bluuebunny/crossref_metadata_2025 huggingface dataset:
Colonialism and the environment: The pollution legacy of the Southern Hemisphere’s largest copper mine in the 20th century
Authors: Schneider Larissa , Shulmeister Niamh , Mariani Michela , Beck Kristen K , Fletcher Michael-Shawn , Zawadzki Atun , Saunders Krystyna M , Aquino-López Marco A , Haberle Simon G
Published: November 2020

Mining has been a major contributor to economic development in Australia since British arrival in the late 1700s, with little to no thought regarding the long-term environmental consequences. This study assesses the metal pollution legacy caused by different smelting methods and mining activities during the British colonialism in western Tasmania. This region was the largest copper producer in the Southern Hemisphere during the 20th century. Lake sediments from Basin Lake and Owen Tarn, 12 and 5 km from Queenstown’s mines, respectively, were used to reconstruct historical metal contamination. Temporal changes in metal concentrations (iron, copper, arsenic, selenium and lead) were assessed in relation to the scale of mining activities and the technologies used. Sedimentation rates and metal influxes increased from 1900, reflecting the beginning of copper mining in Mount Lyell. Observed metal concentrations peaked after 1930, coinciding with the introduction of large-scale open-cut operations and an expansion of the mining machinery used. All elements underwent at least minor enrichment (EF 1-3) during the lifespan of the mine, with lead and copper undergoing extremely severe enrichment (EF > 50). Although smelters contributed to metal increases in the lakes, large open-cut large operations in the 1930s contributed most to metal contamination. Local metal deposition from mining-related activities decreased significantly once operations decreased, with selenium and arsenic decreasing nearly to background levels within 50 years. Lead and copper, the elements which underwent major enrichment, have not yet reached background values. The ecological consequences include the current degraded local landscape, poor water quality and disrupted local biota. Knowledge about the environmental impacts of mining in western Tasmania is less known compared to other sites around the world with a similar history. Our results demonstrate the urgent need to develop better policies and remediation programs that can mitigate the consequences of metal pollution from abandoned mines in Australia.
Clover: a clustering-oriented de novo assembler for Illumina sequences
Authors: Hsieh Ming-Feng , Lu Chin Lung , Tang Chuan Yi
Published: November 2020

Background

Next-generation sequencing technologies revolutionized genomics by producing high-throughput reads at low cost, and this progress has prompted the recent development of de novo assemblers. Multiple assembly methods based on de Bruijn graph have been shown to be efficient for Illumina reads. However, the sequencing errors generated by the sequencer complicate analysis of de novo assembly and influence the quality of downstream genomic researches.

Results

In this paper, we develop a de Bruijn assembler, called Clover (clustering-oriented de novo assembler), that utilizes a novel k-mer clustering approach from the overlap-layout-consensus concept to deal with the sequencing errors generated by the Illumina platform. We further evaluate Clover’s performance against several de Bruijn graph assemblers (ABySS, SOAPdenovo, SPAdes and Velvet), overlap-layout-consensus assemblers (Bambus2, CABOG and MSR-CA) and string graph assembler (SGA) on three datasets (Staphylococcus aureus, Rhodobacter sphaeroides and human chromosome 14). The results show that Clover achieves a superior assembly quality in terms of corrected N50 and E-size while remaining a significantly competitive in run time except SOAPdenovo. In addition, Clover was involved in the sequencing projects of bacterial genomes Acinetobacter baumannii TYTH-1 and Morganella morganii KT.

Conclusions

The marvel clustering-based approach of Clover that integrates the flexibility of the overlap-layout-consensus approach and the efficiency of the de Bruijn graph method has high potential on de novo assembly. Now, Clover is freely available as open source software from https://oz.nthu.edu.tw/~d9562563/src.html.
Pitchers of Nepenthes khasiana express several digestive-enzyme encoding genes, harbor mostly fungi and probably evolved through changes in the expression of leaf polarity genes
Authors: Dkhar Jeremy , Bhaskar Yogendra Kumar , Lynn Andrew , Pareek Ashwani
Published: November 2020

Background

A structural phenomenon seen in certain lineages of angiosperms that has captivated many scholars including Charles Darwin is the evolution of plant carnivory. Evidently, these structural features collectively termed carnivorous syndrome, evolved to aid nutritional acquisition from attracted, captured and digested prey. We now understand why plant carnivory evolved but how carnivorous plants acquired these attributes remains a mystery. In an attempt to understand the evolution of Nepenthes pitcher and to shed more light on its role in prey digestion, we analyzed the transcriptome data of the highly specialized Nepenthes khasiana leaf comprising the leaf base lamina, tendril and the different parts/zones of the pitcher tube viz. digestive zone, waxy zone and lid.

