bluuebunny/crossref_metadata_2025_split huggingface dataset:
Improving Injection Safety Practices of Cambodian Healthcare Workers through Training
Authors: Kanagasabai Udhayashankar , Singh Adarshpal , Shiraishi Ray W. , Ly Vanthy , Hy Chhaily , Sanith Sou , S Sok , Sansam Sim , Liu Yuliang , Jones Gerald , Ijeoma Ugonna C. , Bock Naomi , Benech Irene , Selenic Dejana , Drammah Bakary , Gadde Renuka , Mili Fatima D. 
Published: December 2019

Abstract
Background This study evaluated the impact of a safe injection safety training on healthcare worker (HCW) practice and knowledge following an HIV outbreak in Roka commune, Cambodia. Methods Surveys were conducted at baseline (September 2016) and seven months after a training intervention (March 2018) using the World Health Organization standardized injection practices assessment tool. HCWs were sampled at 15 purposively government health facilities in two provinces. HCWs were observed during injection practices and interviewed by trained experts from Becton-Dickinson and the Ministry of Health Cambodia. The Rao-Scott chi square test was used test for differences between baseline and follow-up. Results We completed 115 observations of practice at baseline and 206 at post-training follow-up. The proportion of patients whose identification was confirmed by HCWs prior to procedure being performed increased from 40.4% to 98% (p = 0.0000). The proportion of HCWs who practiced correct hand hygiene increased from 22.0% to 80.6% (p = 0.056) [therapeutic observations] and 17.2% to 63.4% (p = 0.0012) [diagnostic observations]. Immediate disposal of sharps by HCWs decreased from 96.5% to 92.5% (p = 0.0030). Conclusions We found significant improvements in the practice of patient identity confirmation and hand hygiene but not in the immediate disposal of sharps in the post-training intervention. However, findings are not representative of all HCWs in the country. Further pre-service and in-service training and monitoring are necessary to ensure sustained behavior change.
Genome sequencing and transcriptome analysis of Geotrichum citri-aurantii on citrus reveal the potential pathogenic- and guazatine resistance-related genes
Authors: Zhao Juan , Zhang DeYao , Wang Zhe , Tian Zhonghuan , Yang Fan , Lu XinJun , Long Chao-an 
Published: December 2019

Abstract
Background: Citrus grow in more than 100 countries and is one of the most produced fruit genus. Sour rot, caused by Geotrichum citri-aurantii , is a major postharvest disease of citrus，and it causes economic losses. In recent years, the disease had a rising trend year by year. In this study, the genome sequence of G. citri-aurantii and transcriptome sequence of pathogenic- and guazatine resistance were sequenced with a view to explore the potential pathogenic mechanism and drug resistance mechanism of G. citri-aurantii on citrus. Results: We sequenced a high-quality genome sequence of G. citri-aurantii by SMRT. This sequence encodes 6,783 predicted genes of the 28.1-Mb G. citri-aurantii genome. Approximately 5.43 Gb of clean data were obtained after Hi-C sequencing, and a 27.94-Mb genomic sequence was positioned to the 10 chromosome groups after Hi-C assembly , accounting for 99.43% of the previously measured G. citri-aurantii genome. In the process of studying pathogenic mechanisms, the content of polygalacturonase (PG) and polymethylgalacturonase (PMG) was considerably increased in the Newhall navel orange infected by G. citri-aurantii. Then, three polygalacturonase (PG) genes (EVM0005942, EVM0004416, EVM0002276) related to pathogenicity were identified and the expression level was significantly increased during the infection by quantitative RT-PCR. Additionally, G. citri-aurantii is only sensitive to the chemical fungicide guazatine. Massive guazatine use has led to evolution of the wild G. citri-aurantii in citrus-producing areas. Owing to its uniqueness, RNA sequencing analysis of guazatine-resistance showed that the guazatine-resistance of G. citri-aurantii is may related to two ABC transporter family genes, six MFS transporter family genes and two MATE transporter family genes. Conclusions: We found three polygalacturonase (PG) genes related to pathogenicity and ten genes related to guazatine-resistance from molecular level. Our research may provide novel insights into the effective control of this pathogen. Keywords: Geotrichum citri-aurantii , citrus, genome, pathogenicity, guazatine, drug resistance
Transcriptome profiling of human thymic CD4+ and CD8+ T cells compared to primary peripheral T cells
Authors: Helgeland Hanna , Gabrielsen Ingvild , Akselsen Helle , Sundaram Arvind Y.M. , Flåm Siri Tennebø , Lie Benedicte Alexandra 
Published: December 2019

