bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sustainable neonatal CLABSI surveillance: consensus towards new criteria in the Netherlands
Authors:   the Working Group on Neonatal Infectious Diseases of the Section of Neonatology of the Dutch Paediatric Society, Heijting I. E. , Antonius T. A. J. , Tostmann A. , de Boode W. P. , Hogeveen M. , Hopman J. 
Published: February 2021

Abstract
Background
Central line-associated bloodstream infections (CLABSI) are a main focus of infection prevention and control initiatives in neonatal care. Standardised surveillance of neonatal CLABSI enables intra- and interfacility comparisons which can contribute to quality improvement. To date, there is no national registration system for CLABSI in neonatal care in the Netherlands and several criteria are used for local monitoring of CLABSI incidence rates. To achieve standardised CLABSI surveillance we conducted a consensus procedure with regard to nationwide neonatal CLABSI surveillance criteria (SC).

Methods
A modified Delphi consensus procedure for the development of nationwide neonatal CLABSI SC was performed between January 2016 and January 2017 in the Netherlands. An expert panel was formed by members of the Working Group on Neonatal Infectious Diseases of the Section of Neonatology of the Dutch Paediatric Society. The consensus procedure consisted of three expert panel rounds.

Results
The expert panel achieved consensus on Dutch neonatal CLABSI SC. Neonatal CLABSI is defined as a bloodstream infection occurring more than 72 h after birth, associated with an indwelling central venous or arterial line and laboratory confirmed by one or more blood cultures. In addition, the blood culture finding should not be related to an infection at another site and one of the following criteria can be applied: 1. a bacterial or fungal pathogen is identified from one or more blood cultures; 2. the patient has clinical symptoms of sepsis and 2A) a common commensal is identified in two separate blood cultures or 2B) a common commensal is identified by one blood culture and C-reactive protein level is above 10 mg/L in the first 36 h following blood culture collection.

Conclusions
The newly developed Dutch neonatal CLABSI SC are concise, specified to the neonatal population and comply with a single blood culture policy in actual neonatal clinical practice. International agreement upon neonatal CLABSI SC is needed to identify best practices for infection prevention and control.
Grave thoraco-intestinal complication secondary to an undetected traumatic rupture of the diaphragm: a case report
Authors: Beshay Morris , Krüger Martin , Singh Kashika , Borgstedt Rainer , Benhidjeb Tahar , Bölke Edwin , Vordemvenne Thomas , Schulte am Esch Jan 
Published: February 2021

Abstract
Background
Diaphragmatic lesions as a result of blunt or penetrating trauma are challenging to detect in the initial trauma setting. This is especially true when diaphragmatic trauma is part of a polytrauma. Complications of undetected diaphragmatic defects with incarcerating bowel are rare, but as in our patient can be serious.

Case presentation
A 57-year-old female presented to the Emergency Room of our Hospital in a critical condition with 3 days of increasing abdominal pain. The initial clinical examination showed peritonism with tinkling peristaltic bowel sounds of mechanical obstruction. A thoraco-abdominal CT scan demonstrated colon prolapsed through the left diaphragmatic center with a large sero-pneumothorax under tension. As the patient was hemodynamically increasingly unstable with developing septic shock, an emergency laparotomy was performed. After retraction of the left colon, which had herniated through a defect of the tendinous center of the left diaphragm and was perforated due to transmural ischemia, large amounts of feces and gas discharged from the left thorax. A left hemicolectomy resulting in a Hartmann-type procedure was performed. A fully established pleural empyema required meticulous debridement and lavage conducted via the 7–10 cm in diameter phrenic opening followed by a diaphragmatic defect reconstruction. Due to pneumonia and recurring pleural empyema redo-debridement of the left pleural space via thoracotomy were required. The patient was discharged on day 56. A thorough history of possible trauma revealed a bicycle-fall trauma 7 months prior to this hospitalization with a surgically stabilized fracture of the left femur and conservatively treated fractures of ribs 3–9 on the left side.

