennifer
Published: February 2022

Objective

Juvenile recurrent parotitis (JRP) is a rare disease that may adversely affect normal development and quality of life. The objective of this study was to report on the demographics, characteristics, and treatment outcomes of JRP and to offer evidence‐based management recommendations.

Study Design

Retrospective review.

Setting

A single tertiary care pediatric teaching hospital.

Methods

Medical records, imaging studies, and laboratory findings over a 10‐year period were retrospectively collected and reviewed, resulting in 41 patients with JRP between the ages of 8 months and 16 years.

Results

Black males aged 2 to 8 years were most commonly affected by JRP. Overall, 18 (44%) patients received ≥3 antibiotics, and 17 (42%) underwent sialendoscopy for treatment. Over 75% of patients had no JRP recurrences after 3 sialendoscopies. The most common imaging approach was computed tomography (42%), and the most frequent laboratory results were elevated amylase (83%) and C‐reactive protein (82%). Atopy (61%) and excess weight (42%) were routinely associated with JRP, especially in severe cases.

Conclusion

JRP workup and treatment plans should begin with the least burdening modalities, including over‐the‐counter analgesics, minimal laboratory studies in the acute phase, and ultrasonography over computed tomography. Clindamycin is an effective initial antibiotic of choice, and severe recurrences may be controlled with sialendoscopy. Optimizing the health of patients with JRP includes managing comorbidities, especially of atopic and overweight origins, which are associated with more severe cases.
Defects in mucosal immunity and nasopharyngeal dysbiosis in HSC-transplanted SCID patients with IL2RG/JAK3 deficiency
Authors: Goncalves Pedro , Doisne Jean-Marc , Eri Toshiki , Charbit Bruno , Bondet Vincent , Posseme Celine , Llibre Alba , Casrouge Armanda , Lenoir Christelle , Neven Bénédicte , Duffy Darragh , Fischer Alain , Di Santo James P.
Published: February 2022

Both innate and adaptive lymphocytes have critical roles in mucosal defense that contain commensal microbial communities and protect against pathogen invasion. Here we characterize mucosal immunity in patients with severe combined immunodeficiency (SCID) receiving hematopoietic stem cell transplantation (HSCT) with or without myeloablation. We confirmed that pretransplant conditioning had an impact on innate (natural killer and innate lymphoid cells) and adaptive (B and T cells) lymphocyte reconstitution in these patients with SCID and now show that this further extends to generation of T helper 2 and type 2 cytotoxic T cells. Using an integrated approach to assess nasopharyngeal immunity, we identified a local mucosal defect in type 2 cytokines, mucus production, and a selective local immunoglobulin A (IgA) deficiency in HSCT-treated SCID patients with genetic defects in IL2RG/GC or JAK3. These patients have a reduction in IgA-coated nasopharyngeal bacteria and exhibit microbial dysbiosis with increased pathobiont carriage. Interestingly, intravenous immunoglobulin replacement therapy can partially normalize nasopharyngeal immunoglobulin profiles and restore microbial communities in GC/JAK3 patients. Together, our results suggest a potential nonredundant role for type 2 immunity and/or of local IgA antibody production in the maintenance of nasopharyngeal microbial homeostasis and mucosal barrier function.
Metalloproteinase inhibition reduces AML growth, prevents stem cell loss, and improves chemotherapy effectiveness
Authors: Pirillo Chiara , Birch Flora , Tissot Floriane S. , Anton Sara Gonzalez , Haltalli Myriam , Tini Valentina , Kong Isabella , Piot Cécile , Partridge Ben , Pospori Constandina , Keeshan Karen , Santamaria Salvatore , Hawkins Edwin , Falini Brunangelo , Marra Andrea , Duarte Delfim , Lee Chiu Fan , Roberts Edward , Lo Celso Cristina
Published: February 2022