Abstract
Background: The thymus is a highly specialized organ of the immune system where T cell precursors develop and differentiate into self-tolerant CD4+ or CD8+ T cells. No studies to date have investigated how the human transcriptome profiles differ, between T cells still residing in the thymus and T cells in the periphery.Results: We have performed high-throughput RNA sequencing to characterize the transcriptomes of primary single positive (SP) CD4+ and CD8+ T cells from infant thymic tissue, as well as primary CD4+ and CD8+ T cells from infant and adult peripheral blood, to enable the comparisons across tissues and ages. In addition, we have assessed the expression of candidate genes related to autoimmune diseases in thymic CD4+ and CD8+ T cells. Thymic SP T cells displayed a broader transcriptome than peripheral T cells, indicated by a higher number of uniquely expressed genes. Comparing T cells of thymic and blood origin, revealed more differentially expressed genes, than between infant and adult blood. Functional enrichment analysis revealed an over-representation of genes involved in cell cycle and replication in thymic T cells, whereas infant blood T cells were dominated by immune related terms. Comparing adult and infant blood T cells, the former was enriched for inflammatory response, cytokine production and biological adhesion, while upregulated genes in infant blood T cells were associated with cell cycle, cell death and gene expression.Conclusion: This study provides valuable insight into the transcriptomes of the human primary SP T cells still residing within the thymus, and offers a unique comparison to the more frequently studied primary blood derived T cells. We discovered that genes involved in migration, homing and recirculation, between peripheral blood and lymphatic tissue, were particularly active in infant blood T cells, suggesting active migration and recirculation in young children.
TRPP2 and STIM1 form a microdomain to regulate store-operated Ca2+ entry and blood vessel tone
Authors: Guo Jizheng , Zhao Ren , Zhou Muyao , Li Jie , Yao Xiaoqiang , Du Juan , Chen Jiexia , Shen Bing 
Published: December 2019

Abstract
BackgroundTRPP2 (Polycystin-2) is a Ca2+ permeable nonselective cationic channel essential for maintaining physiological function in live cells. Stromal interaction molecule 1 (STIM1) is an important Ca2+ sensor in store-operated Ca2+ entry (SOCE). Both TRPP2 and STIM1 are expressed in endoplasmic reticular membrane and participate in Ca2+ signaling, suggesting a physical interaction and functional synergism.MethodsWe performed co-localization, co-immunoprecipitation, and fluorescence resonance energy transfer assay to identify the interactions of TRPP2 and STIM1 in transfected HEK293 cells and native vascular smooth muscle cells (VSMCs). The function of the TRPP2-STIM1 complex in TG or ATP-induced SOCE was explored using specific siRNA. Further, we created TRPP2 CKO mouse to investigate the functional role of TRPP2 in agonist-induced vessel contraction.ResultsTRPP2 and STIM1 form a complex in transfected HEK293 cells and native VSMCs. Genetic manipulations with TRPP2 siRNA, dominant negative TRPP2 or STIM1 siRNA significantly suppressed adenosine triphosphate (ATP) and thapsigargin (TG)-induced intracellular Ca2+ release and SOCE in HEK293 cells. Inositol triphosphate receptor inhibitor 2-aminoethyl diphenylborinate (2APB) abolished ATP-induced Ca2+ release and SOCE in HEK293 cells. In addition, TRPP2 and STIM1 knockdown significantly inhibited ATP- and TG-induced STIM1 puncta formation and SOCE in VSMCs. Importantly, knockdown of TRPP2 and STIM1 or conditional knockout TRPP2 markedly suppressed agonist-induced mouse aorta contraction.Conclusions Our data indicate that TRPP2 and STIM1 are physically associated and form a functional complex to regulate agonist-induced intracellular Ca2+ mobilization, SOCE and blood vessel tone.
Loss-of-function mutations in KEAP1 drive lung squamous cell carcinoma progression via KEAP1/NRF2 pathway activation
Authors: Meiling Gong , Li Yan , Ye Xiao-Ping , Zhang Linlin , Wang Zhifang , Xu Xiaowen , Shen Yejing , Zheng Cui-Xia 
Published: December 2019

