bluuebunny/crossref_metadata_2025_split huggingface dataset:
Risk factors for recurrence of invasive fungal infection during secondary antifungal prophylaxis in allogeneic hematopoietic stem cell transplant recipients
Authors: Liu F. , Wu T. , Wang J.B. , Cao X.Y. , Yin Y.M. , Zhao Y.L. , Lu D.P. 
Published: March 2013

AbstractBackgroundInvasive fungal infections (IFIs) are a major cause of mortality among allogeneic hematopoietic stem cell transplantation (allo‐HSCT) patients. Thanks to the widespread use of secondary antifungal prophylaxis (SAP), a history of IFI is not an absolute contraindication to allo‐HSCT. However, IFI recurrence remains a risk factor for transplant‐related mortality.MethodsTo evaluate the risk factors for IFI recurrence in allo‐HSCT patients receiving SAP, we performed a retrospective analysis of 90 individuals treated at our hospital. SAP antifungal agents included fluconazole (n = 28), voriconazole (n = 25), itraconazole (n = 23), caspofungin (n = 7), and micafungin (n = 7).ResultsBy day +100, recurrent IFI had occurred in 23 (25.5%) patients. Our multivariate analysis identified 4 factors significantly associated with a risk of IFI recurrence within 100 days of allo‐HSCT: duration of neutropenia >18 days, presence of severe acute graft‐versus‐host disease (aGVHD), <70‐day interval between previous infection and transplantation, and use of a narrow‐spectrum SAP agent (P = 0.008, 0.010, 0.041, and 0.001, respectively). Of the 87 patients who remained in the study for the duration of the follow‐up period (median length: 551 days), 26 (29.9%) died; only 7 (8.0%) of these deaths resulted from a severe fungal infection.ConclusionThese results suggest that transplantation outcome can be improved by adequate antifungal treatment before transplantation, better prevention of, and therapy for, severe aGVHD, use of granulocyte colony‐stimulating factor to reduce the duration of neutropenia, and use of broad‐spectrum prophylaxis agents.
The performance of numerical odour assessment for the prediction of odour complaints from wastewater treatment works
Authors: Bull Michael A. , Fromant Emma L. 
Published: March 2013

AbstractNumerical odour standards are often used in conjunction with dispersion modelling to assess the acceptability of the odour environment around wastewater treatment works (WWTWs). However, the odour standards applied are based on very limited research, and there is very little information available regarding how well these standards work in practice. This paper describes the results of a study examining the relationship between odour modelling results and reported complaints around 15 WWTWs in the United Kingdom. Predicted odour concentrations around each of the works were calculated using industry standard odour emission rates. Records of reported odour complaints were obtained from the relevant local authority environmental health department. The study found that odour modelling results did not correlate well with the location of the reported complaints and that in most cases, odour modelling underestimated the area from which complaints would be received.
Modulation of Shallow-Water Equatorial Waves due to a Varying Equivalent Height Background
Authors: Dias Juliana , Silva Dias Pedro L. , Kiladis George N. , Gehne Maria 
Published: March 2013

Abstract
The dynamics of convectively coupled equatorial waves (CCEWs) is analyzed in an idealized model of the large-scale atmospheric circulation. The model is composed of a linear rotating shallow-water system with a variable equivalent height, or equivalent gravity wave speed, which varies in space. This model is based on the hypothesis that moist convection acts to remove convective instability, therefore modulating the equivalent height of a shallow-water system. Asymptotic solutions are derived in the case of a small perturbation around a constant coefficient, which is assumed to be a mean moist equivalent height derived from satellite observations. The first-order solutions correspond to the free normal modes of the linear shallow-water system and the second-order flow is derived solving a perturbation eigenvalue problem. The asymptotic solutions are documented in the case of a zonally varying equivalent height and for wavenumbers and frequencies that are consistent with observations of CCEWs. This analysis shows that the dynamics of the secondary divergence and its impact on the full divergence varies mode by mode. For instance, for a negative equivalent height anomaly, which is interpreted as a moister background, the secondary divergence is nearly in phase with the primary divergence in the case of Kelvin waves—in contrast to mixed Rossby–gravity waves where the secondary divergence acts to attenuate the primary divergence. While highly idealized, the modeled waves share some features with observations, providing a mechanism for the relationship between CCEWs phase speed, amplitude, and horizontal structure.
The Ensemble Kalman Filter Analyses and Forecasts of the 8 May 2003 Oklahoma City Tornadic Supercell Storm Using Single- and Double-Moment Microphysics Schemes
Authors: Yussouf Nusrat , Mansell Edward R. , Wicker Louis J. , Wheatley Dustan M. , Stensrud David J. 
Published: March 2013

