bluuebunny/crossref_metadata_2025_split huggingface dataset:
Production and purification of higher molecular weight chondroitin by metabolically engineered Escherichia coli K4 strains
Authors: D’ambrosio S. , Alfano A. , Cassese E. , Restaino O. F. , Barbuto Ferraiuolo S. , Finamore R. , Cammarota M. , Schiraldi C. , Cimini D. 
Published: August 2020

AbstractThe capsular polysaccharide obtained from Escherichia coli K4 is a glycosaminoglycan-like molecule, similar to chondroitin sulphate, that has established applications in the biomedical field. Recent efforts focused on the development of strategies to increase K4 polysaccharide fermentation titers up to technologically attractive levels, but an aspect that has not been investigated so far, is how changes in the molecular machinery that produces this biopolymer affect its molecular weight. In this work, we took advantage of recombinant E. coli K4 strains that overproduce capsular polysaccharide, to study whether the inferred pathway modifications also influenced the size of the produced polymer. Fed-batch fermentations were performed up to the 22 L scale, in potentially industrially applicable conditions, and a purification protocol that allows in particular the recovery of high molecular weight unsulphated chondroitin, was developed next. This approach allowed to determine the molecular weight of the purified polysaccharide, demonstrating that kfoF overexpression increased polymer size up to 133 kDa. Higher polysaccharide titers and size were also correlated to increased concentrations of UDP-GlcA and decreased concentrations of UDP-GalNAc during growth. These results are interesting also in view of novel potential applications of higher molecular weight chondroitin and chondroitin sulphate in the biomedical field.
Bright-light detector control emulates the local bounds of Bell-type inequalities
Authors: Sajeed Shihan , Sultana Nigar , Lim Charles Ci Wen , Makarov Vadim 
Published: August 2020

AbstractIt is well-known that no local model—in theory—can simulate the outcome statistics of a Bell-type experiment as long as the detection efficiency is higher than a threshold value. For the Clauser–Horne–Shimony–Holt (CHSH) Bell inequality this theoretical threshold value is $$\eta _{\text {T}} = 2 (\sqrt{2}-1) \approx 0.8284$$

η
T

=
2

(

2

-
1
)

≈
0.8284

. On the other hand, Phys. Rev. Lett. 107, 170404 (2011) outlined an explicit practical model that can fake the CHSH inequality for a detection efficiency of up to 0.5. In this work, we close this gap. More specifically, we propose a method to emulate a Bell inequality at the threshold detection efficiency using existing optical detector control techniques. For a Clauser–Horne–Shimony–Holt inequality, it emulates the CHSH violation predicted by quantum mechanics up to $$\eta _{\text {T}}$$

η
T

. For the Garg–Mermin inequality—re-calibrated by incorporating non-detection events—our method emulates its exact local bound at any efficiency above the threshold. This confirms that attacks on secure quantum communication protocols based on Bell violation is a real threat if the detection efficiency loophole is not closed.
Forecasting low flow conditions months in advance through teleconnection patterns, with a special focus on summer 2018
Authors: Ionita M. , Nagavciuc V. 
Published: August 2020

AbstractOver the past decades, Europe has been affected by several low flow periods which had substantial impacts on the hydrology of the rivers themselves as well as on the society and economy. Low flow periods have a direct impact on the environment, on the inland waterway navigation, on the hydropower production as well as on the sediment management, among others. Similar to floods, low flows are naturally occurring phenomena which can significantly hinder different uses and functions of the rivers and impact the aquatic system and the water quality. Moreover, it is projected that, in the future, climate change might lead to drier summers over the European region and therefore to more frequent and severe low flow periods. The results presented here show that the summer 2018 low flow situation, over the Rhine and Elbe Rivers basin, could have been predicted up to two seasons ahead by using previous months' sea surface temperature, sea level pressure, precipitation, mean air temperature and soil moisture. The lagged relationship between the predictand (e.g. seasonal streamflow) and the climate and oceanic predictors varies between 1 month (e.g. precipitation) up to 6 months (e.g. sea surface temperature). Taking into account that all predictors are available in real-time, the forecast scheme can be used to provide early warnings for the upcoming low flow situations, thus offering the possibility for better management of the water resources.
Resilience to drought of dryland wetlands threatened by climate change
Authors: Sandi Steven G. , Rodriguez Jose F. , Saintilan Neil , Wen Li , Kuczera George , Riccardi Gerardo , Saco Patricia M. 
Published: August 2020