Abstract
Background and Purpose Targeted therapy has led to dramatic change in the treatment of lung adenocarcinoma, but lung squamous cell carcinoma(LSCC) lacks targeted therapy options. High-frequency somatic mutations in KEAP1/NRF2 (27.9%) have been identified in LSCC. In this study, we explored the role of KEAP1 somatic mutations in the development of LSCC and whether a nuclear factor erythroid 2-related factor 2(NRF2) inhibitor be potential to target lung cancer carrying KEAP1/NRF2 mutations.Methods Lung cancer cell lines A549 and H460 with loss-of-function mutations in KEAP1 stably transfected with wild-type (WT) KEAP1 or somatic mutations in KEAP1 were used to investigate the functions of somatic mutations in KEAP1 .Flow cytometry,plate clone formation experiments,and scratch tests were used to examine reactive oxygen species, proliferation, and migration of these cell lines.Results The expression of NRF2 and its target genes increased, and tumor cell proliferation, migration, and tumor growth were accelerated in A549 and H460 cells stably transfected with KEAP1 mutants compared to control cells with a loss-of-function KEAP1 mutation and stably transfected with WT KEAP1 in both in vitro and in vivo studies. Inhibited proliferation was more apparent in the A549 cell line trasfected with the R320Q KEAP1 mutant than the A549 cell line trasfected with WT KEAP1 after treatment with NRF2 inhibitor ML385.Conclusion Somatic mutations in KEAP1 identified from patients with lung carcinoma likely promote tumorigenesis mediated by activation of the KEAP1/NRF2 antioxidant stress response pathway. NRF2 inhibition with ML385 could inhibit the proliferation of tumor cells with KEAP1 mutation.
Associations of the intestinal microbiome with the complement system in age-related macular degeneration
Authors: Zysset-Burri Denise Corinne , Keller Irene , Berger Lieselotte E. , Largiadèr Carlo R. , Wittwer Matthias , Wolf Sebastian , Zinkernagel Martin S. 
Published: December 2019

Abstract
Background: Age-related macular degeneration (AMD) is a leading cause of severe vision loss in the aged population. The etiology of AMD is multifactorial and includes nutritional factors, genetic variants mainly in the complement pathway, environmental risk factors and alterations in the intestinal microbiome. However, it remains largely unexplored whether there is an interdependency of these factors leading to the development of AMD. To investigate this issue, a comprehensive shotgun metagenomics analysis of 57 AMD and 58 healthy controls as well as of 16 complement C3 deficient mice and 16 wildtypes was performed. Single nucleotide polymorphisms (SNPs) in the complement factors were assessed with pre-designed TaqMan® SNP genotyping assays. Results: The composition of the intestinal microbiome differed significantly between AMD patients and controls. Whereas the class Negativicutes was more abundant in patients, the genus Oscillibacter and Bacteroides species had a significantly higher prevalence in persons without AMD. While SNPs within the complement factor B gene were more abundant in controls, SNPs within the high temperature requirement A serine peptidase 1 and complement factor H (CFH) genes were associated with AMD. Using a classification model, Negativicutes was identified as a potential biomarker for AMD and furthermore, it positively correlated with CFH. In addition, similar taxonomic features were identified that distinguished wildtype mice from C3 deficient mice. Conclusion: The composition of the intestinal microbiome differs between AMD patients and controls as well as between C3 deficient mice and wildtype mice. Moreover, since the phylum Firmicutes has been identified as potential biomarker for AMD and positively correlates with the genetic risk factor CFH, the study suggests an association between the intestinal microbiome and the complement system in AMD.
Meta-analysis of the diagnostic performance of circulating microRNAs for pancreatic cancer
Authors: Peng Cheng , Li Zhiqiang , Huang Lihua , Gao Wenzhe , Wang Jiale , Liu Yunfei , Li Xia , Yu Xiao 
Published: December 2019

Abstract
Background: Pancreatic cancer (PC) is characterized by high malignancy and poor prognosis. Detection of circulating microRNAs (miRNAs) is one of the liquid biopsy approaches. Numerous researches have suggested that some differentially expressed miRNAs may be promising diagnostic markers for PC, but the results varied among studies. The present study aimed to summarize the diagnostic accuracy of circulating miRNAs, carbohydrate antigen 19-9 (CA19-9), and the combination of miRNAs and CA19-9. Methods: A literature search of online databases including Pubmed, Embase, Cochrane Library, China National Knowledge Infrastructure (CNKI) and WanFang was conducted. Relative data were extracted from eligible included studies and a meta-analysis was performed. Results: A total of 46 studies involving 4,326 PC patients and 4,277 non-PC controls were included. The pooled SEN, SPE, and AUC of circulating miRNAs in differentiating PC from non-PC controls were 0.79 (0.77-0.81), 0.77 (0.75-0.79), and 0.85 (0.81-0.87), respectively. For CA19-9, the SEN, SPE, and AUC were 0.78 (0.75-0.80), 0.90 (0.85-0.94) and 0.85 (0.82-0.88), respectively. The combination of miRNAs and CA19-9 greatly improved the SEN, SPE, AUC to 0.84 (0.80-0.87), 0.91 (0.89-0.93) and 0.94 (0.92-0.96), respectively. Circulating miRNAs also yielded an acceptable diagnostic accuracy for early-stage PC with a SEN of 0.79 (0.76-0.82), a SPE of 0.74 (0.68-0.79) and an AUC of 0.81 (0.77-0.84). Conclusions: Circulating miRNAs exhibited a satisfactory diagnostic performance for PC, even early-stage PC. The combination of circulating miRNAs and the traditional marker CA19-9 can further improve the diagnostic accuracy, providing a novel strategy for PC diagnosis.
Predictive value of gamma-glutamyl transpeptidase to lymphocyte count ratio in hepatocellular carcinoma patients with microvascular invasion
Authors: Zhang Hongxing , Zhou Yu , Li Yicheng , Qin Wanying , Zi Yunhua , Liu Yulan , Qiu Xiaoying , Xu Hongyuan , Liao Weijia , Huang Zhaoquan 
Published: December 2019