Abstract
A combined mesoscale and storm-scale ensemble data-assimilation and prediction system is developed using the Advanced Research core of the Weather Research and Forecasting Model (WRF-ARW) and the ensemble adjustment Kalman filter (EAKF) from the Data Assimilation Research Testbed (DART) software package for a short-range ensemble forecast of an 8 May 2003 Oklahoma City, Oklahoma, tornadic supercell storm. Traditional atmospheric observations are assimilated into a 45-member mesoscale ensemble over a continental U.S. domain starting 3 days prior to the event. A one-way-nested 45-member storm-scale ensemble is initialized centered on the tornadic event at 2100 UTC on the day of the event. Three radar observation assimilation and forecast experiments are conducted at storm scale using a single-moment, a semi-double-moment, and a full double-moment bulk microphysics scheme. Results indicate that the EAKF initializes the supercell storm into the model with good accuracy after a 1-h-long radar observation assimilation window. The ensemble forecasts capture the movement of the main supercell storm that matches reasonably well with radar observations. The reflectivity structure of the supercell storm using a double-moment microphysics scheme appears to compare better to the observations than that using a single-moment scheme. In addition, the ensemble system predicts the probability of a strong low-level vorticity track of the tornadic supercell that correlates well with the observed rotation track. The rapid 3-min update cycle of the storm-scale ensemble from the radar observations seems to enhance the skill of the ensemble and the confidence of an imminent tornado threat. The encouraging results obtained from this study show promise for a short-range probabilistic storm-scale forecast of supercell thunderstorms, which is the main goal of NOAA's Warn-on-Forecast initiative.
Quasi-Biweekly Mode and Its Modulation on the Diurnal Rainfall in Taiwan Forecasted by the CFS
Authors: Wang Shih-Yu , Chia Hsin-Hsing , Gillies Robert R. , Jiang Xianan 
Published: March 2013

Abstract
The occurrence of diurnal afternoon convection in Taiwan undergoes substantial modulation from tropical intraseasonal oscillations in the western North Pacific, including the quasi-biweekly (QBW) mode. By analyzing surface station observations and the Climate Forecast System (CFS) Reanalyses (CFSR), as well as the NCEP CFS version 2 (CFSv2) reforecast data over 18 summers from 1993 to 2010, it was found that the QBW mode plays a significant role in the formation of episodic diurnal convection. When the cyclonic circulation of the QBW mode is located west of Taiwan, followed by an anticyclonic circulation to the east, Taiwan's diurnal convection activity tends to intensify and persists for about 4–7 days. Synoptically, this situation reflects the enhanced subtropical anticyclone leading to fair weather conditions and increased monsoon southwesterly winds moistening the lower troposphere, all of which are conducive to thermally induced diurnal convection in Taiwan. The opposite situation tends to suppress the diurnal convection activity for a sustained period of time. Based upon this synoptic linkage, an empirical relationship between the precipitation diurnal amplitude and low-level circulation fields of the CFSv2 is derived. It was found that the CFSv2 forecast exhibits an effective lead time ranging from 16 to 24 days for the QBW mode and, subsequently, diurnal convection episodes in Taiwan.
Deep sequencing and genome-wide analysis reveals the expansion of MicroRNA genes in the gall midge Mayetiola destructor
Authors: Khajuria Chitvan , Williams Christie E , El Bouhssini Mustapha , Whitworth R Jeff , Richards Stephen , Stuart Jeffrey J , Chen Ming-Shun 
Published: March 2013

Abstract

Background
MicroRNAs (miRNAs) are small non-coding RNAs that play critical roles in regulating post transcriptional gene expression. Gall midges encompass a large group of insects that are of economic importance and also possess fascinating biological traits. The gall midge Mayetiola destructor, commonly known as the Hessian fly, is a destructive pest of wheat and model organism for studying gall midge biology and insect – host plant interactions.

Results
In this study, we systematically analyzed miRNAs from the Hessian fly. Deep-sequencing a Hessian fly larval transcriptome led to the identification of 89 miRNA species that are either identical or very similar to known miRNAs from other insects, and 184 novel miRNAs that have not been reported from other species. A genome-wide search through a draft Hessian fly genome sequence identified a total of 611 putative miRNA-encoding genes based on sequence similarity and the existence of a stem-loop structure for miRNA precursors. Analysis of the 611 putative genes revealed a striking feature: the dramatic expansion of several miRNA gene families. The largest family contained 91 genes that encoded 20 different miRNAs. Microarray analyses revealed the expression of miRNA genes was strictly regulated during Hessian fly larval development and abundance of many miRNA genes were affected by host genotypes.