Results

In total, we generated around 262 million high-quality Illumina reads. Reads were pooled, normalized and de novo assembled to generate a reference transcriptome of about 412,224 transcripts. We then estimated transcript abundance along the N. khasiana leaf by mapping individual reads from each part/zone to the reference transcriptome. Correlation-based hierarchical clustering analysis of 27,208 commonly expressed genes indicated functional relationship and similar cellular processes underlying the development of the leaf base and the pitcher, thereby implying that the Nepenthes pitcher is indeed a modified leaf. From a list of 2386 differentially expressed genes (DEGs), we identified transcripts encoding key enzymes involved in prey digestion and protection against pathogen attack, some of which are expressed at high levels in the digestive zone. Interestingly, many of these enzyme-encoding genes are also expressed in the unopened N. khasiana pitcher. Transcripts showing homology to both bacteria and fungi were also detected; and in the digestive zone, fungi are more predominant as compared to bacteria. Taking cues from histology and scanning electron microscopy (SEM) photomicrographs, we found altered expressions of key regulatory genes involved in leaf development. Of particular interest, the expression of class III HOMEODOMAIN-LEUCINE ZIPPER (HD-ZIPIII) and ARGONAUTE (AGO) genes were upregulated in the tendril.

Conclusions

Our findings suggest that N. khasiana pitchers employ a wide range of enzymes for prey digestion and plant defense, harbor microbes and probably evolved through altered expression of leaf polarity genes.
Demographic history and genetic differentiation of an endemic and endangered Ulmus lamellosa (Ulmus)
Authors: Hou Huimin , Ye Hang , Wang Zhi , Wu Jiahui , Gao Yue , Han Wei , Na Dongchen , Sun Genlou , Wang Yiling
Published: November 2020

Background

Ulmus lamellosa(one of the ancient species ofUlmus) is an endemic and endangered plant that has undergone climatic oscillations and geographical changes. The elucidation of its demographic history and genetic differentiation is critical for understanding the evolutionary process and ecological adaption to forests in Northern China.

Results

Polymorphic haplotypes were detected in most populations ofU. lamellosavia DNA sequencing. All haplotypes were divided into three phylogeographic clades fundamentally corresponding to their geographical distribution, namely THM (Taihang Mountains), YM (Yinshan Mountains), and YSM (Yanshan Mountains) groups. The YSM group, which is regarded as ancestral, possessed higher genetic diversity and significant genetic variability in contrast to the YSM and YM groups. Meanwhile, the divergence time of intraspecies haplotypes occurred during the Miocene-Pliocene, which was associated with major Tertiary geological and/or climatic events. Different degrees of gene exchanges were identified between the three groups. During glaciation, the YSM and THM regions might have served as refugia forU. lamellosa. Based on ITS data, range expansion was not expected through evolutionary processes, except for the THM group. A series of mountain uplifts (e.g., Yanshan Mountains and Taihang Mountains) following the Miocene-Pliocene, and subsequently quaternary climatic oscillations in Northern China, further promoted divergence betweenU. lamellosapopulations.

Conclusions

Geographical topology and climate change in Northern China played a critical role in establishing the current phylogeographic structural patterns ofU. lamellosa. These results provide important data and clues that facilitate the demographic study of tree species in Northern China.
Protocol of the EFFORT study: a prospective study of FOLFIRI plus aflibercept as second-line treatment after progression on FOLFOXIRI plus bevacizumab or during maintenance treatment in patients with unresectable/metastatic colorectal cancer
Authors: Satake Hironaga , Ando Koji , Oki Eiji , Shimokawa Mototsugu , Makiyama Akitaka , Saeki Hiroshi , Tsuji Akihito , Mori Masaki
Published: November 2020

Background

FOLFOXIRI plus bevacizumab is used as a first-line therapy for patients with unresectable or metastatic colorectal cancer. However, there are no clear recommendations for second-line therapy after FOLFOXIRI plus bevacizumab combination. Here, we describe our planning for the EFFORT study to investigate whether FOLFIRI plus aflibercept has efficacy following FOLFOXIRI plus bevacizumab for mCRC.

Methods

EFFORT is an open-label, multicenter, single arm phase II study to evaluate whether a FOLFIRI plus aflibercept has efficacy following FOLFOXIRI plus bevacizumab for mCRC. Patients with unresectable or metastatic colorectal cancer who received FOLFOXIRI plus bevacizumab as a first-line therapy will receive aflibercept and FOLFIRI (aflibercept 4 mg/kg, irinotecan 150 mg/m2 IV over 90 min, with levofolinate 200 mg/m2 IV over 2 h, followed by fluorouracil 400 mg/m2 bolus and fluorouracil 2400 mg/m2 continuous infusion over 46 h) every 2 weeks on day 1 of each cycle. The primary endpoint is progression-free survival (PFS). To achieve 80% power to show a significant response benefit with a one-sided alpha level of 0.10, assuming a threshold progression-free survival of 3 months and an expected value of at least 5.4 months, we estimated that 32 patients are necessary. Secondary endpoints include overall survival, overall response rate, safety, and exploratory biomarker analysis for differentiating anti-VEGF drug in 2nd-line chemotherapy for unresectable or metastatic colorectal cancer.

Discussion

This is the first study to investigate whether FOLFIRI plus aflibercept has efficacy following FOLFOXIRI plus bevacizumab for unresectable or metastatic colorectal cancer. Switching to a different type of anti-VEGF drug in second-line therapy after FOLFOXIRI plus bevacizumab appears to be an attractive treatment strategy when considering survival benefit. It is expected that this phase II study will prove the efficacy of this strategy and that a biomarker for drug selection will be discovered.

