bluuebunny/crossref_metadata_2025_split huggingface dataset:
Molecular characteristics of antibiotic resistance Escherichia coli and Klebsiella pneumoniae strains isolated from hospitalized patients in Tehran, Iran
Authors: Sharahi Javad Yasbolaghi , Hashemi Ali , Ardebili Abdollah , Davoudabadi Sara 
Published: December 2020

Abstract
Background

We evaluated the distribution of carbapenem and colistin resistance mechanisms of clinical E. coli and K. pneumoniae isolates from Iran.
Methods

Antibiotic susceptibility testing was performed by disc diffusion and microdilution method according to the Clinical and Laboratory Standards Institute (CLSI) guideline. The presence of extended spectrum β-lactamases (ESBLs) genes, carbapenemase genes, as well as fosfomycin resistance genes, and colistin resistance genes was also examined by PCR-sequencing. The ability of biofilm formation was assessed with crystal violet staining method. The expression colistin resistance genes were measured by quantitative reverse transcription-PCR (RT-qPCR) analysis to evaluate the association between gene upregulation and colistin resistance. Genotyping was performed using the multi-locus sequencing typing (MLST).
Results

From 2016 to 2018, a total of 165 clinical isolates of K. pneumoniae and E. coli were collected. Colistin and tigecycline were the most effective antimicrobial agents with 90.3% and 82.4% susceptibility. Notably, 16 (9.7%) isolates showed resistance to colistin. Overall, 33 (20%), 31 (18.8%), and 95 (57.6%) isolates were categorized as strong, moderate, and weak biofilm-producer, respectively. Additionally, blaTEM, blaSHV, blaCTX−M, blaNDM−1, and blaNDM−6 resistance genes were detected in 98 (59.4%), 54 (32.7%), 77 (46.7%), 3 (1.8%), and 3 (1.8%) isolates, respectively. Inactivation of mgrB gene due to nonsense mutations and insertion of IS elements was observed in 6 colistin resistant isolates. Colistin resistance was found to be linked to upregulation of pmrA-K, phoP, and phoQ genes. Three of blaNDM−1 and 3 of blaNDM−6 variants were found to be carried by IncL/M and IncF plasmid, respectively. MLST revealed that blaNDM positive isolates were clonally related and belonged to three distinct clonal complexes, including ST147, ST15 and ST3299.
Conclusions

The large-scale surveillance and effective infection control measures are also urgently needed to prevent the outbreak of diverse carbapenem- and colistin- resistant isolates in the future.
Impact of Surgery on Survival in Breast Cancer with Bone Metastases: a SEER database retrospective analysis
Authors: Peng pai , li yuan hong , chen yuan jiang , hu hua chao , chen xin , han tao yun , wang li jin 
Published: December 2020

Abstract
Purpose It was controversial to operate on the primary site of breast cancer with simple bone metastasis，we found that the surgery could improve survival in patients with breast cancer with bone metastases via a SEER database retrospective analysis.Method Totolly 2917 cases of breast cancer with bone metastasis, first diagnosed between 2010 and 2015 in the National Cancer Institute surveillance, Epidemiology, and Results Database (SEER).We assessed the effect of different surgical procedures on survival and prognosis by the correlation statistics.Results Compared with the non-surgical group , the prognosis of patients on the primary tumor surgical group shows the statistical significance (c2 = 146.023, P < 0.001), the survival benefit of the breast-conserving group was the highest for 70 months(c2=157.117,P<0.001). Compared with the non-surgery group, the median OS of primary surgery group was: HR=0.525, 95%CI=0.467-0.590,P<0.001. In the breast-conserving group, the median operative OS: HR=0.394, 95%CI=0.325-0.478,P<0.001. Conclusion: This study showed that primary surgery could improve the prognosis and overall survival of women with advanced breast cancer with bone metastasis alone. Under the condition of low tumor burden, breast conserving surgery was a better choice.
Study of Solving the Bottleneck Problem of the Estimation of Biological Dose in the Window of Time of Medical Emergency in Large-scale Nuclear Radiation Accidents
Authors: Liu Gang 
Published: December 2020

Abstract
Purpose

In order to achieve the goal of rapid response, effective disposal and protection of life of large-scale radiation events, how to establish the uniform standard curve of biological dose estimation for chromosome aberration analysis becomes an urgent need.
Methods