Conclusion
The identification of a large number of miRNAs for the first time from a gall midge provides a foundation for further studies of miRNA functions in gall midge biology and behavior. The dramatic expansion of identical or similar miRNAs provides a unique system to study functional relations among miRNA iso-genes as well as changes in sequence specificity due to small changes in miRNAs and in their mRNA targets. These results may also facilitate the identification of miRNA genes for potential pest control through transgenic approaches.
Epidemic of measles following the nationwide mass immunization campaign
Authors: Gao Jie , Chen Enfu , Wang Zhigang , Shen Jichuan , He Hanqing , Ma Huilai , Zeng Guang , Zhu Bao-Ping 
Published: March 2013

Abstract

Background
A prolonged measles epidemic occurred in Wenzhou City, China after a nationwide measles mass immunization campaign (MMIC) in 2010. We conducted an investigation to identify factors contributing to this epidemic and to provide evidence-based recommendations for measles elimination strategies in China.

Methods
Measles was diagnosed using the national standard case-definitions. We estimated the population vaccination coverage based on the proportion of measles patients that had been vaccinated. In a case–control investigation, all measles patients who received treatment in The Second Affiliated Hospital of Wenzhou Medical College (Hospital S) during November 1 to December 31, 2010 served as cases; controls were randomly selected among all other patients who received treatment in Hospital S during the same time period, frequency matched by month of hospital visit. We reviewed medical records of case- and control-patients to compare their exposure history at Hospital S and to its intravenous rehydration room (IV room) during the incubation period (7–21 days before their illness onset).

Results
The attack rate of measles in Wenzhou City was 3.3/100,000 during September 1, 2010 to January 11, 2011. Children aged 8-11 m had the highest attack rate (171/100,000) of all age groups. In children not age-eligible for the MMIC but should have been routinely vaccinated after the MMIC, the vaccination rate was only 52%. In the case–control investigation, 60% (25/42) of case-patients compared with 21% (35/168) of control-patients had visited Hospital S (adjusted ORM-H = 5.5, 95% CI = 2.7–11). Among unvaccinated children who had received treatment in Hospital S, 84% (21/25) of case-patients compared 38% (11/29) of control-patients had visited the IV room (adjusted ORM-H = 9.2, 95% CI = 1.5–59).

Conclusion
Relaxed routine measles vaccination among children after the MMIC was the main factor responsible for this epidemic. Exposure in the IV room at Hospital S facilitated the epidemic. To reach the goal of measles elimination, the Chinese public health authorities should make greater efforts to improve timely routine measles vaccination, and to reduce nosocomial transmission.
The CARD8 p.C10X mutation associates with a low anti-glycans antibody response in patients with Crohn’s disease
Authors: Vasseur Francis , Sendid Boualem , Broly Franck , Gower-Rousseau Corinne , Sarazin Aurore , Standaert-Vitse Annie , Colombel Jean-Frederic , Poulain Daniel , Jouault Thierry 
Published: March 2013

Abstract

Background
Crohn’s disease (CD) is associated with elevated anti-glycans antibody response in 60% of CD patients, and 25% of healthy first-degree relatives (HFDRs), suggesting a genetic influence for this humoral response. In mice, anti-glucan antibody response depends on the NLRP3 inflammasome. Here, we explored the effect of mutated CARD8, a component of the inflammasome, on anti-glycans antibody response in human.

Methods
The association between p.C10X mutation (rs2043211) of the CARD8 gene and the levels of anti-glycans antibody response was examined in 39 CD families. The family-based QTDT association test was used to test for the genetic association between CARD8 p.C10X mutation and anti-glycan antibodies in the pedigrees. The difference in antibody responses determined by ELISA was tested in a subgroup of CD probands (one per family) and in a subgroup of HFDRs using the Wilcoxon Kruskal Wallis non-parametric test.