Trial registration

Japan Registry of Clinical Trials jRCTs071190003. Registered April 18, 2019.
A randomized phase II trial evaluating the addition of low dose, short course sunitinib to docetaxel in advanced solid tumours
Authors: Ang Yvonne L. E. , Ho Gwo Fuang , Soo Ross A. , Sundar Raghav , Tan Sing Huang , Yong Wei Peng , Ow Samuel G. W. , Lim Joline S. J. , Chong Wan Qin , Soe Phyu Pyar , Tai Bee Choo , Wang Lingzhi , Goh Boon Cher , Lee Soo-Chin
Published: November 2020

Background

We previously reported that low-dose, short-course sunitinib prior to neoadjuvant doxorubicin-cyclophosphamide (AC) normalised tumour vasculature and improved perfusion, but resulted in neutropenia and delayed subsequent cycles in breast cancer patients. This study combined sunitinib with docetaxel, which has an earlier neutrophil nadir than AC.

Methods

Patients with advanced solid cancers were randomized 1:1 to 3-weekly docetaxel 75 mg/m2, with or without sunitinib 12.5 mg daily for 7 days prior to docetaxel, stratified by primary tumour site. Primary endpoints were objective-response (ORR:CR + PR) and clinical-benefit rate (CBR:CR + PR + SD); secondary endpoints were toxicity and progression-free-survival (PFS).

Results

We enrolled 68 patients from 2 study sites; 33 received docetaxel-sunitinib and 35 docetaxel alone, with 33 breast, 25 lung and 10 patients with other cancers.

There was no difference in ORR (30.3% vs 28.6%,p = 0.432, odds-ratio [OR] 1.10, 95% CI 0.38–3.18); CBR was lower in the docetaxel-sunitinib arm (48.5% vs 71.4%,p = 0.027 OR 0.37, 95% CI 0.14–1.01). Median PFS was shorter in the docetaxel-sunitinib arm (2.9 vs 4.9 months, hazard-ratio [HR] 2.00, 95% CI 1.15–3.48,p = 0.014) overall, as well as in breast (4.2 vs 5.6 months,p = 0.048) and other cancers (2.0 vs 5.3 months,p = 0.009), but not in lung cancers (2.9 vs 4.1 months,p = 0.597). Median OS was similar in both arms overall (9.9 vs 10.5 months, HR 0.92, 95% CI 0.51–1.67,p = 0.789), and in the breast (18.9 vs 25.8 months,p = 0.354), lung (7.0 vs 6.7 months,p = 0.970) and other cancers (4.5 vs 8.8 months,p = 0.449) subgroups.

Grade 3/4 haematological toxicities were lower with docetaxel-sunitinib (18.2% vs 34.3%,p = 0.132), attributed to greater discretionary use of prophylactic G-CSF (90.9% vs 63.0%,p = 0.024). Grade 3/4 non-haematological toxicities were similar (12.1% vs 14.3%,p = 0.792).

Conclusions

The addition of sunitinib to docetaxel was well-tolerated but did not improve outcomes. The possible negative impact in metastatic breast cancer patients is contrary to results of adding sunitinib to neoadjuvant AC. These negative results suggest that the intermittent administration of sunitinib in the current dose and schedule with docetaxel in advanced solid tumours, particularly breast cancers, is not beneficial.

Trial registration

The study was registered (NCT01803503) prospectively on clinicaltrials.gov on 4th March 2013.
Systematic review of the incidence of post-operative trichiasis in Africa
Authors: Mwangi Grace , Courtright Paul , Solomon Anthony W
Published: November 2020

Background

Surgery for trichiasis is one of the pillars of the World Health Organization’s strategy for global elimination of trachoma as a public health problem. A high incidence of post-operative trichiasis or other poor surgical outcomes could jeopardize these efforts. In this review, we aimed to summarize the reported incidence of post-operative trichiasis and other poor outcomes of trichiasis surgery in Africa.

Methods

We conducted a systematic literature search using PubMed, Academic Search Premier, Africa-Wide Information, CINAHL and Health Source Nursing through EBSCOhost, Web of Science, and the Cochrane Central Register of Controlled Trials. Reference lists of included studies were also reviewed to identify further potentially relevant publications. All observational and interventional studies that measured post-operative trichiasis in Africa as an outcome of trichiasis surgery were included.

Results

Thirty-five papers reporting on 22 studies (9 interventional,13 observational; total 13,737 participants) met the inclusion criteria. The reported incidence of post-operative trichiasis in the included studies ranged from 2% (at 6 weeks after bilamellar tarsal rotation) to 69% (at 3 weeks after anterior lamellar repositioning). The incidence varied by surgical procedure, study design, and length of follow-up.

Conclusion

Trichiasis surgical outcomes should be improved. National trachoma programmes could benefit from identifying and adopting strategies to improve the performance and quality of their surgical service.
Comparison of Body Mass Index and fat percentage criteria classification of 7–13 year-old rural boys in South Africa
Authors: van Gent Maya , Pienaar Anita , Noorbhai Habib
Published: November 2020

Background

The aim of this paper was to investigate whether BMI and fat percentage classification criteria, would classify a sample of 7–13 year old boys from a rural background in similar nutritional categories.

Methods

A cross-sectional study with a stratified random sampling included 601 rural boys (7–13 years old). Fat percentage criteria classification and BMI were calculated and compared. Maturity status, and age at peak height velocity (PHV) were indirectly determined. Statistical techniques included descriptive statistics, Pearson product correlation coefficients, the Kappa agreement test and the McNemar’s test. The level of statistical significance was set at p ≤ 0.05.