Acute myeloid leukemia (AML) is a blood cancer of the myeloid lineage. Its prognosis remains poor, highlighting the need for new therapeutic and precision medicine approaches. AML symptoms often include cytopenias linked to loss of healthy hematopoietic stem and progenitor cells (HSPCs). The mechanisms behind HSPC decline are complex and still poorly understood. Here, intravital microscopy (IVM) of a well-established experimental model of AML allows direct observation of the interactions between healthy and malignant cells in the bone marrow (BM), suggesting that physical dislodgment of healthy cells by AML through damaged vasculature may play an important role. Multiple matrix metalloproteinases (MMPs), known to remodel extracellular matrix, are expressed by AML cells and the BM microenvironment. We reason MMPs could be involved in cell displacement and vascular leakiness; therefore, we evaluate the therapeutic potential of MMP pharmacological inhibition using the broad-spectrum inhibitor prinomastat. IVM analyses of prinomastat-treated mice reveal reduced vascular permeability and healthy cell clusters in circulation and lower AML infiltration, proliferation, and cell migration. Furthermore, treated mice have increased retention of healthy HSPCs in the BM and increased survival following chemotherapy. Analysis of a human AML transcriptomic database reveals widespread MMP deregulation, and human AML cells show susceptibility to MMP inhibition. Overall, our results suggest that MMP inhibition could be a promising complementary therapy to reduce AML growth and limit HSPC loss and BM vascular damage caused by MLL-AF9 and possibly other AML subtypes.
Mass spectrometry vs immunofixation for treatment monitoring in multiple myeloma
Authors: Puig Noemí , Contreras María-Teresa , Agulló Cristina , Martínez-López Joaquín , Oriol Albert , Blanchard María-Jesús , Ríos Rafael , Martín Jesús , Iñigo María-Belén , Sureda Anna , Hernández Miguel-Teodoro , de la Rubia Javier , González-Calle Verónica , Krsnik Isabel , Cabañas Valentín , Palomera Luis , Moraleda José-María , Bargay Joan , Cedena María-Teresa , Paiva Bruno , Rosiñol Laura , Bladé Joan , San Miguel Jesús , Lahuerta Juan-José , Mateos María-Victoria
Published: February 2022

Monitoring of the monoclonal protein (M-protein) by electrophoresis and/or immunofixation (IFE) has long been used to assess treatment response in multiple myeloma (MM). However, with the use of highly effective therapies, the M-protein becomes frequently undetectable, and more sensitive methods had to be explored. We applied IFE and mass spectrometry (EXENT&FLC-MS) in serum samples from newly diagnosed MM patients enrolled in the PETHEMA/GEM2012MENOS65 obtained at baseline (n = 223), and after induction (n = 183), autologous stem cell transplantation (n = 173), and consolidation (n = 173). At baseline, the isotypes identified with both methods fully matched in 82.1% of samples; in the rest but 2 cases, EXENT&FLC-MS provided additional information to IFE with regards to the M-protein(s). Overall, the results of EXENT&FLC-MS and IFE were concordant in >80% of cases, being most discordances due to EXENT&FLC-MS+ but IFE− cases. After consolidation, IFE was not able to discriminate 2 cohorts with different median progression-free survival (PFS), but EXENT&FLC-MS did so; furthermore, among IFE− patients, EXENT&FLC-MS identified 2 groups with significantly different median PFS (P = .0008). In conclusion, compared with IFE, EXENT&FLC-MS is more sensitive to detect the M-protein of patients with MM, both at baseline and during treatment, and provides a more accurate prediction of patients’ outcome. This trial was registered at www.clinicaltrials.gov as #NCT01916252.
Culture-proven disseminated Mycobacterium Bovis infection (BCG-Osis) following intravesical BCG immunotherapy in a patient with bladder carcinoma-in-situ: ‘Case report’
Authors: Ghonaimy Ahmed , Qadeer Tariq , Lohani Sudhir , Schofield John , Madaan Sanjeev
Published: February 2022

