bluuebunny/crossref_metadata_2025_split huggingface dataset:
Interplay between nitrogen fertilizer and biological nitrogen fixation in soybean: implications on seed yield and biomass allocation
Authors: Tamagno Santiago , Sadras Victor O. , Haegele Jason W. , Armstrong Paul R. , Ciampitti Ignacio A. 
Published: November 2018

AbstractLegumes rely on soil mineral nitrogen (N) and biological N fixation (BNF). The interplay between these two sources is biologically interesting and agronomically relevant as the crop can accommodate the cost of BNF by five non-mutually exclusive mechanisms, whereby BNF: reduces shoot growth and seed yield, or maintains shoot growth and seed yield by enhanced photosynthesis, or reduced root:shoot ratio, or maintains shoot growth but reduces seed yield by reducing the fraction of shoot biomass allocated to seed (harvest index), or reducing concentration of oil and protein in seed. We explore the impact of N application on the seasonal dynamics of BNF, and its consequences for seed yield with emphasis on growth and shoot allocation mechanisms. Trials were established in 23 locations across the US Midwest under four N conditions. Fertilizer reduced the peak of BNF up to 16% in applications at the full flowering stage. Seed yield declined 13 kg ha−1per % increase in RAUR6. Harvest index accounted for the decline in seed yield with increasing BNF. This indicates the cost of BNF was met by a relative change in dry matter allocation against the energetically rich seed, and in favor of energetically cheaper vegetative tissue.
Prenatal retinoic acid exposure reveals candidate genes for craniofacial disorders
Authors: Berenguer Marie , Darnaudery Muriel , Claverol Stéphane , Bonneu Marc , Lacombe Didier , Rooryck Caroline 
Published: November 2018

AbstractSyndromes that display craniofacial anomalies comprise a major class of birth defects. Both genetic and environmental factors, including prenatal retinoic acid (RA) exposure, have been associated with these syndromes. While next generation sequencing has allowed the discovery of new genes implicated in these syndromes, some are still poorly characterized such as Oculo-Auriculo-Vertebral Spectrum (OAVS). Due to the lack of clear diagnosis for patients, developing new strategies to identify novel genes involved in these syndromes is warranted. Thus, our study aimed to explore the link between genetic and environmental factors. Owing to a similar phenotype of OAVS reported after gestational RA exposures in humans and animals, we explored RA targets in a craniofacial developmental context to reveal new candidate genes for these related disorders. Using a proteomics approach, we detected 553 dysregulated proteins in the head region of mouse embryos following their exposure to prenatal RA treatment. This novel proteomic approach implicates changes in proteins that are critical for cell survival/apoptosis and cellular metabolism which could ultimately lead to the observed phenotype. We also identified potential molecular links between three major environmental factors known to contribute to craniofacial defects including maternal diabetes, prenatal hypoxia and RA exposure. Understanding these links could help reveal common key pathogenic mechanisms leading to craniofacial disorders. Using both in vitro and in vivo approaches, this work identified two new RA targets, Gnai3 and Eftud2, proteins known to be involved in craniofacial disorders, highlighting the power of this proteomic approach to uncover new genes whose dysregulation leads to craniofacial defects.
Lactobacillus reuteri HCM2 protects mice against Enterotoxigenic Escherichia coli through modulation of gut microbiota
Authors: Wang Tianwei , Teng Kunling , Liu Gang , Liu Yayong , Zhang Jie , Zhang Xin , Zhang Min , Tao Yong , Zhong Jin 
Published: November 2018

AbstractEnterotoxigenic Escherichia coli (ETEC) is a leading cause of infectious diarrhea in children and postweaning piglets. ETEC infection results in induced pro-inflammatory responses in intestinal epithelial cells and dysbiosis of intestinal microbiota. Here, a Lactobacillus reuteri strain, HCM2, isolated from a healthy piglet showed a high survival rate in the harsh gastrointestinal tract environment and inhibited the growth of ETEC and its adherence to intestinal epithelial cells. Pre-supplementation with L. reuteri HCM2 for 14 days reduced the ETEC load in the jejunum of ETEC-infected mice and prevented the disruption of intestinal morphology by ETEC. The colonic microbiota of mice with or without HCM2 pre-supplementation were analyzed, and this analysis revealed that HCM2 could prevent dysbiosis caused by ETEC infection by stabilizing the relative abundance of dominant bacteria. These results indicate that L. reuteri HCM2 has the potential to attenuate the effect of ETEC on the colonic microbiota in infected mice.
HCV coinfection aggravated the decrease of platelet counts, but not mean platelet volume in chronic HIV-infected patients
Authors: Lv Linting , Li Yuantao , Fan Xueying , Xie Zhe , Liang Hua , Shen Tao 
Published: November 2018