Results

All age groups presented with statistically significant high correlations between BMI and fat percentage, and low to medium correlations between fat percentage and maturity age (MA). Measurement of agreement between BMI and fat percentage classifications showed poor to fair agreements for all age groups, with the exception of the eight-year old group which presented a moderate agreement.

Conclusions

Classifications based on BMI and fat percentage, results in different classifications for the same population. Until further research has been done to determine the best classification for nutritional status, it is recommended that both classification methods be used for more accurate classification of nutritional status.
Systems leadership in practice: thematic insights from three public health case studies
Authors: Bigland Charlotte , Evans David , Bolden Richard , Rae Maggie
Published: November 2020

Background

‘Systems leadership’ has emerged as a key concept in global public health alongside such related concepts as ‘systems thinking’ and ‘whole systems approaches.’ It is an approach that is well suited to issues that require collective action, where no single organisation can control the outcomes. While there is a growing literature on the theory of systems leadership in a number of fields, there remains a lack of published empirical studies of public health systems leadership for professionals to learn from. The aim of the current project was to conduct cases studies in UK public health to provide empirical evidence on the nature of effective systems leadership practice.

Methods

Three system leadership case studies were identified in the key domains of public health: health protection, healthcare public health and health improvement. A total of 27 semi-structured interviews were conducted. Data were thematically analysed to identify the components of effective systems leadership in each case and its impact.

Results

The thematic analysis identified themes around ‘getting started,’ ‘maintaining momentum’ and ‘indicators of success’ in systems leadership. In terms of getting started, the analysis showed that both a compelling ‘call to action’ and assembling an effective ‘coalition of the willing’ are important. To maintain momentum, the analysis identified themes relating to system structure, culture and the people involved. Regarding culture, the main themes that emerged were the importance of nurturing strong relationships, curiosity and a desire to understand the system, and promoting resilience. The analysis identified three components that could be used as indicators of success; these were a sense of enjoyment from the work, resource gains to the system and shifts in data indicators at the population level.

Conclusions

This study has provided insight into the nature of systems leadership in public health settings in the UK. It has identified factors that contribute to effective public health systems leadership and offers a thematic model in terms of establishing a systems leadership approach, maintaining momentum and identifying key success indicators.
Evaluation of a multimedia youth anti-smoking and girls’ empowerment campaign: SKY Girls Ghana
Authors: Hutchinson Paul , Leyton Alejandra , Meekers Dominique , Stoecker Charles , Wood Francine , Murray Joanna , Dodoo Naa Dodua , Biney Adriana
Published: November 2020

Background

Given the long-term health effects of smoking during adolescence and the substantial role that tobacco-related morbidity and mortality play in the global burden of disease, there is a worldwide need to design and implement effective youth-focused smoking prevention interventions. While smoking prevention interventions that focus on both social competence and social influence have been successful in preventing smoking uptake among adolescents in developed countries, their effectiveness in developing countries has not yet been clearly demonstrated. SKY Girls is a multimedia, empowerment and anti-smoking program aimed at 13–16-year old girls in Accra, Ghana. The program uses school and community-based events, a magazine, movies, a radio program, social media and other promotional activities to stimulate normative and behavioral change.

Methods

This study uses pre/post longitudinal data on 2625 girls collected from an interviewer-administered questionnaire. A quasi-experimental matched design was used, incorporating comparison cities with limited or no exposure to SKY Girls (Teshie, Kumasi and Sunyani). Fixed-effects modeling with inverse probability weighting was used to obtain doubly robust estimators and measure the causal influence of SKY Girls on a set of 15 outcome indicators.

Results

Results indicate that living and studying in the intervention city was associated with an 11.4 percentage point (pp) (95% CI [2.1, 20.7]) increase in the proportion of girls perceiving support outside their families; an 11.7 pp. decrease (95% CI [− 20.8, − 2.6]) in girls’ perception of pressure to smoke cigarettes; a 12.3 pp. increase (95% CI [2.1, 20.7]) in the proportion of girls who had conversations with friends about smoking; an 11.7 pp. increase (95% CI [3.8, 20.8]) in their perceived ability to make choices about what they like and do not like, and 20.3 pp. (95% CI [− 28.4, − 12.2]) and 12.1 pp. (95% CI [− 20.7, − 3.5]) reductions in the proportion agreeing with the idea that peers can justify smoking shisha and cigarettes, respectively. An analysis of the dose-effect associations between exposure to multiple campaign components and desired outcomes was included and discussed.

Conclusion

The study demonstrates the effectiveness of a multimedia campaign to increase perceived support, empowerment and improve decision-making among adolescent girls in a developing country.
RETRACTED ARTICLE: Protocatechuic aldehyde from Salvia miltiorrhiza exhibits an anti-inflammatory effect through inhibiting MAPK signalling pathway
Authors: Wu Shuang , Wang Qingyu , Wang Jinquan , Duan Baoyu , Tang Qihe , Sun Zhuojian , Han Jinlong , Shan Chenggang , Wang Zhifen , Hao Zhihui
Published: November 2020

Background

The aerial parts of Salvia miltiorrhiza, which was considered to be the waste part and discarded during the root harvest, is rich in protocatechuic aldehyde (PAI). This study investigated the health-promoting effects of extracts and PAI from the aerial parts of Salvia miltiorrhiza, including its anti-inflammatory effects and the underlying mechanisms of action in vitro and in vivo.