AbstractDryland wetlands are resilient ecosystems that can adapt to extreme periodic drought–flood episodes. Climate change projections show increased drought severity in drylands that could compromise wetland resilience and reduce important habitat services. These recognized risks have been difficult to evaluate due to our limited capacity to establish comprehensive relationships between flood–drought episodes and vegetation responses at the relevant spatiotemporal scales. We address this issue by integrating detailed spatiotemporal flood–drought simulations with remotely sensed vegetation responses to water regimes in a dryland wetland known for its highly variable inundation. We show that a combination of drought tolerance and dormancy strategies allow wetland vegetation to recover after droughts and recolonize areas invaded by terrestrial species. However, climate change scenarios show widespread degradation during drought and limited recovery after floods. Importantly, the combination of degradation extent and increase in drought duration is critical for the habitat services wetland systems provide for waterbirds and fish.
Nature of the Dirac gap modulation and surface magnetic interaction in axion antiferromagnetic topological insulator $${\hbox {MnBi}}_2 {\hbox {Te}}_4$$
Authors: Shikin A. M. , Estyunin D. A. , Klimovskikh I. I. , Filnov S. O. , Schwier E. F. , Kumar S. , Miyamoto K. , Okuda T. , Kimura A. , Kuroda K. , Yaji K. , Shin S. , Takeda Y. , Saitoh Y. , Aliev Z. S. , Mamedov N. T. , Amiraslanov I. R. , Babanly M. B. , Otrokov M. M. , Eremeev S. V. , Chulkov E. V. 
Published: August 2020

AbstractModification of the gap at the Dirac point (DP) in axion antiferromagnetic topological insulator $${\hbox {MnBi}}_2 {\hbox {Te}}_4$$

MnBi
2

Te
4

and its electronic and spin structure have been studied by angle- and spin-resolved photoemission spectroscopy (ARPES) under laser excitation at various temperatures (9–35 K), light polarizations and photon energies. We have distinguished both large (60–70 meV) and reduced ($$<20~ \hbox {meV}$$

<
20

meV

) gaps at the DP in the ARPES dispersions, which remain open above the Neél temperature ($$T_{\mathrm{N}} = 24.5~ \hbox {K}$$

T
N

=
24.5

K

). We propose that the gap above $$T_{\mathrm{N}}$$

T
N

remains open due to a short-range magnetic field generated by chiral spin fluctuations. Spin-resolved ARPES, XMCD and circular dichroism ARPES measurements show a surface ferromagnetic ordering for the “large gap” sample and apparently significantly reduced effective magnetic moment for the “reduced gap” sample. These observations can be explained by a shift of the Dirac cone (DC) state localization towards the second Mn layer due to structural disturbance and surface relaxation effects, where DC state is influenced by compensated opposite magnetic moments. As we have shown by means of ab-initio calculations surface structural modification can result in a significant modulation of the DP gap.
A FACS-based approach to obtain viable eosinophils from human adipose tissue
Authors: Hernandez James D. , Tew Ben Yi , Li Ting , Gooden Gerald C. , Ghannam Hamza , Masuda Mia , Madura James , Salhia Bodour , Jacobsen Elizabeth A. , De Filippis Eleanna 
Published: August 2020

AbstractEosinophils have been widely investigated in asthma and allergic diseases. More recently, new insights into the biology of these cells has illustrated eosinophils contribute to homeostatic functions in health such as regulation of adipose tissue glucose metabolism. Human translational studies are limited by the difficulty of obtaining cells taken directly from their tissue environment, relying instead on eosinophils isolated from peripheral blood. Isolation techniques for tissue-derived eosinophils can result in unwanted cell or ribonuclease activation, leading to poor cell viability or RNA quality, which may impair analysis of effector activities of these cells. Here we demonstrate a technique to obtain eosinophils from human adipose tissue samples for the purpose of downstream molecular analysis. From as little as 2 g of intact human adipose tissue, greater than 104 eosinophils were purified by fluorescence-activated cell sorting (FACS) protocol resulting in ≥ 99% purity and ≥ 95% viable eosinophils. We demonstrated that the isolated eosinophils could undergo epigenetic analysis to determine differences in DNA methylation in various settings. Here we focused on comparing eosinophils isolated from human peripheral blood vs human adipose tissue. Our results open the door to future mechanistic investigations to better understand the role of tissue resident eosinophils in different context.
A biochemical network modeling of a whole-cell
Authors: Burke Paulo E. P. , Campos Claudia B. de L. , Costa Luciano da F. , Quiles Marcos G. 
Published: August 2020