Conclusion
This is the first report on a primarily established empyema at the time of first surgical intervention for feco-pneumothorax secondary to delayed diagnosed diaphragmatic rupture following abdomino-thoracic blunt trauma with colic perforation into the pleural space, requiring repetitive surgical debridement in order to control local and systemic sepsis. Thorough investigation should always be undertaken in cases of blunt abdominal and thoracic trauma to exclude diaphragmatic injury in order to avoid post-traumatic complications.
Effects of landscape positions on soil physicochemical properties at Shenkolla Watershed, South Central Ethiopia
Authors: Bufebo Belayneh , Elias Eyasu , Agegnehu Getachew 
Published: February 2021

Abstract
Background
Understanding the effects of landscape positions on soil physicochemical properties is crucial for improving the soil productivity and to ensure the environmental sustainability. Three land use types forest land, grazing land and cultivated land all within upper, middle and lower landscape positions were selected to determine the effects of landscape positions, land use types and their interaction effects on soil physicochemical properties. Twenty seven soil samples were collected from lower landscape, middle landscape and upper landscape positions at the depth of 0–20 cm in nine replications. In addition, undisturbed soil samples were taken using core sampler from each land use type under upper, middle and lower landscape positions for the ascertainment of bulk density and water retentive capacity. The analysis of variance (ANOVA) was applied to determine variations in soil parameters among landscape positions and land use types. A Generalized Linear Models (GLMs) analysis was conducted to determine the influence of independent (fixed) factors, on the soil properties (response variables). Treatment means comparison was determined using the Least Significant Difference (LSD) at 0.05 level of significances.

Results
The result indicated that among the soil properties sand (p < 0.001), silt (p < 0.001), clay (p < 0.001), bulk density (p < 0.01), water holding capacity at FC (p < 0.001), water retention at PWP (p < 0.01), Available water content (AWC) (p < 0.01), soil reaction (pH) (p < 0.05), Soil organic carbon (SOC%) (p < 0.01), Total nitrogen (TN%) (p < 0.01), available phosphorus (p < 0.05) and CEC (p < 0.001) have shown a significant variation among the landscape categories. Similarly, variation of sand (p < 0.001), silt (p < 0.001), clay (p < 0.001), bulk density (p < 0.01), water holding capacity at FC (p < 0.001), water retention at PWP (p < 0.001), Available water content (AWC) (p < 0.01), soil reaction (pH) (p < 0.01), SOC (p < 0.01), TN (p < 0.001) available phosphorus (AP) (p < 0.001) and CEC (p < 0.001) were also statistically significant among the land use types. Moreover, lower landscape position and forest land had high mean value of SOC, TN, AP, CEC, EB (exchangeable bases), and available micronutrients, whereas upper landscape position and intensively cultivated land had low mean value of SOC, TN, AP, CEC, EB (exchangeable bases), and available micronutrients.

Conclusion
Landscape positions, land use types and interaction effects of landscape position and land use types (LSP * LU) significantly affected soil properties. Soil with best quality was found in lower landscape position and forest land, while less quality of soil was found in upper landscape position and cultivated land. Thus, efforts should be made to improve the quality of soil under upper landscape position and cultivated land using biological and physical soil conservation measures.
Intrauterine growth restriction alters nutrient metabolism in the intestine of porcine offspring
Authors: Li Tiantian , Huang Shimeng , Lei Long , Tao Shiyu , Xiong Yi , Wu Guoyao , Hu Jie , Yuan Xiongkun , Zhao Shengjun , Zuo Bin , Yang Hongjian , Xiao Yingping , Lin Gang , Wang Junjun 
Published: February 2021

Abstract
Background
Intrauterine growth restriction (IUGR) has negative impacts on the postnatal survival, growth and development of humans and animals, with not only on newborns but also adulthood. However, the characteristics for nutrient digestion and absorption in IUGR offspring are still largely unknown. Therefore, the normal birth weight (NBW) and IUGR growing pigs were used in this study to investigate their differences in nutrient utilization, with an expectition for further nutritional optimization of the IUGR offspring during their later life.

Methods
Twelve IUGR and 12 NBW growing pigs were fitted with catheters in their portal vein to measure blood flow rate as well as nutrients and metabolites in plasma. The digestibilities of nutrients in different intestinal segments, and bacterial fermentation in the large intestine were examined to reveal the characteristics of nutrients utilization in IUGR versus NBW pigs.

Results
The rate of portal venous blood flow did not differ beween IUGR and NBW pigs. Plasma concentrations of total cholesterol, triglycerides and glucose were much lower but those of urea were higher in the portal vein of IUGR pigs, compared with the NBW pigs. The ileal digestibility of dry matter, gross energy and starch were lower in IUGR pigs than in NBW pigs. IUGR increased hindgut microbial diversity and bacterial fermentation activity in the caecum. In vitro cross-fermentation of ileal digesta by caecal microbes of NBW and IUGR pigs showed that gas production was much higher for IUGR ileal digesta regardless of the source of caecal inocula.