Method

Purification of the sample paste of Salvia miltiorrhiza was accomplished using HPLC analysis. TheMTT (Methylthiazolyldiphenyl-tetrazolium bromide) assay was employed to determine the cell viability. The production of inflammatory factors was detected by ELISA assays. The histopathological analysis was used to analyse the lungs and livers of mice treated with PAI. Western blot was performed to reveal the mechanism of PAI in anti-inflammatory.

Results

The extracts and PAI from the aerial parts of Salvia miltiorrhiza inhibited TNF-α, IL-6 production and promoted the production of IL-10 in vivo in mice and in vitro in the macrophage cell line RAW264.7. NF-κB and MAPKs kinase phosphorylation were also suppressed by PAI in vivo and in vitro, indicating that PAI exhibited an anti-inflammatory effect.

Conclusion

These findings suggest that the aerial parts of Salvia miltiorrhiza extract may serve as potential protective agents for inflammatory.
Findings from a three-round Delphi study: essential topics for interprofessional training on complementary and integrative medicine
Authors: Homberg Angelika , Klafke Nadja , Loukanova Svetla , Glassen Katharina
Published: November 2020

Background

Integrating complementary medicine into medical care promotes patient-oriented care. A well-informed and collaborative professional healthcare team is essential for effective and patient-safe implementation of these methods. At present, the skills for patient counseling, therapy and care regarding complementary medicine vary among the professional groups involved. Professionals generally feel that they are not sufficiently qualified in this area. Curricular concepts for Complementary and Integrative Medicine (CIM) are virtually non-existent in undergraduate interprofessional training. The aim of this study is to initiate a consensus-building process between various experts (professionals, students, patient and faculty representatives) in order to identify which topics should be the focus of such a curriculum.

Methods

A three-round Delphi study was carried out from March 2018 to March 2019 to compile the experience and knowledge of experts in the field of integrative patient care and interprofessional education. Sixty-five experts from Germany and German-speaking Switzerland with various professional backgrounds and experiences were asked to name general content, therapy methods and treatment reasons which should be addressed in interprofessional seminars. In the subsequent rounds these were rated on a seven-point Likert scale. The ratings were assigned to relevance groups and discussed in a final workshop in July 2019.

Results

The response rates for the three rounds were 76% (n = 50), 80% (n = 40) 90% (n = 36); and 21% (n = 11) for the final workshop. The experts suggested that topics could be aligned along the most common treatment reasons such as insomnia, generalized pain, fatigue and back pain. However, it is important that students also receive an overview of the evidence base for different therapeutic concepts, especially in the field of classical natural medicine, acupuncture and mind-body medicine, and that they get an overview of the effects and interactions of frequently used procedures.

Conclusion

Consensus was reached among the various experts on the most important topics for an interprofessional CIM curriculum. The systematic evaluation of the topics in this study can help to create a curriculum that achieves a high level of acceptance among teachers, lecturers and students, and thus facilitates implementation at universities and medical faculties.
Evaluation of a pilot immunization curriculum to meet competency training needs of medical residents
Authors: Shalansky Rebecca A. , Wu Margaret , Shen Shixin Cindy , Furness Colin , Morris Shaun K. , Reynolds Donna , Wong Tom , Pakes Barry , Crowcroft Natasha
Published: November 2020

Background

Vaccination is the most cost-effective medical intervention known to prevent morbidity and mortality. However, data are limited on the effectiveness of residency programs in delivering immunization knowledge and skills to trainees. The authors sought to describe the immunization competency needs of medical residents at the University of Toronto (UT), and to develop and evaluate a pilot immunization curriculum.

Methods

Residents at the University of Toronto across nine specialties were recruited to attend a pilot immunization workshop in November 2018. Participants completed a questionnaire before and after the workshop to assess immunization knowledge and compare baseline change. Feedback was also surveyed on the workshop content and process.

Descriptive statistics were performed on the knowledge questionnaire and feedback survey. A paired sample T-test compared questionnaire answers before and after the workshop. Descriptive coding was used to identify themes from the feedback survey.

Results

Twenty residents from at least six residencies completed the pre-workshop knowledge questionnaire, seventeen attended the workshop, and thirteen completed the post-workshop questionnaire. Ninety-five percent (19/20) strongly agreed that vaccine knowledge was important to their career, and they preferred case-based teaching. The proportion of the thirty-four knowledge questions answered correctly increased from 49% before the workshop to 67% afterwards, with a mean of 2.24 (CI: 1.43, 3.04) more correct answers (P < 0.001).

Sixteen residents completed the post-workshop feedback survey. Three themes emerged: first, they found the content specific and practical; second, they wanted more case-based learning and for the workshop to be longer; and third, they felt the content and presenters were of high quality.

Conclusions

Findings from this study suggest current immunization training of UT residents does not meet their training competency requirements. The study’s workshop improved participants’ immunization knowledge. The information from this study could be used to develop residency immunization curriculum at UT and beyond.
Breast cancer risk factors and their effects on survival: a Mendelian randomisation study
Authors: Escala-Garcia Maria , Morra Anna , Canisius Sander , Chang-Claude Jenny , Kar Siddhartha , Zheng Wei , Bojesen Stig E. , Easton Doug , Pharoah Paul D. P. , Schmidt Marjanka K.
Published: November 2020

Background

Observational studies have investigated the association of risk factors with breast cancer prognosis. However, the results have been conflicting and it has been challenging to establish causality due to potential residual confounding. Using a Mendelian randomisation (MR) approach, we aimed to examine the potential causal association between breast cancer-specific survival and nine established risk factors for breast cancer: alcohol consumption, body mass index, height, physical activity, mammographic density, age at menarche or menopause, smoking, and type 2 diabetes mellitus (T2DM).