AbstractAll cellular processes can be ultimately understood in terms of respective fundamental biochemical interactions between molecules, which can be modeled as networks. Very often, these molecules are shared by more than one process, therefore interconnecting them. Despite this effect, cellular processes are usually described by separate networks with heterogeneous levels of detail, such as metabolic, protein–protein interaction, and transcription regulation networks. Aiming at obtaining a unified representation of cellular processes, we describe in this work an integrative framework that draws concepts from rule-based modeling. In order to probe the capabilities of the framework, we used an organism-specific database and genomic information to model the whole-cell biochemical network of the Mycoplasma genitalium organism. This modeling accounted for 15 cellular processes and resulted in a single component network, indicating that all processes are somehow interconnected. The topological analysis of the network showed structural consistency with biological networks in the literature. In order to validate the network, we estimated gene essentiality by simulating gene deletions and compared the results with experimental data available in the literature. We could classify 212 genes as essential, being 95% of them consistent with experimental results. Although we adopted a relatively simple organism as a case study, we suggest that the presented framework has the potential for paving the way to more integrated studies of whole organisms leading to a systemic analysis of cells on a broader scale. The modeling of other organisms using this framework could provide useful large-scale models for different fields of research such as bioengineering, network biology, and synthetic biology, and also provide novel tools for medical and industrial applications.
Resistance to deltamethrin and fenitrothion in dubas bug, Ommatissus lybicus de Bergevin (Homoptera: Tropiduchidae) and possible biochemical mechanisms
Authors: Khan Rashad Rasool , Al-Ghafri Thuwaini Hashil Abdullah , Al-Khatri Salim Ali Humaid , Al-Mazidi Ibtisam Salim Suliman , Al-Rawahi Fatma Gharib 
Published: August 2020

AbstractEnvironmental pollution, ill-effects on human health, insecticide resistance development and insect pest resurgence are some serious problems that may arise due to excessive chemical spraying for pest control. Despite of heavy aerial and surface insecticide spraying, incomplete control of Ommatissus lybicus de Bergevin 1930 (Homoptera: Tropiduchidae) is reported in Oman every year, which requires investigation of insecticides resistance in pest. Fifteen populations of O. lybicus, collected from diverse vicinities were exposed along with a deltamethrin-selected (DEL-SEL) and lab-susceptible (LAB-SUS) strain to deltamethrin and fenitrothion insecticides in bioassay tests for estimation of their resistance status. All the field populations of O. lybicus, exhibited minor (RR = 3–5-folds) to low (RR = 5–10-folds) levels of resistance to deltamethrin, however, two out fifteen populations collected from Al-Hajir and Sint were found susceptible against fenitrothion (RR < 3-folds). Enzyme assays were conducted to detect the activities of cytochrome p-450-reductase (CPR), glutathione s-transferase (GST) and acetylcholinesterase (AChE) in the field collected, DEL-SEL and LAB-SUS strains of O. lybicus. Results revealed significantly increased activities of all enzymes in the field collected as well as DEL-SEL strains of O. lybicus when compared with LAB-SUS strains.
An intelligent platform for ultrasound diagnosis of thyroid nodules
Authors: Ye Heng , Hang Jing , Chen Xiaowei , Di Xu  , Chen Jie , Ye Xinhua , Zhang Dong 
Published: August 2020

AbstractThis paper proposed a non-segmentation radiological method for classification of benign and malignant thyroid tumors using B mode ultrasound data. This method aimed to combine the advantages of morphological information provided by ultrasound and convolutional neural networks in automatic feature extraction and accurate classification. Compared with the traditional feature extraction method, this method directly extracted features from the data set without the need for segmentation and manual operations. 861 benign nodule images and 740 malignant nodule images were collected for training data. A deep convolution neural network VGG-16 was constructed to analyze test data including 100 malignant nodule images and 109 benign nodule images. A nine fold cross validation was performed for training and testing of the classifier. The results showed that the method had an accuracy of 86.12%, a sensitivity of 87%, and a specificity of 85.32%. This computer-aided method demonstrated comparable diagnostic performance with the result reported by an experienced radiologist based on American college of radiology thyroid imaging reporting and data system (ACR TI-RADS) (accuracy: 87.56%, sensitivity: 92%, and specificity: 83.49%). The automation advantage of this method suggested application potential in computer-aided diagnosis of thyroid cancer.
Metabolic radiogenomics in lung cancer: associations between FDG PET image features and oncogenic signaling pathway alterations
Authors: Kim Gahyun , Kim Jinho , Cha Hongui , Park Woong-Yang , Ahn Jin Seok , Ahn Myung-Ju , Park Keunchil , Park Yong-Jin , Choi Joon Young , Lee Kyung-Han , Lee Se-Hoon , Moon Seung Hwan 
Published: August 2020