Abstract
Purpose: Microvascular invasion (MVI) is an independent risk factor for poor prognosis of hepatocellular Carcinoma (HCC), However, there is still a lack of preoperative markers to predict MVI of HCC. This study intends to explore the potential application value of gamma-glutamyl transpeptidase to lymphocyte count ratio (GLR) in predicting MVI of HCC, and provide guidance of clinical diagnosis and treatment.Patients and methods: From March 2010 to December 2015, 230 HCC patients underwent surgical treatment in Affiliated Hospitals of Guilin Medical University were selected. Clinicopathological parameters between MVI group (n = 115) and non-MVI group (n = 115) were comparative analyzed. Gamma-glutamyl transpeptidase (GGT) to lymphocyte count ratio (GLR) was used as the key risk factor of HCC with MVI and its optimal cut-off value was estimated by using the receiver operating characteristic (ROC) curve. Kaplan-meier method was used to analyze the survival of HCC patients, and univariate and multivariate Cox regression analysis were used to establish independent predictors affecting postoperative HCC patients.Results: The level of GLR in the MVI group and non-MVI group was 84.83 ± 61.84 and 38.42 ± 33.52 (p < 0.001) respectively. According to the ROC curve analysis, the optimal cut-off value of GLR was 56, and the area under ROC curve (AUC) was 0.781 (95%CI, 0.719 - 0.833) for risk prediction in HCC patients with MVI. Multivariate analysis results showed that the tumor size > 5 cm, HCC combined with MVI and GLR > 56 are independent risk factors for poor prognosis of HCC patients. In addition, compared with non-MVI group, patients with MVI had shorter progression-free survival (PFS) rates and overall survival (OS).Conclusion: GLR could be a predictive biomarker of HCC after operation and a potential predictor of HCC patients combined with MVI.
New molecular approach for the detection of Kinetoplastida parasites of medical and veterinary interest
Authors: Medkour Hacène , Varloud Marie , Davoust Bernard , Mediannikov Oleg 
Published: December 2019

Abstract

Background Kinetoplastids are a remarkable group of protists, containing a range of ubiquitous free-living species–pathogens of invertebrates, vertebrates and even some plants. Trypanosoma species cause sleeping sickness and Chagas disease, whereas the leishmaniases kill and debilitate hundreds of thousands of people worldwide. The diagnosis of a series of pathogenic kinetoplastids is based on clinical manifestations, epidemiological and laboratory data and, for laboratory methods, a gold standard is often missing for human or animal patients. The aim of this study was to implement a molecular approach for the diagnosis and study of Kinetoplastida. Methods The TaqMan qPCR assays targeting: the 24Sa LSU for Kinetoplastida, 28S LSU for Leishmania/ Trypanosoma spp., 5.8S rRNA for Trypanosoma spp., 18S SSU for Leishmania spp., Kinetoplast minicircle DNA (kDNA) L. donovani complex and the L. infantum specific qPCR were designed, validated for their sensitivity and specificity in silico and then in vitro using a panel of known DNAs and after that they were used in the screening of 369 blood samples (358 dogs, 2 equids, 9 monkeys) . In addition, the new 28S LSU primer sets are presented for use in Kinetoplastida's identiﬁcation by PCR and sequencing. Results All qPCR assays showed high analytical sensitivities without failures. They detect about 0.01 parasite/ mL blood for the kDNA based qPCR and at least a single cell-equivalent of rDNA for the other systems. Based on the sequencing results, after screening, sensitivity (Se) and specificity (Sp) were: 0. 919 and 0.971, 0.853 and 0.979, 1.00 and 0.987, 0.826 and 0.995 for all of Kinetoplastida, Leishmania/ Trypanosoma, Trypanosoma, Leishmania spp. specific qPCRs, respectively. kDNA based qPCRs were more sensitive and specific (Se: 1.00; Sp: 0.997). PCR and sequencing allowed the detection of Kinetoplastids in animal blood samples such as: L. infantum, L. guyanensis, T. congolense, T. evansi and Bodo spp.. Conclusion The molecular approach proposed in this study is useful in epidemiological studies, in fundamental research such as screening for new Kinetoplastida species, in diagnosis and therapeutic follow-up. In addition, researchers are free to choose the molecular tools adapted to their studies.
Assessment of knowledge, attitude and practices and analysis on risk factor regarding schistosomiasis among fishermen and boatmen in Dongting Lake Basin, P.R. China
Authors: Guan Zhou , Dai Si-Min , Zhou Jie , Ren Xiao-Bing , Qin Zhi-Qiang , Li Yin-Long , Lv Shan , Li Shi-Zhu , Zhou Xiao-Nong , Xu Jing 
Published: December 2019