Methods

We conducted a two-sample MR analysis on data from the Breast Cancer Association Consortium (BCAC) and risk factor summary estimates from the GWAS Catalog. The BCAC data included 86,627 female patients of European ancestry with 7054 breast cancer-specific deaths during 15 years of follow-up. Of these, 59,378 were estrogen receptor (ER)-positive and 13,692 were ER-negative breast cancer patients. For the significant association, we used sensitivity analyses and a multivariable MR model. All risk factor associations were also examined in a model adjusted by other prognostic factors.

Results

Increased genetic liability to T2DM was significantly associated with worse breast cancer-specific survival (hazard ratio [HR] = 1.10, 95% confidence interval [CI] = 1.03–1.17, P value [P] = 0.003). There were no significant associations after multiple testing correction for any of the risk factors in the ER-status subtypes. For the reported significant association with T2DM, the sensitivity analyses did not show evidence for violation of the MR assumptions nor that the association was due to increased BMI. The association remained significant when adjusting by other prognostic factors.

Conclusions

This extensive MR analysis suggests that T2DM may be causally associated with worse breast cancer-specific survival and therefore that treating T2DM may improve prognosis.
Prevalence of readily detected amyloid blood clots in ‘unclotted’ Type 2 Diabetes Mellitus and COVID-19 plasma: a preliminary report
Authors: Pretorius Etheresia , Venter Chantelle , Laubscher Gert Jacobus , Lourens Petrus Johannes , Steenkamp Janami , Kell Douglas B.
Published: November 2020

Background

Type 2 Diabetes Mellitus (T2DM) is a well-known comorbidity to COVID-19 and coagulopathies are a common accompaniment to both T2DM and COVID-19. In addition, patients with COVID-19 are known to develop micro-clots within the lungs. The rapid detection of COVID-19 uses genotypic testing for the presence of SARS-Cov-2 virus in nasopharyngeal swabs, but it can have a poor sensitivity. A rapid, host-based physiological test that indicated clotting severity and the extent of clotting pathologies in the individual who was infected or not would be highly desirable.

Methods

Platelet poor plasma (PPP) was collected and frozen. On the day of analysis, PPP samples were thawed and analysed. We show here that microclots can be detected in the native plasma of twenty COVID-19, as well as ten T2DM patients, without the addition of any clotting agent, and in particular that such clots are amyloid in nature as judged by a standard fluorogenic stain. Results were compared to ten healthy age-matched individuals.

Results

In COVID-19 plasma these microclots are significantly increased when compared to the levels in T2DM.

Conclusions

This fluorogenic test may provide a rapid and convenient test with 100% sensitivity (P < 0.0001) and is consistent with the recognition that the early detection and prevention of such clotting can have an important role in therapy.
Multiple processes independently predict motor learning
Authors: Perry Christopher M. , Singh Tarkeshwar , Springer Kayla G. , Harrison Adam T. , McLain Alexander C. , Herter Troy M.
Published: November 2020

Background

Our ability to acquire, refine and adapt skilled limb movements is a hallmark of human motor learning that allows us to successfully perform many daily activities. The capacity to acquire, refine and adapt other features of motor performance, such as visual search, eye-hand coordination and visuomotor decisions, may also contribute to motor learning. However, the extent to which refinements of multiple behavioral features and their underlying neural processes independently contribute to motor learning remains unknown. In the current study, we used an ethological approach to test the hypothesis that practice-related refinements of multiple behavioral features would be independently predictive of motor learning.

Methods

Eighteen healthy, young adults used an upper-limb robot with eye-tracking to practice six trials of a continuous, visuomotor task once a week for six consecutive weeks. Participants used virtual paddles to hit away 200 “Targets” and avoid hitting 100 “Distractors” that continuously moved towards them from the back of the workspace. Motor learning was inferred from trial-by-trial acquisition and week-by-week retention of improvements on two measures of task performance related to motor execution and motor inhibition. Adaptations involving underlying neural processes were inferred from trial-by-trial acquisition and week-by-week retention of refinements on measures of skilled limb movement, visual search, eye-hand coordination and visuomotor decisions. We tested our hypothesis by quantifying the extent to which refinements on measures of multiple behavioral features (predictors) were independently predictive of improvements on our two measures of task performance (outcomes) after removing all shared variance between predictors.

Results

We found that refinements on measures of skilled limb movement, visual search and eye-hand coordination were independently predictive of improvements on our measure of task performance related to motor execution. In contrast, only refinements of eye-hand coordination were independently predictive of improvements on our measure of task performance related to motor inhibition.