Chromosomal aberrations with different irradiation dose rates were used to analyze the biological dose curve and the share of the “dicentric + ring” caused by the dose rate at each dose point. The dose-rate effect of 60Co-rays on peripheral blood lymphocytes was analyzed by statistical method .
Results

Irradiation dose is dominant ; At each dose point, “(dicentric chromosome + centric rings) /cell” is proportional to "dose rate", that is, Y = k X + b;Between 1-5Gy dose, “(dicentric chromosome + centric rings) /Cell ” holds a quadratic linear relationship with dose rate, that is,y = ax2 + bx + c.
Conclusion

The fraction of “dicentric + ring” caused by dose rate was calculated, if “Dose rate” is Z Gy•min− 1, it corresponds to an increase in linear relationships. Biological dose estimation curve :Y = 3.318 × 10− 3+2.0541 × 10− 2 x + 7.1721 × 10− 2x2(1.16Gy•min− 1༛R2 = 0.9997)(3).Dose rate :Y Dose rate = 1.2534 × 10− 2 x 2+6.6164 × 10− 2 x -2.732 × 10− 3༈0.01Gy•min− 1༛R2 = 0.999༉(1).The estimated dose is formula (3) – (1.16-Z) × formula (1).
A multipronged deep omics-based investigation of COVID-19 plasma samples identifies key molecular networks of disease severity progression
Authors: Suvarna Kruthi , Srivast Sanjeeva 
Published: December 2020

Abstract
Prognosis and management of COVID-19 severity is a challenge even after months of the pandemic. We employed high resolution mass spectrometry-based deep proteomics and metabolomics based investigation to study a cohort of 186 patients plasma samples to understand the COVID-19 disease severity mechanism. A cohort of patients displayed COVID-19 like symptoms but were negative for the virus while the COVID-19 positive patients were classified as non-severe or severe groups based on the clinical manifestation of the disease. Of the 1200 proteins detected, 27 were differentially regulated in COVID positive group while 38 were found to be differentially expressed between non-severe and severe groups. GO enrichment analysis highlighted the involvement of regulation of peptidase activity, regulated exocytosis, extracellular structure organization, blood coagulation, fibrin clot formation, complement activation, leukocyte activation involved in immune response, and response to glucocorticoid biological processes to be dysregulated in severe SARS-CoV-2 infection. Further, metabolomics identified 15 significant metabolites indicating dysregulation in tryptophan, glycine, serine, threonine, arginine, proline, and porphyrin metabolism pathways. We validated the potential severity biomarkers such as angiotensinogen, apolipoprotein B, SERPINA3, SERPING1, and Fibrinogen gamma chain using targeted proteomics. Moreover, using our proteomics dataset and docking studies we found FDA-approved drugs Selinexor and Ponatinib having potential to be repurposed for the therapeutics intervention of COVID-19.
Assessing The Feasibility and Acceptability of A Cluster-Randomized Study of Cognitive Behavioral Therapy For Chronic Insomnia In A Primary Care Setting
Authors: Torrens Isabel , Esteva Magdalena , Vicens Caterina , Vidal-Thomas Maria Clara , Pizà-Portell Maria Rosa , Vidal-Ribas Cristina , Lorente-Montalvo Patricia , Torres-Solera Elena 
Published: December 2020