AbstractEither HIV or HCV monoinfection could result in an abnormal status of platelets. As two key indicators reflecting activation and function of platelets, the changes of platelet counts and mean platelet volume (MPV) in HIV/HCV-coinfected patients have not been clearly identified. In the present study, a total of 318 former plasma donors were investigated in 2006, and 66% (201 individuals) of primary recruiters were followed up in 2014. By horizontal comparison in 2006, the decrease of platelet counts in HIV/HCV coinfection was greater than that in HIV or HCV monoinfection. MPV scores were lower in HIV monoinfection compared with healthy controls, while no difference was found in HIV/HCV coinfection. Platelet counts were shown to be negatively correlated with MPV scores in total recruited population (r = 0.432, P < 0.001). Interestingly, by comparison of data from two time points of 2006 and 2014, significant decrease of platelets (P = 0.004) and increase of MPV (P = 0.004) were found only in HCV monoinfected patients, which may associate with slow progression of hepatic fibrosis induced by chronic HCV infection. Nonetheless, no significant changes of platelet counts and MPV were found from 2006 to 2014 in coinfected patients. In conclusion, HCV coinfection aggravated the decrease of platelet counts, but not MPV score in chronic HIV infection. MPV showed poor applicability in reflecting the status of platelets in HIV/HCV-coinfected patients.
Quantitative DNA Methylation Analysis of DLGAP2 Gene using Pyrosequencing in Schizophrenia with Tardive Dyskinesia: A Linear Mixed Model Approach
Authors: Li Yanli , Wang Kesheng , Zhang Ping , Huang Junchao , An Huimei , Wang Nianyang , De Yang Fu , Wang Zhiren , Tan Shuping , Chen Song , Tan Yunlong 
Published: November 2018

AbstractTardive dyskinesia (TD) is a side effect of antipsychotic medications used to treat schizophrenia (SCZ) and other mental health disorders. No study has previously used pyrosequencing to quantify DNA methylation levels of the DLGAP2 gene; while the quantitative methylation levels among CpG sites within a gene may be correlated. To deal with the correlated measures among three CpG sites within the DLGAP2 gene, this study analyzed DNA methylation levels of the DLGAP2 gene using a linear mixed model (LMM) in a Chinese sample consisting of 35 SCZ patients with TD, 35 SCZ without TD (NTD) and 34 healthy controls (HCs) collected in Beijing, China. The initial analysis using the non-parametric Kruskal-Wallis test revealed that three groups (TD, NTD and HC) had significant differences in DNA methylation level for CpG site 2 (p = 0.0119). Furthermore, the average methylation levels among the three CpG sites showed strong correlations (all p values < 0.0001). In addition, using the LMM, three groups had significant differences in methylation level (p = 0.0027); while TD, NTD and TD + NTD groups showed higher average methylation levels than the HC group (p = 0.0024, 0.0151, and 0.0007, respectively). In conclusion, the LMM can accommodate a covariance structure. The findings of this study provide first evidence of DNA methylation levels in DLGAP2 associated with SCZ with TD in Chinese population. However, TD just showed borderline significant differences to NTD in this study.
Pretreatment with Total Flavonoid Extract from Dracocephalum Moldavica L. Attenuates Ischemia Reperfusion-induced Apoptosis
Authors: Zeng Cheng , Jiang Wen , Yang Xiaoyi , He Chenghui , Wang Wen , Xing Jianguo 
Published: November 2018

