bluuebunny/crossref_metadata_2025_split huggingface dataset:
Household-level risk factors for Aedes aegypti pupal density in Guayaquil, Ecuador
Authors: Ha Thien-An , León Tomás M. , Lalangui Karina , Ponce Patricio , Marshall John M. , Cevallos Varsovia 
Published: September 2021

Abstract
Background
Vector-borne diseases are a major cause of disease burden in Guayaquil, Ecuador, especially arboviruses spread by Aedes aegypti mosquitoes. Understanding which household characteristics and risk factors lead to higher Ae. aegypti densities and consequent disease risk can help inform and optimize vector control programs.

Methods
Cross-sectional entomological surveys were conducted in Guayaquil between 2013 and 2016, covering household demographics, municipal services, potential breeding containers, presence of Ae. aegypti larvae and pupae, and history of using mosquito control methods. A zero-truncated negative binomial regression model was fitted to data for estimating the household pupal index. An additional model assessed the factors of the most productive breeding sites across all of the households.

Results
Of surveyed households, 610 satisfied inclusion criteria. The final household-level model found that collection of large solid items (e.g., furniture and tires) and rainfall the week of and 2 weeks before collection were negatively correlated with average pupae per container, while bed canopy use, unemployment, container water volume, and the interaction between large solid collection and rainfall 2 weeks before the sampling event were positively correlated. Selection of these variables across other top candidate models with ∆AICc < 1 was robust, with the strongest effects from large solid collection and bed canopy use. The final container-level model explaining the characteristics of breeding sites found that contaminated water is positively correlated with Ae. aegypti pupae counts while breeding sites composed of car parts, furniture, sewerage parts, vases, were all negatively correlated.

Conclusions
Having access to municipal services like bulky item pickup was effective at reducing mosquito proliferation in households. Association of bed canopy use with higher mosquito densities is unexpected, and may be a consequence of large local mosquito populations or due to limited use or effectiveness of other vector control methods. The impact of rainfall on mosquito density is multifaceted, as it may both create new habitat and “wash out” existing habitat. Providing services and social/technical interventions focused on monitoring and eliminating productive breeding sites is important for reducing aquatic-stage mosquito densities in households at risk for Ae. aegypti-transmitted diseases.

Graphical Abstract
The genomic architecture of EBV and infected gastric tissue from precursor lesions to carcinoma
Authors: Chen Zhang-Hua , Yan Shu-Mei , Chen Xi-Xi , Zhang Qi , Liu Shang-Xin , Liu Yang , Luo Yi-Ling , Zhang Chao , Xu Miao , Zhao Yi-Fan , Huang Li-Yun , Liu Bin-Liu , Xia Tian-Liang , Xu Da-Zhi , Liang Yao , Chen Yong-Ming , Wang Wei , Yuan Shu-Qiang , Zhang Hui-Zhong , Yun Jing-Ping , Zhai Wei-Wei , Zeng Mu-Sheng , Bai Fan , Zhong Qian 
Published: September 2021

Abstract
Background
Epstein-Barr virus (EBV)-associated gastric carcinomas (EBVaGCs) present unique molecular signatures, but the tumorigenesis of EBVaGCs and the role EBV plays during this process remain poorly understood.

Methods
We applied whole-exome sequencing, EBV genome sequencing, and whole-genome bisulfite sequencing to multiple samples (n = 123) derived from the same patients (n = 25), which covered saliva samples and different histological stages from morphologically normal epithelial tissues to dysplasia and EBVaGCs. We compared the genomic landscape between EBVaGCs and their precursor lesions and traced the clonal evolution for each patient. We also analyzed genome sequences of EBV from samples of different histological types. Finally, the key molecular events promoting the tumor evolution were demonstrated by MTT, IC50, and colony formation assay in vitro experiments and in vivo xenograft experiments.

Results
Our analysis revealed increasing mutational burden and EBV load from normal tissues and low-grade dysplasia (LD) to high-grade dysplasia (HD) and EBVaGCs, and oncogenic amplifications occurred late in EBVaGCs. Interestingly, within each patient, EBVaGCs and HDs were monoclonal and harbored single-strain-originated EBV, but saliva or normal tissues/LDs had different EBV strains from that in EBVaGCs. Compared with precursor lesions, tumor cells showed incremental methylation in promotor regions, whereas EBV presented consistent hypermethylation. Dominant alterations targeting the PI3K-Akt and Wnt pathways were found in EBV-infected cells. The combinational inhibition of these two pathways in EBV-positive tumor cells confirmed their synergistic function.