Abstract
Background: Cognitive behavioral therapy (CBT) is the treatment of choice for chronic insomnia but is underutilized in patients in primary care. The purpose of this study was to assess the feasibility and acceptability of a pilot cluster-randomized study of CBT for chronic insomnia (CBT-i) in a primary care setting. Methods: This pilot-feasibility study with a parallel cluster-randomized design comparing CBT-i-intervention group (IG) and usual care (UC) was performed at two primary health care centers in Majorca, Spain. Patients were included if they were 18 to 65 years-old; had diagnoses of chronic insomnia according to the Insomnia Severity Index (ISI ³ 8) and had insomnia longer than 3 months; and did or did not use a hypnotic medication. A total of 25 GPs and nurses and 32 patients were randomly allocated to two groups. The outcome of the intervention was improvement in quality of sleep. Other primary outcomes were the feasibility and applicability of the intervention, which were defined using nominal groups. UC was defined based on previous studies. The recruitment process, compliance with intervention sessions, and patient retention were also assessed.Results: We adapted the CBT-i approach of Morin to a primary care context. After intervention training, primary care providers (PCPs) expressed the need for more extensive training in the different aspects of the therapy and the discussion of more cases. PCPs considered the intervention as adequate but wanted fewer and shorter sessions as well as to discard the cognitive restructuring component. PCPs considered it crucial to prepare each session in advance and to establish a specific agenda for the CBT-i. Regular reminders given to PCPs and patients were suggested to improve study participation. Compared to the UC group, significantly higher proportions of patients in the IG had short sleep latency, slept for longer than 5 h, and had fewer sleep disruptions. Conclusions: This pilot-feasibility study identified several key issues that must be addressed before performing CBT-i intervention in future clinical trials in a primary care setting. Trial registration: NCT04565223. (Clinical trials.gov) Registered 1 September 2020 - Retrospectively registered.
‘Too old to test?’: A life course approach to HIV-related risk and self-testing among midlife-older adults in Malawi
Authors: Johnson Cheryl , Kumwenda Moses , Meghji Jamilah , Choko Augustine , Phiri Mackwellings , Hatzold Karin , Baggaley Rachel , Taegtmeyer Miriam , Terris-Prestholt Fern , Desmond Nicola , Corbett Elizabeth L 
Published: December 2020

Abstract
Background: Despite the aging HIV epidemic, increasing age can be associated with hesitancy to test. Addressing this gap is a critical policy concern and highlights the urgent need to identify the underlying factors, to improve knowledge of HIV-related risks as well as uptake of HIV testing and prevention services, in midlife-older adults. Methods: We conducted five focus group discussions and 12 in-depth interviews between April 2013 and November 2016 among rural and urban Malawian midlife-older ( ≥ 30 years) men and women. Using a life-course theoretical framework we explored how age is enacted socially and its implications on HIV testing and sexual risk behaviours. We also explore the potential for HIVST to be part of a broader strategy for engaging midlife-older adults in HIV testing, prevention and care. Thematic analysis was used to identify recurrent themes and variations. Results: Midlife-older adults associated their age with respectability and identified HIV as “a disease of youth” that would not affect them, with age protecting them against infidelity and sexual risk-taking. HIV testing was felt to be stigmatizing, challenging age norms, threatening social status, and implying “lack of wisdom”. These norms drove self-testing preferences at home or other locations deemed age and gender appropriate. Awareness of the potential for long-standing undiagnosed HIV to be carried forward from past relationships was minimal, as was understanding of treatment-as-prevention. These norms led to HIV testing being perceived as a threat to status by older adults, contributing to low levels of recent HIV testing compared to younger adults. Conclusions: Characteristics associated with age-gender norms and social position encourage self-testing but drive poor HIV-risk perception and unacceptability of conventional HIV testing in midlife-older adults. There is an urgent need to provide targeted messages and services more appropriate to midlife-older adults in sub-Saharan Africa. HIVST which has often been highlighted as a tool for reaching young people, may be a valuable tool for engaging midlife-older age groups who may not otherwise test.
QTL Mapping of Agronomic and Economic Traits for Four F2 Populations of Upland Cotton
Authors: Li Hongge , Pan Zhaoe , He Shoupu , Jia Yinhua , Geng Xiaoli , Chen Baojun , Wang Liru , Pang Baoyin , Du Xiongming 
Published: December 2020

Abstract
Background: Upland cotton (Gossypium hirsutum) accounts for more than 90% of the annual world cotton output because of its high yield potential. However, yield and fiber quality traits often show negative correlations. We constructed four F2 populations of unland cotton, using two normal lines (4133B and SGK9708) with high yield potential but moderate fiber quality and two introgression lines (Suyuan04-3 and J02-247) with superior fiber quality, and used them to investigate the genetic basis underlying complex traits such as yield and fiber quality in upland cotton. We also phenotyped eight agronomic and economic traits and mapped quantitative trait loci (QTLs). Results: Extensive phenotype variations and transgressive segregation were found across the segregation populations. We constructed four genetic maps of 585.97 cM, 752.45 cM, 752.45 cM and 1 163.66 cM, one for each of the four F2 populations.. Fifty QTLs were identified across the four populations (7 for plant height, 27 for fiber quality and 16 for yield). The same QTLs were identified in different populations, including qBW4 and qBW2, which were linked to a common simple sequence repeat (SSR) marker, NAU1255. A QTL cluster containing eight QTLs for six different traits was characterized on linkage group 9 of the 4133B×Suyuan04-3 population. Conclusions: These findings will provide insights into the genetic basis of simultaneous improvement of yield and fiber quality in upland cotton breeding.
Physical mapping and InDel marker development for the restorer gene Rf2 in cytoplasmic male sterile CMS-D8 cotton
Authors: Feng Juanjuan , Zhang Xuexian , Zhang Meng , Guo Liping , QI Tingxiang , Tang Huini , Zhu Haiyong , Wang Hailin , Qiao Xiuqin , Xing Chaozhu , Wu Jianyong 
Published: December 2020