Conclusion

Our results provide indirect evidence that refinements involving multiple, neural processes may independently contribute to motor learning, and distinct neural processes may underlie improvements in task performance related to motor execution and motor inhibition. This also suggests that refinements involving multiple, neural processes may contribute to motor recovery after stroke, and rehabilitation interventions should be designed to produce refinements of all behavioral features that may contribute to motor recovery.
Proposal of a new equation for estimating resting energy expenditure of acute kidney injury patients on dialysis: a machine learning approach
Authors: Ponce Daniela , de Goes Cassiana Regina , de Andrade Luis Gustavo Modelli
Published: November 2020

Background

The objective of this study was to develop a new predictive equation of resting energy expenditure (REE) for acute kidney injury patients (AKI) on dialysis.

Materials and methods

A cross-sectional descriptive study was carried out of 114 AKI patients, consecutively selected, on dialysis and mechanical ventilation, aged between 19 and 95 years. For construction of the predictive model, 80% of cases were randomly separated to training and 20% of unused cases to validation. Several machine learning models were tested in the training data: linear regression with stepwise, rpart, support vector machine with radial kernel, generalised boosting machine and random forest. The models were selected by ten-fold cross-validation and the performances evaluated by the root mean square error.

Results

There were 364 indirect calorimetry measurements in 114 patients, mean age of 60.65 ± 16.9 years and 68.4% were males. The average REE was 2081 ± 645 kcal. REE was positively correlated with C-reactive protein, minute volume (MV), expiratory positive airway pressure, serum urea, body mass index and inversely with age. The principal variables included in the selected model were age, body mass index, use of vasopressors, expiratory positive airway pressure, MV, C-reactive protein, temperature and serum urea. The final r-value in the validation set was 0.69.

Conclusion

We propose a new predictive equation for estimating the REE of AKI patients on dialysis that uses a non-linear approach with better performance than actual models.
Some fixed point results of generalized $$(\phi , \psi )$$-contractive mappings in ordered b-metric spaces
Authors: Mitiku Belay , Karusala Kalyani , Namana Seshagiri Rao
Published: November 2020

Objectives

The aim of this paper is to establish some fixed point, coincidence point and, coupled coincidence and coupled common fixed point results for generalized$$(\phi , \psi )$$(ϕ,ψ)-contractive mappings in partially orderedb-metric spaces. Our results generalize, extend and unify most of the fundamental metrical fixed point theorems in the existing literature. Few examples are illustrated to justify our results.

Result

The existence and uniqueness theorems for a fixed point and coincidence point, coupled coincidence point and coupled common fixed points for two mappings satisfying generalized$$(\phi , \psi )$$(ϕ,ψ)-contractive conditions in complete partially orderedb-metric spaces are proved. These results generalize several comparable results in the existing literature.
An inertial extrapolation method for multiple-set split feasibility problem
Authors: Taddele Guash Haile , Kumam Poom , Gebrie Anteneh Getachew
Published: November 2020

In this paper, we propose an iterative algorithm with inertial extrapolation to approximate the solution of multiple-set split feasibility problem. Based on Lopez et al. (Inverse Probl. 28(8):085004, 2012), we have developed a self-adaptive technique to choose the stepsizes such that the implementation of our algorithm does not need any prior information about the operator norm. We then prove the strong convergence of a sequence generated by our algorithm. We also present numerical examples to illustrate that the acceleration of our algorithm is effective.
Explicit criteria for the oscillation of second-order differential equations with several sub-linear neutral coefficients
Authors: Santra Shyam Sundar , Ghosh Tanusri , Bazighifan Omar
Published: November 2020

In this work, we present sufficient conditions for oscillation of all solutions of a second-order functional differential equation. We consider two special cases when$\gamma >\beta $γ>βand$\gamma <\beta $γ<β. This new theorem complements and improves a number of results reported in the literature. Finally, we provide examples illustrating our results and state an open problem.
Comparing health insurance data and health interview survey data for ascertaining chronic disease prevalence in Belgium
Authors: Berete Finaba , Demarest Stefaan , Charafeddine Rana , Bruyère Olivier , Van der Heyden Johan
Published: November 2020

Background

Health administrative data were increasingly used for chronic diseases (CDs) surveillance purposes. This cross sectional study explored the agreement between Belgian compulsory health insurance (BCHI) data and Belgian health interview survey (BHIS) data for asserting CDs.

Methods

Individual BHIS 2013 data were linked with BCHI data using the unique national register number. The study population included all participants of the BHIS 2013 aged 15 years and older. Linkage was possible for 93% of BHIS-participants, resulting in a study sample of 8474 individuals. For seven CDs disease status was available both through self-reported information from the BHIS and algorithms based on ATC-codes of disease-specific medication, developed on demand of the National Institute for Health and Disability Insurance (NIHDI). CD prevalence rates from both data sources were compared. Agreement was measured using sensitivity, specificity, positive predictive value (PPV) and negative predictive value (NPV) assuming BHIS data as gold standard. Kappa statistic was also calculated. Participants’ sociodemographic and health status characteristics associated with agreement were tested using logistic regression for each CD.

Results

Prevalence from BCHI data was significantly higher for CVDs but significantly lower for COPD and asthma. No significant difference was found between the two data sources for the remaining CDs. Sensitivity was 83% for CVDs, 78% for diabetes and ranged from 27 to 67% for the other CDs. Specificity was excellent for all CDs (above 98%) except for CVDs. The highest PPV was found for Parkinson’s disease (83%) and ranged from 41 to 75% for the remaining CDs. Irrespective of the CDs, the NPV was excellent. Kappa statistic was good for diabetes, CVDs, Parkinson’s disease and thyroid disorders, moderate for epilepsy and fair for COPD and asthma. Agreement between BHIS and BCHI data is affected by individual sociodemographic characteristics and health status, although these effects varied across CDs.