We are reporting a case of culture-proven disseminated Mycobacterium Bovis infection (BCG-Osis), involving lung, bone-marrow and urinary tract, after intravesical Bacillus Calmette–Guérin (BCG) immunotherapy for bladder carcinoma-in-situ. A 71-year-gentleman presented with fever shortly after intravesical BCG instillation. He was initially treated for presumed Urinary Tract Infection, but negative urine culture and persistent fever prompted us to consider alternative diagnoses. Empirical treatment for BCG-Osis was commenced after initial negative workup including blood culture, echocardiography, computed tomography (CT) Chest, and Kidney-Ureter-Bladder (KUB). However, he remained febrile and leukopenic, so bone-marrow examination was performed along with repeating CT Chest, which revealed non-caseating granulomas and small nonspecific pulmonary nodules, respectively, supporting our provisional diagnosis. Interestingly, Mycobacterium Bovis was finally isolated from one of his urine specimens, confirming our diagnosis.
Predictions of the accuracy of genomic prediction: connecting R2, selection index theory, and Fisher information
Authors: Bijma Piter , Dekkers Jack C. M.
Published: February 2022

Background

Deterministic predictions of the accuracy of genomic estimated breeding values (GEBV) when combining information sources have been developed based on selection index theory (SIT) and on Fisher information (FI). These two approaches have resulted in slightly different results when considering the combination of pedigree and genomic information. Here, we clarify this apparent contradiction, both for the combination of pedigree and genomic information and for the combination of subpopulations into a joint reference population.

Results

First, we show that existing expressions for the squared accuracy of GEBV can be understood as a proportion of the variance explained. Next, we show that the apparent discrepancy that has been observed between accuracies based on SIT vs. FI originated from two sources. First, the FI referred to the genetic component that is captured by the marker genotypes, rather than the full genetic component. Second, the common SIT-based derivations did not account for the increase in the accuracy of GEBV due to a reduction of the residual variance when combining information sources. The SIT and FI approaches are equivalent when these sources are accounted for.

Conclusions

The squared accuracy of GEBV can be understood as a proportion of the variance explained. The SIT and FI approaches for combining information for GEBV are equivalent and provide identical accuracies when the underlying assumptions are equivalent.
MonaGO: a novel gene ontology enrichment analysis visualisation system
Authors: Xin Ziyin , Cai Yujun , Dang Louis T. , Burke Hannah M. S. , Revote Jerico , Charitakis Natalie , Bienroth Denis , Nim Hieu T. , Li Yuan-Fang , Ramialison Mirana
Published: February 2022

Background

Gene ontology (GO) enrichment analysis is frequently undertaken during exploration of various -omics data sets. Despite the wide array of tools available to biologists to perform this analysis, meaningful visualisation of the overrepresented GO in a manner which is easy to interpret is still lacking.

Results

Monash Gene Ontology (MonaGO) is a novel web-based visualisation system that provides an intuitive, interactive and responsive interface for performing GO enrichment analysis and visualising the results. MonaGO supports gene lists as well as GO terms as inputs. Visualisation results can be exported as high-resolution images or restored in new sessions, allowing reproducibility of the analysis. An extensive comparison between MonaGO and 11 state-of-the-art GO enrichment visualisation tools based on 9 features revealed that MonaGO is a unique platform that simultaneously allows interactive visualisation within one single output page, directly accessible through a web browser with customisable display options.

Conclusion

MonaGO combines dynamic clustering and interactive visualisation as well as customisation options to assist biologists in obtaining meaningful representation of overrepresented GO terms, producing simplified outputs in an unbiased manner. MonaGO will facilitate the interpretation of GO analysis and will assist the biologists into the representation of the results.
Reevaluating scorpion ecomorphs using a naïve approach
Authors: Coelho Pedro , Kaliontzopoulou Antigoni , Sousa Pedro , Stockmann Mark , van der Meijden Arie
Published: February 2022

Background

Ecomorphs create the opportunity to investigate ecological adaptation because they encompass organisms that evolved characteristic morphologies under similar ecological demands. For over 50 years, scorpions have been empirically assigned to ecomorphs based on the characteristic morphologies that rock, sand, vegetation, underground, and surface dwellers assume. This study aims to independently test the existence of scorpion ecomorphs by quantifying the association between their morphology and ecology across 61 species, representing 14 families of the Scorpiones order.