Conclusions
We portrayed the (epi) genomic evolution process of EBVaGCs, revealed the extensive genomic diversity of EBV between tumors and normal tissue sites, and demonstrated the synergistic activation of the PI3K and Wnt pathways in EBVaGCs, offering a new potential treatment strategy for this disease.
Phenotypic features and analysis of genes supporting probiotic action unravel underlying perspectives of Bacillus velezensis VTX9 as a potential feed additive for swine
Authors: Quach Ngoc Tung , Vu Thi Hanh Nguyen , Nguyen Ngoc Anh , Nguyen Van The , Bui Thi Lien , Ky Son Chu , Le Tung Lam , Hoang Ha , Ngo Cao Cuong , Le Thanh Thi Minh , Nguyen Trung Nam , Chu Hoang Ha , Phi Quyet Tien 
Published: September 2021

Abstract
Purpose
To date, a total of 13 probiotic Bacillus species are considered as a Generally Recognized as Safe organism (GRAS) approved by the US Federal Food, Drug, and Cosmetic Act (FDCA), which are used for food and feed additives. However, Bacillus velezensis is not considered as a probiotic candidate in swine farming due to a lack of genetic basis of probiotic action-related traits. Therefore, the present study was undertaken to exploit the genetic basis underlying the probiotic traits of B. velezensis VTX9.

Methods
The genome sequencing of B. velezensis VTX9 was performed on a PacBio Sequel platform. The probiotic properties including biosafety, antioxidative capacity, and riboflavin and exopolysaccharide production were evaluated by using genotypic and phenotypic analysis. The secondary metabolite potentials were also predicted.

Results
Strain VTX9 isolated from swine feces proved some probiotic properties including resistance to 3 mM H2O2, 0.6 mM bile salt, low pH, and antipathogenic activity. The complete genome of B. velezensis VTX9 consists of a 3,985,800 bp chromosome that housed 3736 protein-coding genes and 5 plasmids with the size ranging from 7261 to 20,007 bp. Genome analysis revealed no functional genes encoding enterotoxins and transferable antibiotic resistance, which confirmed the safety of VTX9. A total of 82 genes involved in gastrointestinal stress tolerance were predicted, which has not been reported previously. The maximum production of riboflavin reached 769 ± 7.5 ng/ml in LB medium after 72 h, which was in agreement with the complete de novo riboflavin biosynthetic pathway exploited for the first time in the B. velezensis genome. Antagonistic activity against pathogenic bacteria was attributed to 10 secondary metabolites clusters. The presence of a large gene cluster involved in biosynthesis of exopolysaccharides underscored further the adhesion and biofilm-forming capabilities of VTX9 in swine intestines.

Conclusion
Our results revealed for the first time that B. velezensis VTX9 has the potential to be a probiotic candidate. The information provided here on the genome of B. velezensis VTX9 opens new opportunities for using B. velezensis as a feed additive for swine farming in the future.
The extract of black cumin, licorice, anise, and black tea alleviates OVA-induced allergic rhinitis in mouse via balancing activity of helper T cells in lung
Authors: Liao Chengsong , Han Yangyang , Chen Zhijing , Baigude Huricha 
Published: September 2021

Abstract
Background
A formulation of black cumin (Nigella sativa L.), licorice (Glycyrrhiza glabra L.), anise (Pimpinella anisum L.) and tea (Camellia sinensis (L.) Kuntze) (denoted BLAB tea) is traditionally used to relief allergy reaction including allergic rhinitis. However, little is known about its underlining mechanism of anti-allergic effects.

Methods
To investigate the anti-allergenic mechanism of BLAB tea, we treated ovalbumin (OVA)-induced allergic rhinitis (AR) model of mice with BLAB tea, and elucidated its possible mechanism of action. Mice in the control group were treated with phosphate-buffered saline only. Subsequently, the infiltration of different inflammatory cells was measured. In addition, histopathological changes in the nasal mucosa, and the levels of allergen-specific cytokines and OVA-specific immunoglobulins were measured.