Results
The QTDT familial transmission tests showed that the p.C10X mutation of CARD8 was significantly associated with lower levels of antibody to mannans and glucans but not chitin (p=0.024, p=0.0028 and p=0.577, for ASCA, ALCA and ACCA, respectively). These associations were independent of NOD2 and NOD1 genetic backgrounds. The p.C10X mutation significantly associated or displayed a trend toward lower ASCA and ALCA levels (p=0.038 and p=0.08, respectively) only in the subgroup of CD probands. Such associations were not significant for ACCA levels in both subgroups of CD probands and of HFDRs.

Conclusion
Our results show that ASCA and ALCA but not ACCA levels are under the influence of CARD8 genotype. Alteration of CARD8, a component of inflammasome, is associated with lower levels of antibodies directed to mannans and glucans at least in CD patients.
Diagnosis of partial complex regional pain syndrome type 1 of the hand: retrospective study of 16 cases and literature review
Authors: Konzelmann Michel , Deriaz Olivier , Luthi François 
Published: March 2013

Abstract

Background
The partial form of the complex regional pain syndrome of the hand type 1 (CRPS 1), involving only 1 to 3 fingers, is a rare condition first described in 1972. The aim of the study is to define more precisely the diagnosis workup and the prognosis of this clinical entity.

Methods
Retrospective study of CRPS1 partial form observed during five years in a rehabilitation ward. Application of The Budapest criteria, evaluation of radiological exams, therapeutic results and vocational outcomes. Comparison with cases from literature review.

Results
132 patients were hospitalized with the diagnosis of CRPS type 1 of the hand. 16 partial forms were isolated: 11 men, 5 women with a mean age of 43 years. Among these patients, 14 (88%) met The Budapest criteria and the two remaining cases were diagnosed by using the three phase bone scintigraphy. Only moderate improvement was obtained in the majority of the patients. At the maximal time of follow-up (4 to 9 years), 50% of the patients hadn’t returned to work. From the literature review, 19 cases were eligible for clinical comparisons. The main differences between our series and the literature were: more men involved, later diagnosis and worst prognosis in term of return to work.

Conclusions
This is the largest series of consecutive partial form of CRPS. The Budapest criteria are sufficient for the diagnosis in 88% of cases. As in complete form of CRPS1 of the hand, three phase bone scintigraphy should only be used in doubtful cases in the first six months of the illness. Partial form of CRPS1 of the hand is rare and its prevalence remains unknown. Long term prognosis (4 to 9 years) is poor in our series, 50% of patients didn’t returned to work.
Increased phosphorylation of histone H3 at serine 10 is involved in Epstein-Barr virus latent membrane protein-1-induced carcinogenesis of nasopharyngeal carcinoma
Authors: Li Binbin , Huang Guoliang , Zhang Xiangning , Li Rong , Wang Jian , Dong Ziming , He Zhiwei 
Published: March 2013

Abstract

Background
Increased histone H3 phosphorylation is an essential regulatory mechanism for neoplastic cell transformation. We aimed to explore the role of histone H3 phosphorylation at serine10 (p-H3Ser10) in Epstein-Barr virus (EBV) latent membrane protein-1 (LMP1)-induced carcinogenesis of nasopharyngeal carcinoma (NPC).

Methods
The expression of p-H3Ser10 was detected by the immunohistochemical analysis in NPC, chronic nasopharyngitis and normal nasopharynx tissues, and its correlation with LMP1 was analyzed in NPC tissues and cell lines. Using the small interfering RNA (siRNA)-H3 and histone H3 mutant (S10A), the effect of histone H3 Ser10 motif on LMP1-induced CNE1 cell proliferation, transformation and activator protein-1 (AP-1) activation were evaluated by CCK-8, focus-forming and reporter gene assay respectively. Mitogen- and stress-activated kinase 1 (MSK1) kinase activity and phosphorylation were detected by in vitro kinase assay and western blot. Using MSK1 inhibitor H89 or siRNA-MSK1, the regulatory role of MSK1 on histone H3 phosphorylation and AP-1 activation were analyzed.

Results
Immunohistochemical analysis revealed that the expression of p-H3Ser10 was significantly higher in the poorly differentiated NPC tissues than that in chronic nasopharyngitis (p <0.05) and normal nasopharynx tissues (p <0.001). Moreover, high level of p-H3Ser10 was positively correlated with the expression of LMP1 in NPC tissues (χ
2=6.700, p =0.01; C=0.350) and cell lines. The knockdown and mutant (S10A) of histone H3 suppressed LMP1-induced CNE1 cell proliferation, foci formation and AP-1 activation. In addition, LMP1 could increase MSK1 kinase activity and phosphorylation. MSK1 inhibitor H89 or knockdown of MSK1 by siRNA blocked LMP1-induced phosphorylation of histone H3 at Ser10 and AP-1 activation.