Results

Without a priori categorization of species into ecomorphs, we identified four groups based on microhabitat descriptors, which reflect how scorpion ecospace is clustered. Moreover, these microhabitat groups, i.e., ecotypes, have significantly divergent morphologies; therefore, they represent ecomorphs. These ecomorphs largely correspond with the ones previously described in the literature. Therefore, we retained the names Lithophilous, Psammophilous, and Pelophilous, and proposed the name Phytophilous for vegetation dwellers. Finally, we sought to map the morphology-ecology association in scorpions and found that the morphological regions most tightly associated with ecology are at the extremities. Moreover, the major trend in ecomorphological covariation is that longer walking legs and relatively slender pedipalps (pincers) are associated with sandy microhabitats, while the inverse morphological proportions are associated with rocky microhabitats.

Conclusions

Scorpion ecomorphs are validated in a naïve approach, from ecological descriptors and whole body anatomy. This places them on a more solid quantitative footing for future studies of ecological adaptation in scorpions. Our results verify most of the previously defined ecomorphotypes and could be used as a current practice to understand the adaptive significance of ecological morphology.
Can DNA help trace the local trade of pangolins? Conservation genetics of white-bellied pangolins from the Dahomey Gap (West Africa)
Authors: Zanvo Stanislas , Djagoun Chabi A. M. S. , Azihou Akomian F. , Djossa Bruno , Afiademanyo Komlan , Olayemi Ayodeji , Agbangla Clément , Sinsin Brice , Gaubert Philippe
Published: February 2022

Background

African pangolins are currently experiencing unprecedented levels of harvesting, feeding both local demands and the illegal international trade. So far, the lack of knowledge on the population genetics of African pangolins has hampered any attempts at assessing their demographic status and tracing their trade at the local scale. We conducted a pioneer study on the genetic tracing of the African pangolin trade in the Dahomey Gap (DG). We sequenced and genotyped 189 white-bellied pangolins from 18 forests and 12 wildlife markets using one mitochondrial fragment and 20 microsatellite loci.

Results

Tree-based assignment procedure showed that the pangolin trade is endemic to the DG region, as it was strictly fed by the the Dahomey Gap lineage (DGL). DGL populations were characterized by low levels of genetic diversity, an overall absence of equilibrium, important inbreeding levels, and lack of geographic structure. We identified a 92–98% decline in DGL effective population size 200–500 ya—concomitant with major political transformations along the ‘Slave Coast’—leading to contemporaneous estimates being inferior to minimum viable population size (< 500). Genetic tracing suggested that wildlife markets from the DG sourced pangolins through the entire DGL range. Our loci provided the necessary power to distinguish among all the genotyped pangolins, tracing the dispatch of a same individual on the markets and within local communities. We developed an approach combining rarefaction analysis of private allele frequencies with cross-validation of observed data that traced five traded pangolins to their forest origin, c. 200–300 km away from the markets.

Conclusions

Although the genetic toolkit that we designed from traditional markers can prove helpful to trace the illegal trade in pangolins, our tracing ability was limited by the lack of population structure within the DGL. Given the deleterious combination of genetic, demographic, and trade-related factors affecting DGL populations, the conservation status of white-bellied pangolins in the DG should be urgently re-evaluated.
Differential responses of the rhizosphere microbiome structure and soil metabolites in tea (Camellia sinensis) upon application of cow manure
Authors: Sun Litao , Wang Yu , Ma Dexin , Wang Linlin , Zhang Xiaomei , Ding Yiqian , Fan Kai , Xu Ze , Yuan Changbo , Jia Houzhen , Ren Yonglin , Ding Zhaotang
Published: February 2022

Background

The rhizosphere is the narrow zone of soil immediately surrounding the root, and it is a critical hotspot of microbial activity, strongly influencing the physiology and development of plants. For analyzing the relationship between the microbiome and metabolome in the rhizosphere of tea (Camellia sinensis) plants, the bacterial composition and its correlation to soil metabolites were investigated under three different fertilization treatments (unfertilized, urea, cow manure) in different growing seasons (spring, early and late summer).