Abstract
Background: Cytoplasmic male sterile (CMS) with cytoplasm from Gossypium Trilobum (D8) fails to produce functional pollen. It is useful for commercial hybrid cotton seed production. The restore line of CMS-D8 containing Rf 2 gene can restore the fertility of the corresponding sterile line. This study combined the whole genome resequencing bulked segregant analysis (BSA) with high-throughput SNP genotyping to accelerate the physical mapping of Rf 2 locus in CMS-D8 cotton. Methods: The fertility of backcross population ((sterile line×restorer line)×maintainer line) comprising of 1623 individuals was investigated in the field. The fertile pool (100 plants with fertile phenotypes, F-pool) and the sterile pool (100 plants with sterile phenotypes, S-pool) were constructed for BSA resequencing. The selection of 24 single nucleotide polymorphisms (SNP) through high-throughput genotyping and the development insertion and deletion (InDel) markers were conducted to narrow down the candidate interval. The pentapeptide repeat (PPR) family genes and upregulated genes in restore line in the candidate interval were analysed by qRT-PCR. Results: The fertility investigation results showed that fertile and sterile separation ratio was consistent with 1:1. BSA resequencing technology, high-throughput SNP genotyping, and InDel markers were used to identify Rf 2 locus on candidate interval of 1.48 Mb on Chromosome D05. Furthermore, it was quantified in this experiment that InDel markers co-segregated with Rf 2 enhanced the selection of the restorer line. The qRT-PCR analysis revealed PPR family gene Gh_D05G3391 located in candidate interval had significantly lower expression than sterile and maintainer lines. In addition, utilization of anther RNA-Seq data of CMS-D8 identified that the expression level of Gh_D05G3374 encoding NB-ARC domain-containing disease resistance protein in restorer lines was significantly higher than that in sterile and maintainer lines. Conclusions: This study not only enabled us to precisely locate the restore gene Rf 2 but also evaluated the utilization of InDel markers for marker assisted selection in the CMS-D8 Rf 2 cotton breeding line. The results of this study provide an important foundation for further studies on the mapping and cloning of restorer genes.
Hypoxia-preconditioned adipose-derived stem cells combined with scaffold promote urethral reconstruction by up-regulation of angiogenesis and glycolysis
Authors: Wan Xiang , Xie Min-kai , Xu Huan , Wei Zi-wei , Yao Hai-jun , Wang Zhong , Zheng Dachao 
Published: December 2020

Abstract
Rationale: Tissue engineering is a promising alternative for urethral reconstruction, and adipose-derived stem cells (ADSCs) are widely used as seeding cells. Hypoxia preconditioning can significantly enhance the therapeutic effects of ADSCs. The low oxygen tension of postoperative wound healing is inevitable and may facilitate the nutritional function of ADSCs. This study aimed to investigate if hypoxia preconditioned ADSCs, compared to normxia preconditioned ADSCs, combined with scaffold could better promote urethral reconstruction and exploring the underlying mechanism.Methods: In vitro, paracrine cytokines and secretomes that were secreted by hypoxia- or normoxia-preconditioned ADSCs were added to cultures of human umbilical vein endothelial cells (HUVECs) to measure their functions. In vivo, hypoxia- or normoxia-preconditioned ADSCs were seeded on a porous nanofibrous scaffold for urethral repair on a defect model in rabbits.Results: The in vitro results showed that hypoxia could enhance the secretion of VEGFA by ADSCs, and hypoxia-preconditioned ADSCs could enhance the viability, proliferation, migration, angiogenesis and glycolysis of HUVECs (p < 0.05). After silencing VEGFA, angiogenesis and glycolysis were significantly inhibited (p < 0.05). The in vivo results showed that compared to normoxia-preconditioned ADSCs, hypoxia-preconditioned ADSCs combined with scaffolds led to a larger urethral lumen diameter, preserved urethral morphology and enhanced angiogenesis (p < 0.05). Conclusions: Hypoxia preconditioning of ADSCs combined with scaffold could better promote urethral reconstruction by upregulating angiogenesis and glycolysis. Hypoxia-preconditioned ADSCs combined with novel scaffold may provide a promising alternative treatment for urethral reconstruction.
Enhanced cell survival and therapeutic benefits of IL-10-expressing multipotent mesenchymal stromal cells for muscular dystrophy
Authors: Kasahara Yuko Nitahara , Kuraoka Mutsuki , Oda Yuki , Kinoh Hiromi Hayashita , Takeda Shin’ichi , Okada Takashi 
Published: December 2020