Conclusion
IUGR impairs the nutrient digestion and absorption in small intestine, reduces caecal microbial diversity and promotes bacterial fermentation in the large intestine during the growing phase. These findings aid in our understanding of nutrient metabolism in IUGR pigs and provide the basis for future nutritional interventions.
Functional and dysfunctional fear of COVID-19: a classification scheme
Authors: Solymosi Reka , Jackson Jonathan , Pósch Krisztián , Yesberg Julia A. , Bradford Ben , Kyprianides Arabella 
Published: February 2021

AbstractWorry about COVID-19 is a central topic of research into the social and economic consequences of the COVID-19 pandemic. In this paper, we present a new way of measuring worry about catching COVID-19 that distinguishes between worry as a negative experience that damages people’s quality of life (dysfunctional) and worry as an adaptive experience that directs people’s attention to potential problems (functional). Drawing on work into fear of crime, our classification divides people into three groups: (1) the unworried, (2) the functionally worried (where worry motivates proactive behaviours that help people to manage their sense of risk) and (3) the dysfunctionally worried (where quality of life is damaged by worry and/or precautionary behaviour). Analysing data from two waves of a longitudinal panel study of over 1000 individuals living in ten cities in England, Scotland and Wales, we find differing levels of negative anxiety, anger, loneliness, unhappiness and life satisfaction for each of the three groups, with the dysfunctionally worried experiencing the most negative outcomes and the functionally worried experiencing less negative outcomes than unworried. We find no difference between groups in compliance and willingness to re-engage in social life. Finally, we show a difference between the dysfunctionally worried compared with functional and unworried groups in perceptions of risk (differentiating between likelihood, control and consequence). This finding informs what sort of content-targeted messaging aimed at reducing dysfunctional worry might wish to promote. We conclude with some thoughts on the applicability of our measurement scheme for future research.
Correlation of mutational landscape and survival outcome of peripheral T-cell lymphomas
Authors: Ye Yingying , Ding Ning , Mi Lan , Shi Yunfei , Liu Weiping , Song Yuqin , Shu Shaokun , Zhu Jun 
Published: February 2021

Abstract
Objective
To explore the correlation of mutation landscape with clinical outcomes in patients with peripheral T-cell lymphoma (PTCL).

Methods
We retrospectively analyzed the clinicopathological and prognosis data of 53 patients with PTCL from November 2011 to December 2017. Targeted next-generation sequencing of a 659-gene panel was performed for tissues from 53 patients with PTCLs. The correlation of mutation landscape with clinical outcomes was analyzed.

Results
TET2 was the most frequently mutated gene (64%), followed by RHOA (43%), PCLO (23%), DNMT3A (19%), IDH2 (17%), PIEZO1 (17%) and TP53 (15%). When mutated genes were categorized into functional groups, the most common mutations were those involved in epigenetic/chromatin modification (75%), T-cell activation (74%), and the DNA repair/TP53 pathway (64%). TET2/TP53 mutations were significantly associated with positive B symptoms (P = 0.045), and elevated lactate dehydrogenase (LDH) level (P = 0.011). Moreover, TET2/TP53 mutation was a risk factor for PTCL patient survival (HR 3.574, 95% CI 1.069 − 11.941, P = 0.039). The occurrence of JAK/STAT pathway mutations in angioimmunoblastic T-cell lymphoma (AITL) patients conferred a worse progression-free survival (HR 2.366, 95% CI 0.9130–6.129, P = 0.0334).

Conclusions
Heterogeneous gene mutations occur in PTCL, some of which have a negative impact on the survival outcome.
Antibiotic-associated dysbiosis affects the ability of the gut microbiota to control intestinal inflammation upon fecal microbiota transplantation in experimental colitis models
Authors: Strati Francesco , Pujolassos Meritxell , Burrello Claudia , Giuffrè Maria Rita , Lattanzi Georgia , Caprioli Flavio , Troisi Jacopo , Facciotti Federica 
Published: February 2021

Abstract
Background
The gut microbiota plays a central role in host physiology and in several pathological mechanisms in humans. Antibiotics compromise the composition and functions of the gut microbiota inducing long-lasting detrimental effects on the host. Recent studies suggest that the efficacy of different clinical therapies depends on the action of the gut microbiota. Here, we investigated how different antibiotic treatments affect the ability of the gut microbiota to control intestinal inflammation upon fecal microbiota transplantation in an experimental colitis model and in ex vivo experiments with human intestinal biopsies.