Results

The bacterial phyla Proteobacteria, Bacteroidetes, Acidobacteria and Actinobacteria dominated the rhizosphere of tea plants regardless of the sampling time. These indicated that the compositional shift was associated with different fertilizer/manure treatments as well as the sampling time. However, the relative abundance of these enriched bacteria varied under the three different fertilizer regimes. Most of the enriched metabolic pathways stimulated by different fertilizer application were all related to sugars, amino acids fatty acids and alkaloids metabolism. Organic acids and fatty acids were potential metabolites mediating the plant-bacteria interaction in the rhizosphere. Bacteria in the genera Proteiniphilum, Fermentimonas and Pseudomonas in spring, Saccharimonadales and Gaiellales in early summer, Acidobacteriales and Gaiellales in late summer regulated relative contents of organic and fatty acids.

Conclusion

This study documents the profound changes to the rhizosphere microbiome and bacterially derived metabolites under different fertilizer regimes and provides a conceptual framework towards improving the performance of tea plantations.
Whole-genome resequencing of Coffea arabica L. (Rubiaceae) genotypes identify SNP and unravels distinct groups showing a strong geographical pattern
Authors: Mekbib Yeshitila , Tesfaye Kassahun , Dong Xiang , Saina Josphat K. , Hu Guang-Wan , Wang Qing-Feng
Published: February 2022

Background

Coffea arabica L. is an economically important agricultural crop and the most popular beverage worldwide. As a perennial crop with recalcitrant seed, conservation of the genetic resources of coffee can be achieved through the complementary approach of in-situ and ex-situ field genebank. In Ethiopia, a large collection of C. arabica L. germplasm is preserved in field gene banks. Here, we report the whole-genome resequencing of 90 accessions from Choche germplasm bank representing garden and forest-based coffee production systems using Illumina sequencing technology.

Results

The genome sequencing generated 6.41 billion paired-end reads, with a mean of 71.19 million reads per sample. More than 93% of the clean reads were mapped onto the C. arabica L. reference genome. A total of 11.08 million variants were identified, among which 9.74 million (87.9%) were SNPs (Single nucleotide polymorphisms) and 1.34 million (12.1%) were InDels. In all accessions, genomic variants were unevenly distributed across the coffee genome. The phylogenetic analysis using the SNP markers displayed distinct groups.

Conclusions

Resequencing of the coffee accessions has allowed identification of genetic markers, such as SNPs and InDels. The SNPs discovered in this study might contribute to the variation in important pathways of genes for important agronomic traits such as caffeine content, yield, disease, and pest in coffee. Moreover, the genome resequencing data and the genetic markers identified from 90 accessions provide insight into the genetic variation of the coffee germplasm and facilitate a broad range of genetic studies.
Stroke-related health problems and associated actions identified with the post-stroke checklist among nursing home residents
Authors: Kjörk Emma K. , Gustavsson Martha , El-Manzalawy Nohad , Sunnerhagen Katharina S.
Published: February 2022

Background

Little is known about the needs of permanent nursing home residents after a stroke; comprehensive descriptions of needs are rare. The Post-Stroke Checklist facilitates the identification of health problems. The study aimed to use the Post-Stroke Checklist to identify the extent of health problems, and how they were addressed, in nursing home residents that experienced strokes in Sweden. We also investigated the feasibility of the Checklist in a nursing home context.

Methods

This is a cross-sectional explorative study. Twenty nursing homes in two regions of Sweden participated. We included residents that had experienced a stroke within approximately 3 years and the responsible staff members were approached. Questionnaires were completed during face-to-face meetings with staff members (n = 45) knowledgeable about the residents. Data collection included the Post-Stroke Checklist, Barthel Index, modified Rankin Scale, resident and staff characteristics, and a satisfaction-questionnaire completed by staff.