AbstractThis study investigated the associations between image features extracted from tumor 18F-fluorodeoxyglucose (FDG) uptake and genetic alterations in patients with lung cancer. A total of 137 patients (age, 62.7 ± 10.2 years) who underwent FDG positron emission tomography/computed tomography (PET/CT) and targeted deep sequencing analysis for a tumor lesion, comprising 61 adenocarcinoma (ADC), 31 squamous cell carcinoma (SQCC), and 45 small cell lung cancer (SCLC) patients, were enrolled in this study. From the tumor lesions, 86 image features were extracted, and 381 genes were assessed. PET features were associated with genetic mutations: 41 genes with 24 features in ADC; 35 genes with 22 features in SQCC; and 43 genes with 25 features in SCLC (FDR < 0.05). Clusters based on PET features showed an association with alterations in oncogenic signaling pathways: Cell cycle and WNT signaling pathways in ADC (p = 0.023, p = 0.035, respectively); Cell cycle, p53, and WNT in SQCC (p = 0.045, 0.009, and 0.029, respectively); and TGFβ in SCLC (p = 0.030). In addition, SUVpeak and SUVmax were associated with a mutation of the TGFβ signaling pathway in ADC (FDR = 0.001, < 0.001). In this study, PET image features had significant associations with alterations in genes and oncogenic signaling pathways in patients with lung cancer.
Low temperature preservation of porcine semen: influence of short antimicrobial lipopeptides on sperm quality and bacterial load
Authors: Hensel B. , Jakop U. , Scheinpflug K. , Mühldorfer K. , Schröter F. , Schäfer J. , Greber K. , Jung M. , Schulze M. 
Published: August 2020

AbstractAntimicrobial resistance is a steadily increasing problem and poses a serious threat to global public health. Therefore, it is highly necessary to advance the development of novel antimicrobial compounds and semen preservation strategies. The aim of this study was to evaluate a low temperature, antibiotic-free preservation procedure using Androstar Premium (ASP) extender (Minitüb) with antimicrobial lipopeptides. Firstly, seven lipopeptides in two concentrations (1 × minimum inhibitory concentration (MIC)/2 × MIC) were tested on their sperm-compatibility at 17 °C. Two lipopeptides, C16-KKK-NH2 and C16-KKKK-NH2, did not negatively affect sperm quality and were further evaluated for their efficiency of bacterial growth inhibition at 5 °C. Besides an overall diminution of colony forming units, both peptides showed a reduction of bacterial subcultures (n = 103) with a decrement in Gram-positive rods from 65 (ASP w/o supplements) to 39/52 (ASP w/ C16-KKK-NH2/C16-KKKK-NH2), in Gram-positive cocci from 21 to 9/10 and in Gram-negative species from 17 to 8/5 total subcultures. Furthermore, lipopeptides revealed activity towards selected bacteria of potential concern in artificial insemination like Trueperella pyogenes, Alcaligenes faecalis, Pseudomonas aeruginosa (not C16-KKK-NH2), Pasteurella sp., Providencia stuartii, Escherichia coli (not C16-KKKK-NH2) and Streptococcus porcinus (not C16-KKKK-NH2). Consequently, both tested lipopeptides are promising candidates for alternative antibiotic-free preservation techniques of boar semen.
The effect of reduced RDI of chemotherapy on the outcome of breast cancer patients
Authors: Qi Wanwan , Wang Xiaoyi , Gan Lu , Li Yunhai , Li Hongyuan , Cheng Qiao 
Published: August 2020