Results
Murine fecal donors were pre-treated with different antibiotics, i.e., vancomycin, streptomycin, and metronidazole before FMT administration to colitic animals. The analysis of the gut microbiome, fecal metabolome, and the immunophenotyping of colonic lamina propria immune cells revealed that antibiotic pre-treatment significantly influences the capability of the microbiota to control intestinal inflammation. Streptomycin and vancomycin-treated microbiota failed to control intestinal inflammation and were characterized by the blooming of pathobionts previously associated with IBD as well as with metabolites related to the presence of oxidative stress and metabolism of simple sugars. On the contrary, the metronidazole-treated microbiota retained its ability to control inflammation co-occurring with the enrichment of Lactobacillus and of innate immune responses involving iNKT cells. Furthermore, ex vivo cultures of human intestinal lamina propria mononuclear cells and iNKT cell clones from IBD patients with vancomycin pre-treated sterile fecal water showed a Th1/Th17 skewing in CD4+ T-cell populations; metronidazole, on the other hand, induced the polarization of iNKT cells toward the production of IL10.

Conclusions
Diverse antibiotic regimens affect the ability of the gut microbiota to control intestinal inflammation in experimental colitis by altering the microbial community structure and microbiota-derived metabolites.
Pathogenic convergence of CNVs in genes functionally associated to a severe neuromotor developmental delay syndrome
Authors: García-Hernández Juan L. , Corchete Luis A. , Marcos-Alcalde Íñigo , Gómez-Puertas Paulino , Fons Carmen , Lazo Pedro A. 
Published: February 2021

Abstract
Background
Complex developmental encephalopathy syndromes might be the consequence of unknown genetic alterations that are likely to contribute to the full neurological phenotype as a consequence of pathogenic gene combinations.

Methods
To identify the additional genetic contribution to the neurological phenotype, we studied as a test case a boy, with a KCNQ2 exon-7 partial duplication, by single-nucleotide polymorphism (SNP) microarray to detect copy-number variations (CNVs).

Results
The proband presented a cerebral palsy like syndrome with a severe motor and developmental encephalopathy. The SNP array analysis detected in the proband several de novo CNVs, nine partial gene losses (LRRC55, PCDH9, NALCN, RYR3, ELAVL2, CDH13, ATP1A2, SLC17A5, ANO3), and two partial gene duplications (PCDH19, EFNA5). The biological functions of these genes are associated with ion channels such as calcium, chloride, sodium, and potassium with several membrane proteins implicated in neural cell-cell interactions, synaptic transmission, and axon guidance. Pathogenically, these functions can be associated to cerebral palsy, seizures, dystonia, epileptic crisis, and motor neuron dysfunction, all present in the patient.

Conclusions
Severe motor and developmental encephalopathy syndromes of unknown origin can be the result of a phenotypic convergence by combination of several genetic alterations in genes whose physiological function contributes to the neurological pathogenic mechanism.
Stress, coping strategies and expectations among breast cancer survivors in China: a qualitative study
Authors: Hu Ruo-Yu , Wang Jing-Ya , Chen Wan-Li , Zhao Jie , Shao Chun-Hai , Wang Ji-Wei , Wei Xiao-Min , Yu Jin-Ming 
Published: February 2021

Abstract
Background
Breast cancer is a common tumor in China and has become a public health problem in modern society. Stress plays an important role in the occurrence and progression of cancer. At present, the current situation of stress on breast cancer survivors (BCSs) in China has not been fully understood. This study aims to explore the stress and coping strategies of Chinese BCSs, which provide suggestions to help BCSs reduce stress.

Methods
Sixty-three BCSs from the Shanghai Cancer Rehabilitation Club in China were included in this study and were divided into eight focus groups. These were transcribed verbatim, coded using thematic analysis and analyzed using NVivo 11.