Results

At the included nursing homes 1061 residents, 22% (n = 239) had a history of stroke, and 6% (n = 65) had experienced strokes during the last 3.5 years. Forty-nine residents were included (41% men, median age, 86 years, range 59–97). Among the health problems identified with the Checklist, activities of daily living (82%) were most common, and spasticity (41%) and pain (29%) were least common. Residents had extensive care needs, with a median of six health problems per resident. The total number of health problems addressed by previous actions i.e., referrals, as suggested in the Checklist, was 124, when recalled by staff. The median Barthel index score was 35. Lack of follow-up after stroke (e.g., by using a checklist) was reported in 17/20 nursing homes. The staff were satisfied with the Post-Stroke Checklist.

Conclusions

We found that more than 1/5 of residents had experienced a stroke; thus, the Post-Stroke Checklist was a useful tool in nursing homes. Half of the residents had more than six health problems, identified with the Post-Stroke Checklist. Extensive needs, combined with a lack of follow-up, indicated a risk of insufficient care. These findings suggested that nursing home routines could be improved with the Post-Stroke Checklist.

Trial registration The project is registered in Research web, project number: 256021.
Sick sinus syndrome as the initial manifestation of neuromyelitis optica spectrum disorder: a case report
Authors: Hamaguchi Mai , Fujita Hiroaki , Suzuki Tomonari , Suzuki Keisuke
Published: February 2022

Background

Sick sinus syndrome (SSS) is known to occur due to lesions in the medulla oblongata. Although medullary lesions have occurred in patients with neuromyelitis optica spectrum disorder (NMOSD), there are few reports of SSS associated with NMOSD. We report a patient with NMOSD who developed refractory nausea, vomiting and SSS as the initial manifestation.

Case presentation

A 77-year-old female developed refractory nausea and frequent episodes of syncope. The patient was diagnosed with SSS because sinus pauses lasting five to six seconds were observed, and pacemaker implantation was performed. Two months later, she was referred to our hospital because of limb weakness and sensory impairment that progressed over a month. The patient was confirmed to have muscle weakness; manual muscle testing revealed grade 4 in the upper extremities and grade 3 in the lower extremities. Tendon reflexes were diminished, while no pathological reflexes were present. Thermal and pain sensations were impaired in the upper and lower extremities, and vibration sensation was impaired in both lower extremities. Bladder and rectal disturbances were also noted. Optic neuritis was not detected. T2-weighted magnetic resonance imaging (MRI) showed high-intensity lesions in the dorsal part of the medulla oblongata and C3–6 cervical cord. Her serum was positive for antibodies against aquaporin 4, and a diagnosis of NMOSD was made. She was treated with two courses of an intravenous methylprednisolone pulse and one course of plasma exchange. Then, she was transferred to another hospital for rehabilitation.

Conclusions

Because SSS is a life-threatening complication, clinicians should be aware of the possibility that medullary lesions in NMOSD can cause SSS as the initial manifestation.
Relationship between serum lipid levels and the immune microenvironment in breast cancer patients: a retrospective study
Authors: Goto Wataru , Kashiwagi Shinichiro , Kamei Yuri , Watanabe Chika , Aomatsu Naoki , Ikeda Katsumi , Ogawa Yoshinari , Hirakawa Kosei , Ohira Masaichi
Published: February 2022

Background

Therapeutic agents for dyslipidaemia, in particular statins, have been recently reported to suppress growth and metastasis of breast cancer. However, the predictive value of lipid control in breast cancer patients has not been discussed sufficiently. In addition, though immunometabolism is a relatively novel approach for tumour immunotherapy, the relationship between lipid metabolism and immune status has not been well documented. We therefore investigated the effects of lipid metabolism on antitumour immune response and cancer prognosis.