Results
The aqueous extract of BLAB significantly alleviated the nasal symptoms and reduced the accumulation of inflammatory cells in the nasal mucosa and nasal lavage fluid of AR model of mice.

Conclusion
The aqueous extract of BLAB induced the production of Th1 and Treg cytokines and inhibited the release of Th2 cytokines and histamine in nasal mucosa and serum of mice while decreasing the serum levels of OVA-specific IgE, IgG1, and IgG2a. These results suggest the potential of the aqueous extract of BLAB as a treatment option for allergic diseases.
A protocol for a systematic literature review of economic evaluation studies of interventions to address antimicrobial resistance
Authors: Ananthakrishnan Aparna , Painter Chris , Teerawattananon Yot 
Published: September 2021

Abstract
Background
Antimicrobial resistance (AMR) is accelerated by the widespread and often indiscriminate use of antimicrobials in humans, animals, and the environment. In 2015, the World Health Organization recognised AMR as one of the top ten global health threats, due to its potential to neutralise humanity’s advancements in western medicine by enabling the emergence of new strains of existing pathogens, many of which have no available treatments. Over the past decade, several countries, including those in low- and middle-income contexts, have started implementing interventions to tackle AMR. However, economic evidence regarding the cost-effectiveness of these interventions remains weak. To address this evidence gap, we will conduct a systematic literature review to provide a comprehensive summary on the value for money of different AMR interventions.

Methods
We aim to conduct a systematic literature review of all available economic evaluations on interventions addressing AMR and will provide a narrative synthesis of our findings. Systematic searches for relevant studies will be performed across all suitable databases as well as in grey literature sources such as unpublished studies, reports, and other relevant documents. All economic evaluation studies will be included as long as they report an economic outcome and have stated that the analysed intervention will reduce antimicrobial resistance or antimicrobial use in the abstract. Those studies reporting clinical endpoints alone will be excluded. Selection for final inclusion and data extraction will be performed by two independent reviewers.

Discussion
The review will be one of the first of its kind, and the most recent, to systematically review literature on the cost-effectiveness of AMR interventions, an important evidence gap in the economics of AMR. The findings will enable policy and decision-makers, particularly in resource-constrained settings, to better use available resources when selecting interventions to address AMR burdens,

Systematic review registration
PROSPERO CRD42020190310
Meta-analysis of the association between angiotensin pathway inhibitors and COVID-19 severity and mortality
Authors: Fernando Malindu E. , Drovandi Aaron , Golledge Jonathan 
Published: September 2021

Abstract
Background
Conflicting findings and the analysis of unpublished and retracted data have led to controversy on the safety of angiotensin-converting enzyme inhibitors and angiotensin receptor blockers in people with COVID-19 infection. This meta-analysis examined the association of prescription of angiotensin-converting enzyme inhibitors (ACEI) and angiotensin receptor blockers (ARB) with the outcome from COVID-19.

Methods
A systematic search was conducted to find published studies that reported the outcome of COVID-19 in relation to prescription of ACEI or ARB. Two authors (MF and AD) independently screened and extracted data and assessed study quality and strength of association using standardised tools. The endpoints for the meta-analyses were severe or critical disease outcome and mortality based on standardised criteria.

Results
Twenty-six studies including 8389 people prescribed ACEI or ARB and 20,989 people not prescribed these medications were included. The quality of studies varied, and the overall strength of association was poor with a high risk of confounding bias. Patients prescribed ACEI or ARB had a greater prevalence of risk factors. Meta-analysis found an association between prescription of ACEI or ARB with severe or critical disease outcome (risk ratio, RR, 1.23, 95% confidence interval, CI, 1.06 to 1.42, p = 0.006, I2 = 88%) but this association was lost in sensitivity analyses. There was no association between ACEI or ARB prescription and mortality (RR 1.18, 95% CI 0.92 to 1.50, p = 0.19, I2 = 82%).