AbstractThe aims of this study were to investigate the impact of the relative dose intensity (RDI) of chemotherapy on disease-free survival (DFS) and overall survival (OS), to identify the optimal RDI cut-off points with the docetaxel, epirubicin and cyclophosphamide (TEC) regimen for stage I–III breast cancer patients and to explore the adverse events in these patients. To achieve this, we performed a retrospective analysis of breast cancer patients treated at the First Affiliated Hospital of Chongqing Medical University in 2011. The results showed that among 293 patients with the TEC regimen, 85% and 80% were the cut-off points at which a high RDI was associated with better overall survival (HR = 2.04; 95% CI 1.13, 3.70; p = 0.02) and disease-free survival (HR = 1.97; 95% CI 1.14–3.42; p = 0.02), respectively. Among 169 HR(+) patients, 80% was the cut-off point for DFS (HR = 2.33; 95% CI 1.07–5.08; p = 0.03), and 85% was the cut-off point for OS (HR = 3.00; 95% CI 1.24–7.26; p = 0.02). Among 105 HR(−) patients, 80% was the cut-off point for OS (HR = 2.86; 95% CI 1.05–7.80; p = 0.04). Of 293 patients, neutropenia, nausea, and vomiting were found to be correlated with the level of RDI. In conclusion, a higher RDI of chemotherapy is associated with better survival but with a higher probability of causing adverse events. To optimize survival benefits, the RDI should be maintained ≥ 85% for HR(+) patients and ≥ 80% for HR(−) patients.
Triglycerides are related to left ventricular mass in hypertensive patients independently of other cardiometabolic risk factors: the effect of gender
Authors: Pietri Panagiota , Georgiopoulos George , Tsiachris Dimitrios , Kordalis Athanasios , Vlachopoulos Charalambos , Vyssoulis Gregory , Stefanadis Christodoulos 
Published: August 2020

AbstractGiven the inconsistent results on the prognostic significance of triglycerides (TGs), the purpose of the present study was to investigate the association of plasma TGs with left ventricular mass (LVM) in hypertensive patients. We studied 760 never treated, non diabetic, hypertensive patients. Τransthoracic echocardiography was performed and LVMI was calculated according to the Devereux formula, adjusted to body surface area. Triglycerides were associated with LVMI after adjustment for age, gender, systolic blood pressure (SBP), smoking and fasting glucose (b = 0.08, p = 0.009). This relationship remained significant even after adjustment for BMI, LDL-C and ApoB/ApoA1 ratio (b = 0.07, p = 0.04). Gender-stratified analysis indicated that TGs were related to LVMI in men (p = 0.001) but not in women (p = NS). In addition, TGs were related with LV hypertrophy (LVH) in men, increasing the odds by 7% to present LVMI over 115 g/m2 (OR = 1.07 per 10 mg/dl increase in TGs, p = 0.01). In conclusion, TGs are associated with LVMI in hypertensive patients, independently of other risk factors, including LDL-C. Given the prognostic significance of LVH, it might be suggested that TGs may serve as a useful marker for indentifying hypertensive patients at high risk. The gender discrepancy may suggest a possible gender-specific modulatory effect of TGs on LV structure.
The pretreatment Controlling Nutritional Status (CONUT) score is an independent prognostic factor in patients undergoing resection for colorectal cancer
Authors: Hayama Tamuro , Ozawa Tsuyoshi , Okada Yuka , Tsukamoto Mitsuo , Fukushima Yoshihisa , Shimada Ryu , Nozawa Keijiro , Matsuda Keiji , Fujii Shoichi , Hashiguchi Yojiro 
Published: August 2020

AbstractThe Controlling Nutritional Status (CONUT) score is a marker of nutrition and is associated with poor survival in various kinds of cancers. However, no reports have yet compared risk factors for colorectal cancer recurrence using a nutritional index. We assessed the predictive value of the CONUT score compared with the modified Glasgow Prognostic Score (mGPS) and Prognostic Nutritional Index (PNI) in colorectal cancer (CRC) patients. We performed a retrospective cohort study of the medical records of 336 consecutive patients with stage I-I I I CRC who underwent curative resection at a single institution in 2012–2017. Univariate and multivariate analyses were conducted to identify prognostic factors associated with relapse-free survival (RFS) and overall survival (OS). The low CONUT score group exhibited higher RFS and longer OS compared to the high CONUT score group (82.2% vs. 63.3%, p = 0.002 and 95.5% and 86.2%, p = 0.005, respectively). The Akaike’s information criterion values of each index for RFS and OS were superior in CONUT score (723.71 and 315.46, respectively) compared to those of PNI (726.95 and 316.52) and mGPS (728.15 and 318.07, respectively). The CONUT score was found to be a good predictor of RFS and OS in patients with resectable CRC.