Conclusion
EBV-LMP1 can induce phosphorylation of histone H3 at Ser10 via MSK1. Increased phosphorylation of histone H3 at Ser10 is likely a crucial regulatory mechanism involved in LMP1-induced carcinogenesis of NPC.
The impact of KRAS mutations on VEGF-A production and tumour vascular network
Authors: Figueras Agnès , Arbos Maria Antonia , Quiles Maria Teresa , Viñals Francesc , Germà Josep Ramón , Capellà Gabriel 
Published: March 2013

Abstract

Background
The malignant potential of tumour cells may be influenced by the molecular nature of KRAS mutations being codon 13 mutations less aggressive than codon 12 ones. Their metabolic profile is also different, with an increased anaerobic glycolytic metabolism in cells harbouring codon 12 KRAS mutations compared with cells containing codon 13 mutations. We hypothesized that this distinct metabolic behaviour could be associated with different HIF-1α expression and a distinct angiogenic profile.

Methods
Codon13 KRAS mutation (ASP13) or codon12 KRAS mutation (CYS12) NIH3T3 transfectants were analyzed in vitro and in vivo. Expression of HIF-1α, and VEGF-A was studied at RNA and protein levels. Regulation of VEGF-A promoter activity was assessed by means of luciferase assays using different plasmid constructs. Vascular network was assessed in tumors growing after subcutaneous inoculation. Non parametric statistics were used for analysis of results.

Results
Our results show that in normoxic conditions ASP13 transfectants exhibited less HIF-1α protein levels and activity than CYS12. In contrast, codon 13 transfectants exhibited higher VEGF-A mRNA and protein levels and enhanced VEGF-A promoter activity. These differences were due to a differential activation of Sp1/AP2 transcription elements of the VEGF-A promoter associated with increased ERKs signalling in ASP13 transfectants. Subcutaneous CYS12 tumours expressed less VEGF-A and showed a higher microvessel density (MVD) than ASP13 tumours. In contrast, prominent vessels were only observed in the latter.

Conclusion
Subtle changes in the molecular nature of KRAS oncogene activating mutations occurring in tumour cells have a major impact on the vascular strategy devised providing with new insights on the role of KRAS mutations on angiogenesis.
A functional polymorphism T309G in MDM2 gene promoter, intensified by Helicobacter pylori lipopolysaccharide, is associated with both an increased susceptibility and poor prognosis of gastric carcinoma in Chinese patients
Authors: Pan Xiaolin , Li Yuqin , Feng Jin , Wang Xiaoyong , Hao Bo , Shi Ruihua , Zhang Guoxin 
Published: March 2013

Abstract

Background
Studies on the association between MDM2 SNP309 (T > G) and gastric cancer have reported conflicting results. Thus, the aim of this study was to investigate whether MDM2 SNP309 is associated with susceptibility and prognosis of gastric carcinoma in Chinese patients.

Methods
Total of 574 gastric carcinoma cases and 574 age- and sex-matched healthy controls were included. MDM2 polymorphism was detected by PCR- RFLP and infection of Helicobacter pylori (H. pylori) by a validated serology test. The functionality of MDM2 SNP309, with or without H. pylori lipopolysaccharide (LPS), was examined by dual-luciferase assay. Kaplan-Meier survival curves were used to evaluate survival. Additional, a meta-analysis was conducted to verity the findings.

Results

MDM2 SNP309G/G genotype was associated with an increased risk of gastric carcinoma when compared with T/T genotype or T carriers (both P < 0.01), and a joint effect between MDM2 SNP309G/G and H. pylori infection was observed to intensify gastric carcinoma risk. SNP309G/G was identified as an independent marker of poor overall survival of carcinoma. In vitro, the luciferase assay further showed an increased transcriptional activity of SNP309G allele compared with SNP309T allele, and the function of polymorphism T309G in MDM2 gene promoter was intensified by H. pylori LPS. Pooled results from the meta-analysis confirmed that SNP309G/G genotype had a significantly increased risk of gastric carcinoma compared with T/T genotype or T carriers, consistent with the case–control findings.

Conclusions

MDM2 SNP309G allele is associated with an increased risk and poor prognosis of gastric carcinoma in Chinese patients. Additional, there is a joint effect of MDM2 SNP309G/G allele and H. pylori infection on gastric carcinoma development, which may attribute to H. pylori LPS.