Conclusions
This meta-analysis suggests that people prescribed ACEI or ARB more commonly had severe or critical disease outcome, but not mortality, in published cohorts of patients diagnosed with COVID-19. This finding is most likely due to a greater prevalence of risk factors in these patients rather than due to exposure to angiotensin pathway inhibitors.
Crop–livestock diversification in the mixed farming systems: implication on food security in Northern Ghana
Authors: Danso-Abbeam Gideon , Dagunga Gilbert , Ehiakpor Dennis Sedem , Ogundeji Abiodun A. , Setsoafia Edinam Dope , Awuni Joseph A. 
Published: September 2021

AbstractBackgroundAchieving food security is a global priority and a concern for most African countries, including Ghana. Food systems providing varied and healthy diets without compromising the natural resource base, such as integrated crop–livestock diversification, are important for development planning and policy. Using cross-sectional data obtained from 1284 smallholder households in northern Ghana, we used a double-censored Tobit model in a conditional mixed-process (CMP) framework to estimate the impact of crop diversification on household food security.ResultsThe results showed that household-specific, socioeconomic, and institutional factors influence crop–livestock diversification and food security in northern Ghana. Moreover, we found that higher intensity of crop–livestock diversification translates into a greater probability of achieving food security.ConclusionsCrop–livestock diversification is essential to Ghana’s pursuit of the zero-hunger global agenda as it enhances food security without adversely affecting biodiversity and ecosystem health. Therefore, it should be incorporated into Ghana’s ongoing agricultural programme dubbed, planting and rearing for food and jobs.
Reflectance transformation imaging for documenting changes through treatment of Joseon dynasty coins
Authors: Min Jihyun , Jeong Sanghoon , Park Kangwoo , Choi Yeonghwan , Lee Daewon , Ahn Jaehong , Har Donghwan , Ahn Sangdoo 
Published: September 2021

Abstract
We present reflectance transformation imaging (RTI) as a documentation tool for visualizing and recording the treatment of coins. RTI—a computational photograph technique that calculates light positions—allows interactive relighting for vision. Virtual light enhances surface details for examining morphological difference. By applying Dome RTI method, stages of conservation treatment were recorded to enhance the overall characteristic features of the relief upon the coin surface, and then detect and identify weathered characters. Patina removal and consolidation were documented along with the original state; a significant difference in the coin’s surface was observed using different filters of the RTI viewer. Specular enhancement and normal visualization results were most effective for detecting the change in morphology and reflectivity. Microscopic RTI was applied to visualized minimal changes of characters between treatment stages. Character “常” of coin 1 showed changes in the cleaning of dirt and removal of alumina powder. The character “元” of coin 3, originally covered by a thick patina, revealed clear strokes using virtual relighting through RTI. These documentation images indicate that RTI is a promising tool to support manual recording of conservation stages and, furthermore, allow detection of areas difficult to visualize through the human eye.
Abundance of insects and aerial insectivorous birds in relation to pesticide and fertilizer use
Authors: Møller Anders Pape , Czeszczewik Dorota , Flensted-Jensen Einar , Erritzøe Johannes , Krams Indrikis , Laursen Karsten , Liang Wei , Walankiewicz Wiesław 
Published: September 2021

Abstract
Background
The abundance of insects has decreased considerably during recent decades, resulting in current abundance showing 70–80% reductions in more than 15 studies across temperate climate zones. Dramatic reductions in the abundance of insects are likely to have consequences for other taxa at higher trophic levels such as predators and parasites. Pesticides, fertilizers and agricultural land use are likely candidates accounting for such reductions in the abundance of insects.

Methods
Here we surveyed the abundance of flying insects, and the reduction in the abundance of insects as a consequence of intensive reduction in agricultural practice linked to fertilizer use and pesticide use. Finally we demonstrated consistency in abundance of birds among study sites.

Results
We demonstrated that the use of fertilizers and pesticides had reduced the abundance of insects, with consequences for the abundance of insectivorous bird species such as Barn Swallows (Hirundo rustica), House Martins (Delichon urbicum) and Swifts (Apus apus). Juvenile Barn Swallows were negatively affected by the reduced abundance of insects and hence the reproductive success of insectivorous bird species. These effects imply that the abundance of insects could be reduced by the availability of insect food.