Abstract
Background: Multipotent mesenchymal stromal cells (MSCs) are potentially therapeutic for muscle disease because they can accumulate at the sites of injury and act as immunosuppressants. MSCs are attractive candidates for cell-based strategies that target diseases with chronic inflammation, such as Duchenne muscular disease (DMD). We focused on the anti-inflammatory properties of IL-10 and hypothesized that IL-10 could increase the typically low survival of MSCs by exerting a paracrine effect after transplantation.Methods: We developed a continuous IL-10 expression system of MSCs using an adeno-associated virus (AAV) vector. To investigate the potential benefits of IL-10 expressing AAV vector-transduced MSCs (IL-10-MSCs), we examined the cell survival rates in the skeletal muscles after intramuscular injection into mice and dogs. Systemic treatment with IL-10-MSCs derived from dental pulp (DPSCs) was comprehensively analyzed using the canine X-linked muscular dystrophy model in Japan (CXMDJ), which has a severe phenotype similar to that of DMD patients.Results: In vivo bioluminescence imaging analysis revealed higher retention of IL-10-MSCs injected into the hind-limb muscle of mice. In the muscles of dogs, myofiber-like tissue was formed after the stable engraftment of IL-10-MSCs. Repeated systemic administration of IL-10-DPSCs into the CXMDJ model resulted in long-term engraftment of cells and slightly increased the serum levels of IL-10. IL-10-hDPSCs showed significantly reduced expression of pro-inflammatory MCP-1 and upregulation of stromal-derived factor-1 (SDF-1). MRI and histopathology of the hDPSC-treated CXMDJ indicated the regulation of inflammation in the muscles, but not myogenic differentiation from treated cells. hDPSC-treated CXMDJ showed improved running capability and recovery in tetanic force with concomitant increase in physical activity. Serum creatine kinase levels, which increased immediately after exercise, were suppressed in IL-10-hDPSC-treated CXMDJ.Conclusions: In case of local injection, IL-10-MSCs could maintain the long-term engraftment status and facilitate associated tissue repair. In case of repeated systemic administration, IL-10-MSCs facilitated the long-term retention of the cells in the skeletal muscle and also protected muscles from physical damage-induced injury, which improved muscle dysfunction in DMD. We can conclude that the local and systemic administration of IL-10-producing MSCs offers potential benefits for DMD therapy through the beneficial paracrine effects of IL-10 involving SDF-1.
Acute Issues of Strateging and Functioning of Information Space on Territory in Conditions of Restrictive Measures
Authors: Odintsova T. M. , Matushevskaya E. A. , Shipilov N. Yu. , Rozhkova M. G. 
Published: December 2020

The article studies such issues as strateging of sustainable development of regions, developing the system of information support of strategic development of the region, risks connected with sanctions imposed by Western countries. These subjects were analyzed with the help of literature sources and further lines of research were proposed. The system of information support of strategic development of regions includes strategic goals and figures of development, which require correction in conditions of growing pressure on behalf of Western countries, as well as political and economic restriction of external environment. The authors came to the conclusion about the necessity to correct the system of indicators of the region strategic development by social and economic expediency, managerial supervision and possibility of monitoring. During designing, realizing and monitoring of strategy of region development it is necessary to take into account the impact not only of conventional restrictions coming from the external environment but also specific restrictions in conditions of sanctions imposed by Western countries. Such restrictions during the last decade turned into a trend, which affects life of territories with uncertain status, unrecognized and questionable territories and tend to be used as tools of political pressure or economic wars.