Results
Three themes were extracted from the data to address our research objectives: stress, coping strategies and expectations. The stress of BCSs included psychological stress, stress caused by physical pain, economic stress, stress caused by the change of life status, and stress caused by information overload; the coping strategies included self-strategies and help from others; from the perspective of the survivors, they put forward their expectations for both the society and themselves.

Conclusions
This study shows that BCSs face a variety of stress. In the face of stress, BCSs need comprehensive support, including social and family support to cope with stressors. The findings from this study provide evidence for improving the quality of life among BCSs.
A novel recessive mutation affecting DNAJB6a causes myofibrillar myopathy
Authors: Qian Fang-Yuan , Guo Yu-Dong , Zu Juan , Zhang Jin-Hua , Zheng Yi-Ming , Abdoulaye Idriss Ali , Pan Zhao-Hui , Xie Chun-Ming , Gao Han-Chao , Zhang Zhi-Jun 
Published: February 2021

AbstractMutations in the DNAJB6 gene have been identified as rare causes of myofibrillar myopathies. However, the underlying pathophysiologica mechanisms remain elusive. DNAJB6 has two known isoforms, including the nuclear isoform DNAJB6a and the cytoplasmic isoform DNAJB6b, which was thought to be the pathogenic isoform. Here, we report a novel recessive mutation c.695_699del (p. Val 232 Gly fs*7) in the DNAJB6 gene, associated with an apparently recessively inherited late onset distal myofibrillar myopathy in a Chinese family. Notably, the novel mutation localizes to exon 9 and uniquely encodes DNAJB6a. We further identified that this mutation decreases the mRNA and protein levels of DNAJB6a and results in an age-dependent recessive toxic effect on skeletal muscle in knock-in mice. Moreover, the mutant DNAJB6a showed a dose-dependent anti-aggregation effect on polyglutamine-containing proteins in vitro. Taking together, these findings reveal the pathogenic role of DNAJB6a insufficiency in myofibrillar myopathies and expand upon the molecular spectrum of DNAJB6 mutations.
Geo-environmental monitoring and 3D finite elements stability analysis for site investigation of underground monuments. Horemheb tomb (KV57), Luxor, Egypt
Authors: Hemeda Sayed 
Published: February 2021

Abstract
The Valley of the Kings (KV) is a UNESCO world heritage site with more than thirty opened tombs. Since the first tombs were constructed, at least 24 historical flash flood events has been identified, each of which has been contributed to the destruction and deterioration of the tombs. Recently, most of these tombs have been damaged and inundated after 1994 flood. In order to understand the Geo-environmental impact mainly the past flash floods due to the intensive rainfall storm on the valley of kings and the long-term rock mass behavior under geostatic stresses in selected Horemheb tomb (KV57) and its impact on past failures and current stability, Remote sensing, GIS, LIDAR, 3D finite element stability analysis and rock mass quality assessments had been carried out using advanced methods and codes. Our work provides environmental satellite space views via landviewer Erath Observation System (EOS) Platform with passive and active sensors which include the Normalized Difference Vegetation Index (NDVI), Soil-Adjusted Vegetation Index (SAVI), Atmospherically resistant vegetation index (ARVI), Green Chlorophyll Index (GCI), Normalized Burn Ratio (NBR), Normalized Difference Snow Index (NDSI), Light Detection And Ranging (LIDAR) images, Terrain (DEM) Digital Elevation Models, 3D geological maps. In other hand experimental and numerical geotechnical evaluations and modeling of the rock mass of these underground structures and their surroundings have been executed. We estimated the rock mass quality of the different members within the Thebes limestone and Esna shale formations using the mechanical testing and Rock Mass Rating (RMR), rock quality system (Q-system) and Geological Strength Index (GSI) systems. Our recent analyses show that the KV57 rock- cut tomb at Luxor has been cut into poor to very poor quality marl shale masses due to the impact of flash foods. Rock failures of ceilings and pillars were frequently facilitated by local, unfavorably oriented persistent discontinuities, such as tension cracks and faults. Other failures were related to the disintegration of the marl limestone and Esna shale Formations into individual nodules upon weathering. Our data suggest that, in ancient Egypt monumental tomb construction, low-strength rock masses rarely resulted in modifications of the planned tomb design in order to minimise the risk of rock falls and to prevent collapses. The current flood protection measures are not enough. For this two following measures are proposed 1—to rise the current wall by 50 cm. 2—to fill the depression by reshaping bathymetry.