Conclusions
These effects of intensive agriculture on insect food abundance are likely to have negative impacts on populations of insects and their avian predators. This hypothesis was validated by a reduction in the abundance of insects, linked to an increase in the abundance of fertilizers and a general change in farming practice.
Effects of intravenous tranexamic acid on ovarian reserve and intra-operative blood loss during laparoscopic cystectomy of endometriotic cyst: a pilot randomized controlled trial
Authors: Akkaranurakkul Prangthip , Lertvikool Srithean , Hongsakorn Woradej , Vallibhakara Orawin , Tantanavipas Siriluk , Paiwattananupant Krissada , Ittichaikulthol Wichai , Vongsakulyanon Apirom , Vallibhakara Sakda Arj-Ong , Anantaburana Makaramas , Sophonsritsuk Areepan 
Published: September 2021

Abstract
Background
Strategies to preserve ovarian function after ovarian endometriotic cyst removal have been reported in many studies; however, no study has evaluated tranexamic acid administration during surgery.

Objective
To evaluate feasibility of conducting a definitive trial and assessing the potential efficacy of tranexamic acid on ovarian reserve and intra-operative blood loss by comparing mean differences in anti-Müllerian hormone (AMH) levels following laparoscopic ovarian cystectomy between tranexamic acid and control groups.

Materials and methods
A parallel two-arm pilot trial was conducted with 40 participants with endometriotic cysts who underwent laparoscopic ovarian cystectomy. They were randomized 1:1 to either 1 g tranexamic acid (TXA) or no TXA (n = 20 per group). TXA was administered to the participants immediately after induction of general anesthesia and intubation. The primary outcome was the feasibility of conducting a definitive trial in terms of design and procedures (such as recruitment rate, retention, safety of intravenous 1 gm of TXA, sample size verification) and assess the efficacy of TXA on the ovarian reserve and intra-operative blood loss by comparing mean difference of AMH levels between TXA and control groups at pre- and 3 months post-surgery.

Results
The recruitment and successful completion rates were 95% and 100%. Baseline characteristics were similar in the two groups. The mean difference of serum AMH levels (pre- and 3 months post-surgery) between the TXA and control groups was not significantly different. When performing a subgroup analysis, the mean difference of AMH levels (pre- and 3 months post-surgery) seemed to be higher in the bilateral than in the unilateral ovarian cyst group but not significantly different. Operating time was significantly longer in bilateral than in unilateral cysts. No post-operative complications or adverse effects were found.

Conclusion
The full randomized controlled trial for evaluating effects of TXA administration during laparoscopic cystectomy for endometrioma on ovarian reserve was shown to be feasible. Several modifications should be added for improving feasibility, for example, increasing the TXA dose, modifying TXA administration, focusing on either patients with unilateral or bilateral ovarian cysts, and exploring other outcome measures, e.g., surgeons’ satisfaction.

Trial registration
Thai Clinical Trials Registry, TCTR20190424002, Registered 24 April 2019.
Patients’ satisfaction with long-acting injectable somatostatin analog therapy for neuroendocrine tumors
Authors: Darden Christina , Price Mark , Ray David , Goldstein Grace , Goss Diana , Bennett Lee , Garbinsky Diana , Thota Ramya 
Published: September 2021

Abstract
Background
Long-acting somatostatin analogs (LA SSAs) are approved and recommended for the treatment of patients with advanced neuroendocrine tumors (NETs). Given the long duration of therapy and differences in administration routes, it is important to understand patients’ experiences with receiving LA SSA injections.

Methods
We conducted a serial survey, informed by qualitative interviews with eight patients treated with LA SSAs and two nurses who administer LA SSA injections, among patients undergoing LA SSA treatment over a 28-day period (administered at baseline and 14 days and 28 days after injection). Eligible patients, recruited by the Carcinoid Cancer Foundation, self-reported having received an LA SSA injection for physician-diagnosed NET within the 5 days before the survey.

Results
202 patients completed the survey at baseline (82 receiving lanreotide and 120 receiving octreotide), 148 at day 14, and 124 at day 28. Patients reported consistently high satisfaction levels with their most recent LA SSA injection (91.1% at baseline, 85.1% at day 14, and 85.5% at day 28); 68.8% reported that their injection experience differed based on the nursing staff administering the injection.

Conclusions
Satisfaction with LA SSA injections is high among patients in this population, and specific experiences with LA SSA injections varied based on the nursing staff administering the injection. Evaluations of patients’ experiences and satisfaction with treatment are increasingly important as patients take more active roles in decision-making for their treatment pathways.