AbstractWe previously demonstrated the cardio-protection mediated by the total flavonoid extracted from Dracocephalum moldavica L. (TFDM) following myocardial ischemia reperfusion injury (MIRI). The present study assessed the presence and mechanism of TFDM-related cardio-protection on MIRI-induced apoptosis in vivo. Male Sprague-Dawley rats experienced 45-min ischemia with 12 h of reperfusion. Rats pretreated with TFDM (3, 10 or 30 mg/kg/day) were compared with Sham (no MIRI and no TFDM), MIRI (no TFDM), and Positive (trapidil tablets, 13.5 mg/kg/day) groups. In MIRI-treated rats, high dose-TFDM (H-TFDM) pre-treatment with apparently reduced release of LDH, CK-MB and MDA, enhanced the concentration of SOD in plasma, and greatly reduced the infarct size, apoptotic index and mitochondrial injury. H-TFDM pretreatment markedly promoted the phosphorylation of PI3K, Akt, GSK-3β and ERK1/2 in comparison with the MIRI model group. Western blot analysis after reperfusion also showed that H-TFDM decreased release of Bax, cleaved caspase-3, caspase-7 and caspase-9, and increased expression of Bcl-2 as evident by the higher Bcl-2/Bax ratio. TFDM cardio-protection was influenced by LY294002 (PI3K inhibitor) and PD98059 (ERK1/2 inhibitor). Taken together, these results provide convincing evidence of the benefit of TFDM pretreatment due to inhibited myocardial apoptosis as mediated by the PI3K/Akt/GSK-3β and ERK1/2 signaling pathways.
Mapping of a responsible region for sex reversal upstream of Sox9 by production of mice with serial deletion in a genomic locus
Authors: Ogawa Yuya , Terao Miho , Hara Satoshi , Tamano Moe , Okayasu Haruka , Kato Tomoko , Takada Shuji 
Published: November 2018

AbstractSox9 plays critical roles in testis formation. By mapping four familial cases of disorders of sexual development, a 32.5 kb sequence located far upstream of SOX9 was previously identified as being a commonly deleted region and named the XY sex reversal region (XYSR). To narrow down a responsible sequence in XYSR, we generated mutant mice with a series of deletions in XYSR by application of the CRISPR/Cas9 system, using a mixture of sgRNAs targeting several kilobase (kb) intervals in the region. When the whole XYSR corresponding sequence in mice was deleted in XY karyotype individuals, the mutation resulted in female offspring, suggesting that an expression mechanism of SOX9/Sox9 through XYSR is conserved in human and mouse. Male-to-female sex reversal was found in mice with a 4.8 kb deletion. We identified a sequence conserved among humans, mice, and opossum, the deletion of which (783 bp) in mice resulted in male-to-female sex reversal. The sequence includes a recently reported critical gonad enhancer for Sox9. Although it cannot be concluded that the human sequence is responsible for XYSR, it is likely. This method is applicable for fine mapping of responsible sequences for disease-causing deletions especially with regard to rare diseases.
Variation of preoperative chest radiography utilization in Switzerland and its influencing factors: a multilevel study with claims data
Authors: Wei Wenjia , Gruebner Oliver , von Wyl Viktor , Brüngger Beat , Dressel Holger , Ulyte Agne , Blozik Eva , Bähler Caroline , Schwenkglenks Matthias 
Published: November 2018

AbstractClinical recommendations discourage routine use of preoperative chest radiography (POCR). However, there remains much uncertainty about its utilization, especially variation across small areas. We aimed to assess the variation of POCR use across small regions, and to explore its influencing factors. Patients undergoing inpatient surgery during 2013 to 2015 were identified from insurance claims data. Possible influencing factors of POCR included socio-demographics, health insurance choices, and clinical characteristics. We performed multilevel modelling with region and hospital as random effects. We calculated 80% interval odds ratios (IOR-80) to describe the effect of hospital type, and median odds ratios (MOR) to assess the degree of higher level variation. Utilization rates of POCR varied from 2.5% to 44.4% across regions. Higher age, intrathoracic pathology, and multi-morbidity were positively associated with the use of POCR. Female gender, choice of high franchise and supplementary hospital insurance showed a negative association. MOR was 1.25 and 1.69 for region and hospital levels, respectively. IOR-80s for hospital type were wide and covered the value of one. We observed substantial variation of POCR utilization across small regions in Switzerland. Even after controlling for multiple factors, variation across small regions and hospitals remained. Underlying mechanisms need to be studied further.
In silico discovery of a FOXM1 driven embryonal signaling pathway in therapy resistant neuroblastoma tumors
Authors: Vanhauwaert Suzanne , Decaesteker Bieke , De Brouwer Sara , Leonelli Carina , Durinck Kaat , Mestdagh Pieter , Vandesompele Jo , Sermon Karen , Denecker Geertrui , Van Neste Christophe , Speleman Frank , De Preter Katleen 
Published: November 2018