Abstract
Background: Fishermen and boatmen are high risk population to get infection by schistosomes due to their high frequency water contact in endemic areas of schistosomiasis in the People’s Republic of China (P. R. China). To develop specific interventions towards this population, understanding their knowledge, attitude and practices (KAPs) towards schistosomiasis and exploring risk factors for schistosomiasis are necessary. Therefore, our present study was designed to assess the KAPs of fishermen and boatmen and to identify the risk factors associated with schistosome infection based on a cross-sectional survey in selected area. Methods: A cross section survey was conducted in Dongting Lake Basin of Yueyang County, Hunan Province, P. R. China. A total of 601 fishermen and boatmen were interviewed from October to November in 2017. Information regarding socio-demographic details and knowledge, attitude, and practices toward schistosomiasis were collected through a standardized questionnaire. Meanwhile, fecal samples of participants were collected and detected by Polymerase Chain Reaction (PCR) technique to understand the infection status of schistosomes among fishermen and boatmen. Results: Of the 601 interviewed participants, more than 90% respondents knew the way of getting infection, intermediate host of schistosomes and preventive methods, while majority of the respondents knew this disease and its cause, clinical manifestations and transmission mode properly. The majority of the respondents had positive attitude towards schistosomiasis prevention. However, only 6.66% respondents had installed latrine on their boats, while 32.61% respondents defecated in the public toilets on shore. In addition, only 4.99% respondents protected themselves while contacting freshwater. The overall positive rate of schistosome nucleic acid among fishermen and boatmen in Yueyang County was 13.81% (83/601). Multivariate logistic regression analysis showed that age, years of doing current job, times receiving treatment and whether treated in last two years were the main influencing factors of S. japonicum infection among this population. Conclusions: Fishermen and boatmen are still at high risk of infection in China, and gaps existed between knowledge, attitude and practices toward schistosomiasis in this population group. Chemotherapy, health education encouraging behavior change in combination with other integrated approaches to decrease the transmission risk in environments should be strengthened.
Sexual-biased gene expression of olfactory-related genes in the antennae of Conogethes pinicolalis (Lepidoptera: Crambidae)
Authors: Jing Dapeng , Zhang Tiantao , Bai Shuxiong , He Kanglai , Prabu Sivaprasath , Luan Junbo , Wang Zhenying 
Published: December 2019

Abstract
Background Conogethes pinicolalis (Lepidoptera: Crambidae), is similar to Conogethes punctiferalis (yellow peach moth) and its host plant is gymnosperms, especially for masson pine. So far, less literature was reported on this pest. In present study, we sequenced and characterized the antennal transcriptomes of male and female C. pinicolalis for the first time. Results Totally, 26 odorant-binding proteins (OBP) genes, 19 chemosensory proteins (CSP) genes, 55 odorant receptors (OR) genes and 20 ionotropic receptors (IR) genes were identified from the C. pinicolalis antennae transcriptome and most of them were olfactory genes, amino sequences were annotated against homologs of C. punctiferalis. The neighbor-joining tree indicated that the amino acid sequence of olfactory related genes is highly homologous with C. punctiferalis. Furthermore, the reference genes were selected, and we strongly recommended the GAPDH or RP49 to verify gene expression for larvae development and RP49 or RPL13 for adult tissues. Conclusions Our study provides a starting point on the molecular level characterization between C. pinicolalis and C. punctiferalis, which might be a supportive for pest management studies in future.