Conclusions

NHIDI’s CDs case definitions are an acceptable alternative to identify cases of diabetes, CVDs, Parkinson’s disease and thyroid disorders but yield in a significant underestimated number of patients suffering from asthma and COPD. Further research is needed to refine the definitions of CDs from administrative data.
Constrained multi-fidelity surrogate framework using Bayesian optimization with non-intrusive reduced-order basis
Authors: Khatouri Hanane , Benamara Tariq , Breitkopf Piotr , Demange Jean , Feliot Paul
Published: November 2020

This article addresses the problem of constrained derivative-free optimization in a multi-fidelity (or variable-complexity) framework using Bayesian optimization techniques. It is assumed that the objective and constraints involved in the optimization problem can be evaluated using either an accurate but time-consuming computer program or a fast lower-fidelity one. In this setting, the aim is to solve the optimization problem using as few calls to the high-fidelity program as possible. To this end, it is proposed to use Gaussian process models with trend functions built from the projection of low-fidelity solutions on a reduced-order basis synthesized from scarce high-fidelity snapshots. A study on the ability of such models to accurately represent the objective and the constraints and a comparison of two improvement-based infill strategies are performed on a representative benchmark test case.
Bioprospecting the antimicrobial, antibiofilm and antiproliferative activity of Symplocos racemosa Roxb. Bark phytoconstituents along with their biosafety evaluation and detection of antimicrobial components by GC-MS
Authors: Sood Henna , Kumar Yashwant , Gupta Vipan Kumar , Arora Daljit Singh
Published: November 2020

Background

Plants provide a ray of hope to combat the ever increasing antibiotic resistance andSymplocos racemosais a valuable medicinal plant. The study focused on highlighting the importance of this plant’s phytoconstituents as potential source of novel antimicrobials against planktonic as well as biofilm forming microorganisms, along with their antiproliferative activity. The biosafety of the phytoconstituents was also established, followed by detection of probable antimicrobial components.

Methods

The best organic extractant and major groups of phytoconstituents were tested for their antimicrobial activity against reference microbial strains and drug-resistant clinical isolates. The anti-proliferative potential of the most active group of phytoconstituents was evaluated against cancerous cell lines. The in vitro biosafety of phytoconstituents was evaluated by Ames and MTT assay, while in vivo biosafety of the most active phytoconstituents, i.e., flavonoids was determined by acute oral toxicity. Further, the probable antimicrobial components in the flavonoids were detected by TLC and GC-MS.

Results

Ethyl acetate extract was the most effective among various organic extracts, whereas phytoconstituents such as flavonoids, cardiac glycosides, saponins, tannins, triterpenes and phytosterols were the major groups present, with flavonoids being the most potent antimicrobials. The phytoconstituents displayed a significant antibiofilm potential, as exhibited by inhibition of initial cell attachment, disruption of the pre-formed biofilms and reduced metabolic activity of biofilms. The phytoconstituents were significantly active against the drug-resistant strains ofE.coli, MRSA andSalmonellaspp. Further, flavonoids showed significant cytotoxic effect against the cancerous cell lines but were non-cytotoxic against Vero (normal) cell line. All the test preparations were biosafe, as depicted by the Ames test and MTT assay. Also, flavonoids did not induce any abnormality in body weight, clinical signs, biochemical parameters and organs’ histopathology of the Swiss albino mice during in vivo acute oral toxicity studies. The flavonoids were resolved into 4 bands (S1-S4), where S3 was the most active and its GC-MS analysis revealed the presence of a number of compounds, where Bicyclo [2.2.1]heptan-2-one,1,7,7-trimethyl-, (1S)- was the most abundant.

Conclusions

These findings suggest that the phytoconstituents fromSymplocos racemosabark could act as potential source of antimicrobial as well as antiproliferative metabolites.
Variations of the peak positions in the longitudinal profile of noon-time equatorial electrojet
Authors: Tuo Zié , Doumbia Vafi , Coïsson Pierdavide , Kouassi N’Guessan , Kassamba Abdel Aziz
Published: November 2020

In this study, the seasonal variations of the EEJ longitudinal profiles were examined based on the full CHAMP satellite magnetic measurements from 2001 to 2010. A total of 7537 satellite noon-time passes across the magnetic dip-equator were analyzed. On the average, the EEJ exhibits the wave-four longitudinal pattern with four maxima located, respectively, around 170° W, 80° W, 10° W and 100° E longitudes. However, a detailed analysis of the monthly averages yielded the classification of the longitudinal profiles in two types. Profiles with three main maxima located, respectively, around 150° W, 0° and 120° E, were observed in December solstice (D) of the Lloyd seasons. In addition, a secondary maximum observed near 90° W in November, December and January, reinforces from March to October to establish the wave-four patterns of the EEJ longitudinal variation. These wave-four patterns were divided into two groups: a group of transition which includes equinox months March, April and October and May in the June solstice; and another group of well-established wave-four pattern which covers June, July, August of the June solstice and the month of September in September equinox. For the first time, the motions in the course of seasons of various maxima of the EEJ noon-time longitudinal profiles have been clearly highlighted.