AbstractChemotherapy resistance is responsible for high mortality rates in neuroblastoma. MYCN, an oncogenic driver in neuroblastoma, controls pluripotency genes including LIN28B. We hypothesized that enhanced embryonic stem cell (ESC) gene regulatory programs could mark tumors with high pluripotency capacity and subsequently increased risk for therapy failure. An ESC miRNA signature was established based on publicly available data. In addition, an ESC mRNA signature was generated including the 500 protein coding genes with the highest positive expression correlation with the ESC miRNA signature score in 200 neuroblastomas. High ESC m(i)RNA expression signature scores were significantly correlated with poor neuroblastoma patient outcome specifically in the subgroup of MYCN amplified tumors and stage 4 nonamplified tumors. Further data-mining identified FOXM1, as the major predicted driver of this ESC signature, controlling a large set of genes implicated in cell cycle control and DNA damage response. Of further interest, re-analysis of published data showed that MYCN transcriptionally activates FOXM1 in neuroblastoma cells. In conclusion, a novel ESC m(i)RNA signature stratifies neuroblastomas with poor prognosis, enabling the identification of therapy-resistant tumors. The finding that this signature is strongly FOXM1 driven, warrants for drug design targeted at FOXM1 or key components controlling this pathway.
Thrombin generation during a regular menstrual cycle in women with von Willebrand disease
Authors: Govorov Igor , Bremme Katarina , Lindahl Tomas L. , Holmström Margareta , Komlichenko Eduard , Chaireti Roza , Mints Miriam 
Published: November 2018

AbstractFluctuations of the sex steroids during the menstrual cycle might significantly influence hemostasis. This association, derived from a number of the observations on healthy women, is yet to be described in females affected by bleeding disorders. The aim of the current study was to assess the changes in hemostatic variables in women with vWD during two phases of the menstrual cycle (follicular and luteal) and to compare it with healthy controls. The study group included 12 vWD-affected females with regular menstrual cycle, with none of them being prescribed any hormonal treatment. The control group consisted of 102 healthy females, matched for age and BMI. Within the vWD group FVIII and FX were both significantly higher during follicular phase than in luteal phase (p = 0.013 and p = 0.033 respectively). AT, FII, FVII and FX were higher in women with vWD, compared with controls during both phases of the menstrual cycle (p < 0.0005, p < 0.0005, p = 0.001 and p < 0.0005). In women with vWD, lag time and time to peak were prolonged during both phases of the menstrual cycle(p < 0.0005), while peak thrombin concentration was reduced (p = 0.003 and p = 0.002 during follicular and luteal phase respectively) compared to healthy peers. Lower levels of FVIII and FX during luteal phase may predispose women to the development of the menorrhagia - common complication of vWD. Women with vWD need more time to reach the peak thrombin concentration, while the latter still remains less than in healthy women. Higher levels of AT in vWD-affected females, compared to controls, may also contribute to the existing bleeding tendency in this cohort.
Improved enhancement in CT angiography with reduced contrast media iodine concentrations at constant iodine dose
Authors: Van Cauteren Toon , Van Gompel Gert , Nieboer Koenraad H. , Willekens Inneke , Evans Paul , Macholl Sven , Droogmans Steven , de Mey Johan , Buls Nico 
Published: November 2018

AbstractThe study objective is to investigate the impact of a wide range of contrast media (CM) iodine concentrations on CT enhancement at constant total iodine dose (TID) and iodine delivery rate (IDR). Seven injection protocols, based on different iodine concentrations ranging from 120 to 370 mg I/mL, were assessed on 4 minipigs at a constant TID of 320 mg I/kg and IDR of 0.64 g I/s. Dynamic images were acquired on a clinical 64-slice MDCT scanner for 120 s with the abdominal aorta, vena cava inferior and liver parenchyma in the field-of-view. Maximal enhancement, time-to-peak and peak width were assessed. The enhancement curve characteristics were correlated with CM iodine concentration. In particular, CM with lower iodine concentrations yielded a significant increased maximal enhancement and peak width compared to the standard-of-care concentrations: e.g. in the aorta, 245 HU maximal enhancement and 9.2 s peak width with the 320 mg I/mL iodine concentration increased to 291 HU and 16.1 s with 160 mg I/mL. When maintaining a constant TID and IDR, by compensating injection rate and volume, injection of a CM with reduced iodine concentration results in a diagnostically beneficial higher maximal enhancement and longer enhancement peak duration.
Incorporating Breast Anatomy in Computational Phenotyping of Mammographic Parenchymal Patterns for Breast Cancer Risk Estimation
Authors: Gastounioti Aimilia , Hsieh Meng-Kang , Cohen Eric , Pantalone Lauren , Conant Emily F. , Kontos Despina 
Published: November 2018