Methods

Except for patients with ductal carcinoma in situ, 938 patients treated with curative surgery were examined. The correlation between treatment for dyslipidaemia or serum lipid levels and clinicopathological features, including the prognosis, was evaluated retrospectively. Also, we stratified these results by intrinsic subtype of breast cancer, menopause, and type of therapeutic agents for dyslipidaemia. Moreover, neutrophil- to-lymphocyte ratio (NLR) and tumour-infiltrating lymphocytes (TILs) were used as indicators of systemic and local immune status, respectively.

Results

Of 194 patients treated for dyslipidaemia, recurrence-free survival (RFS) and overall survival (OS) did not differ significantly between users of drugs for dyslipidaemia and non-users (p = 0.775 and p = 0.304, log-rank, respectively). Among postmenopausal, hormone receptor (HR)-positive/human epidermal growth factor receptor 2 (HER2)-negative breast cancer patients treated for dyslipidaemia, the good serum lipid control group had significantly better RFS (p = 0.014, log-rank), lower postoperative NLR (p = 0.012), and higher TILs in resected tissues (p = 0.024) than the poor control group. Multivariate analysis showed that postoperative serum lipid levels were a risk factor for recurrence (hazard ratio = 4.722, 95% confidence interval 1.006–22.161, p = 0.049).

Conclusions

Good control of serum lipid metabolism may improve the tumour immune microenvironment and prognosis in postmenopausal HR-positive/HER2-negative breast cancer patients.
Ebstein anomaly associated with retinal venular dilatation, migraine, and visual snow syndrome: a case report
Authors: de Jong P. T. V. M. , Thee E. F. , Straver B.
Published: February 2022

Background

To present a case with Ebstein anomaly, a rare congenital heart disorder, with ophthalmological and neurophthalmological signs and symptoms. To date, retinal venous dilatation and visual snow syndrome have not been previously been published in this anomaly.

Case presentation

A 10-year-old white girl was diagnosed with Ebstein anomaly. From age 12, she regularly suffered from migraines with auras and photophobia. At age 16 she started to see short-term bouts of white snow, that after a year were present all day. At age 20, she was found to have a decreased retinal arteriovenous ratio.

Conclusions

Retinal arterial tortuosity and venular dilatation are common in congenital heart disease but have not been described in Ebstein anomaly, nor has the visual snow syndrome.
Effects of advance exposure to an animated surgery-related picture book on preoperative anxiety and anesthesia induction in preschool children: a randomized controlled trial
Authors: Yang Yanyan , Zhang Mazhong , Sun Ying , Peng Zhezhe , Zheng Xiaosu , Zheng Jijian
Published: February 2022

Background

Our aim was to investigate whether early surgical preparation by reading an animated picture book about procedure-related events could reduce the preoperative anxiety in preschoolers.

Methods

131 patients, aged 3–6 years and underwent elective minor surgery were randomized either to a control or a picture book group. Both groups received general information about surgery and anesthesia in pre-anesthesia clinic. Patients in study group also received a surgery-depicting picture book for them to read at home a week earlier before surgery. Child anxiety was evaluated with the modified Yale Preoperative Anxiety Scale Short Form in six observing time points before anesthesia induction, and the compliance of anesthesia induction was assessed with the Induction Compliance Checklist (ICC).

Results

There were significantly lower anxiety scores in picture book group than in control group at the time of ready for intravenous cannulation in operating room [51.9 (23.6) vs. 67.2 (22.0); mean difference 15.3; 95% confidence interval (CI) 6.4–24.1; P = 0.001] and at the time of pre-anesthesia visit [27.8 (7.6) vs. 33.2 (13.6); mean difference 5.3; 95%CI 0.93–9.8; P = 0.018]. No significant differences of anxiety levels were found between two groups at other observed time points: in the anesthesia outpatient clinic, in the holding area, at separation from parent to operating room (OR), and on entrance to OR (P = 0.584, 0.335, 0.228, 0.137, respectively). The percentage of children with poor induction compliance (i.e., ICC ≥ 6) was higher in control group compared with that in picture book group [38% vs.21%; odds ratio(95%CI): 0.78(0.61–0.99); P = 0.041].