AbstractWe retrospectively analyzed negative screening digital mammograms from 115 women who developed unilateral breast cancer at least one year later and 460 matched controls. Texture features were estimated in multiple breast regions defined by an anatomically-oriented polar grid, and were weighted by their position and underlying dense versus fatty tissue composition. Elastic net regression with cross-validation was performed and area under the curve (AUC) of the receiver operating characteristic (ROC) was used to evaluate ability to predict breast cancer. We also compared our anatomy-augmented features to current state-of-the-art in which parenchymal texture was assessed without considering breast anatomy and evaluated the added value of the extracted features to breast density, body-mass-index (BMI) and age as baseline predictors. Our anatomy-augmented texture features resulted in higher discriminatory capacity (AUC = 0.63 vs. AUC = 0.59) when breast anatomy was not considered (p = 0.021), with dense tissue regions and the central breast quadrant being more heavily weighted. Texture also improved baseline models (from AUC = 0.62 to AUC = 0.67, p = 0.029). Our findings suggest that incorporating breast anatomy information could augment imaging markers of breast cancer risk with the potential to improve personalized breast cancer risk assessment.
Sequence-definition in stiff conjugated oligomers
Authors: Schneider Rebekka V. , Waibel Kevin A. , Arndt Andreas P. , Lang Mathias , Seim Rebecca , Busko Dmitry , Bräse Stefan , Lemmer Uli , Meier Michael A. R. 
Published: November 2018

AbstractThe concept of sequence-definition in the sense of polymer chemistry is introduced to conjugated, rod-like oligo(phenylene ethynylene)s via an iterative synthesis procedure. Specifically, monodisperse sequence-defined trimers and pentamers were prepared via iterative Sonogashira cross-coupling and deprotection. The reaction procedure was extended to tetra- and pentamers for the first time yielding a monodisperse pentamer with 18% and a sequence-defined pentamer with 3.2% overall yield. Furthermore, three novel trimers with a 9H-fluorene building block at predefined positions within the phenylene ethynylene chain were synthesised in 23–52% overall yields. Hence, it was confirmed that a functionality of interest can be incorporated selectively at a pre-defined position of these monodisperse oligomers. All respective intermediate structures were fully characterised by proton and carbon NMR, mass spectrometry, size-exclusion chromatography, and IR spectroscopy. Additionally, thermal and optical transitions are reported for the different oligomers.
Brain-Specific Ultrastructure of Capillary Endothelial Glycocalyx and Its Possible Contribution for Blood Brain Barrier
Authors: Ando Yoshiaki , Okada Hideshi , Takemura Genzou , Suzuki Kodai , Takada Chihiro , Tomita Hiroyuki , Zaikokuji Ryogen , Hotta Yasuaki , Miyazaki Nagisa , Yano Hirohisa , Muraki Isamu , Kuroda Ayumi , Fukuda Hirotsugu , Kawasaki Yuki , Okamoto Haruka , Kawaguchi Tomonori , Watanabe Takatomo , Doi Tomoaki , Yoshida Takahiro , Ushikoshi Hiroaki , Yoshida Shozo , Ogura Shinji 
Published: November 2018

AbstractEndothelial glycocalyx coats healthy vascular endothelium and plays an important role in vascular homeostasis. Although cerebral capillaries are categorized as continuous, as are those in the heart and lung, they likely have specific features related to their function in the blood brain barrier. To test that idea, brains, hearts and lungs from C57BL6 mice were processed with lanthanum-containing alkaline fixative, which preserves the structure of glycocalyx, and examined using scanning and transmission electron microscopy. We found that endothelial glycocalyx is present over the entire luminal surface of cerebral capillaries. The percent area physically covered by glycocalyx within the lumen of cerebral capillaries was 40.1 ± 4.5%, which is significantly more than in cardiac and pulmonary capillaries (15.1 ± 3.7% and 3.7 ± 0.3%, respectively). Upon lipopolysaccharide-induced vascular injury, the endothelial glycocalyx was reduced within cerebral capillaries, but substantial amounts remained. By contrast, cardiac and pulmonary capillaries became nearly devoid of glycocalyx. These findings suggest the denser structure of glycocalyx in the brain is associated with endothelial protection and may be an important component of the blood brain barrier.