Conclusions

Home-reading an animated picture book to get familiar with the perioperative events earlier prior to surgery could effectively reduce the preoperative anxiety level and increase the compliance during the induction of anesthesia in preschool children.

Trial registration

ChiCTR2000033583, 06/06/2020 www.chictr.org.cn.
State of evidence on municipal strategies for health promotion and prevention: a literature and database research (Scoping Review)
Authors: Quilling Eike , Mielenbrink Vivien , Osterhoff Anke , Terhorst Stefanie , Tollmann Patricia , Kruse Stefanie
Published: February 2022

Background

There are gaps in the research regarding the implementation and evidence of overall strategies for municipal health promotion addressing communities. The aim of this scoping review is to gain initial findings concerning theoretical models, approaches and evidence on strategies of municipal health promotion, which include self-care, mutual aid and healthy environments. The findings can enrich the development of health promotion services.

Methods

A systematic scoping literature analysis was conducted in the databases PubMed, Web of Science, SAGE-Journals, Wiley-Online, ScienceDirect, LIVIVO and WiSo database as well as in a German project database. Evaluation studies and research reports on strategies in municipal health promotion were included and analysed qualitatively.

Results

According to our predefined inclusion and exclusion criteria, 15 hits were included. Capacity building, planning and the establishment of structures for health promotion were identified as theory-based models and approaches. None of the publications included showed clear evidence of the effects of municipal health promotion measures in terms of classically medically defined evidence.

Conclusions

The use of evidence-based theoretical models and approaches is no guarantee for the success of strategies for municipal health promotion. Challenges with regard to evidence are the execution of study designs corresponding to higher evidence classes and the isolation of effects of health promotion measures in complex environments.

Trial registration

This scoping review was not registered beforehand.
The lived experiences of a COVID-19 immunization programme: vaccine hesitancy and vaccine refusal
Authors: Chan Nee Nee , Ong Khang Wei , Siau Ching Sin , Lee Kai Wei , Peh Suat Cheng , Yacob Shakila , Chia Yook Chin , Seow Vei Ken , Ooi Pei Boon
Published: February 2022

Background

The COVID-19 pandemic has resulted in a global health emergency and lock-down measures to curb the uncontrolled transmission chain. Vaccination is an effective measure against COVID-19 infections. In Malaysia amidst the national immunisation programme (NIP) which started in February 2021, there were rising concerns regarding the prevalence of vaccine hesitancy and refusal, and therefore, vaccine uptake among Malaysians. Although there are many quantitative studies on COVID-19 vaccination, the subjective experience of individuals was understudied. This study aims to explore the lived experiences of Malaysians regarding vaccine hesitancy and refusal, and facilitating factors that could enhance vaccine acceptance and uptake.

Methods

This qualitative study employed the hermeneutic phenomenological study design. Purposive sampling strategies were used to recruit Malaysians that had direct experiences with friends, family members and their community who were hesitating or refusing to accept the COVID-19 vaccines. A semi-structured interview guide was developed based on the expert knowledge of the investigators and existing literature on the topic. A series of focus group interviews (FGIs) was conducted online facilitated by a multidisciplinary team of experts. The group interviews were transcribed verbatim and analysed.

Results

Fifty-nine participants took part in seven FGIs. We found that “incongruence” was the overall thematic meaning that connected all the 3 main themes. These themes comprise firstly, the incongruence between the aims and implementation of the National Immunization Program which highlighted the gap between realities and needs on the ground. Secondly, the incongruence between Trust and Mistrust revealed a trust deficit in the government, COVID-19 news, and younger people’s preference to follow the examples of local vaccination “heroes”. Thirdly, the incongruence in communication showed the populace’s mixed views regarding official media and local social media.

Conclusions

This study provided rich details on the complex picture of the COVID-19 immunization program in Malaysia and its impact on vaccine hesitancy and refusal. The inter-related and incongruent factors explained the operational difficulty and complexity of the NIP and the design of an effective health communication campaign. Identified gaps such as logistical implementation and communication strategies should be noted by policymakers in implementing mitigation plans.