bluuebunny/crossref_metadata_2025_split huggingface dataset:
Musa balbisiana genome reveals subgenome evolution and functional divergence
Authors: Wang Zhuo , Miao Hongxia , Liu Juhua , Xu Biyu , Yao Xiaoming , Xu Chunyan , Zhao Shancen , Fang Xiaodong , Jia Caihong , Wang Jingyi , Zhang Jianbin , Li Jingyang , Xu Yi , Wang Jiashui , Ma Weihong , Wu Zhangyan , Yu Lili , Yang Yulan , Liu Chun , Guo Yu , Sun Silong , Baurens Franc-Christophe , Martin Guillaume , Salmon Frederic , Garsmeur Olivier , Yahiaoui Nabila , Hervouet Catherine , Rouard Mathieu , Laboureau Nathalie , Habas Remy , Ricci Sebastien , Peng Ming , Guo Anping , Xie Jianghui , Li Yin , Ding Zehong , Yan Yan , Tie Weiwei , D’Hont Angélique , Hu Wei , Jin Zhiqiang 
Published: July 2019

AbstractBanana cultivars (Musa ssp.) are diploid, triploid and tetraploid hybrids derived from Musa acuminata and Musa balbisiana. We presented a high-quality draft genome assembly of M. balbisiana with 430 Mb (87%) assembled into 11 chromosomes. We identified that the recent divergence of M. acuminata (A-genome) and M. balbisiana (B-genome) occurred after lineage-specific whole-genome duplication, and that the B-genome may be more sensitive to the fractionation process compared to the A-genome. Homoeologous exchanges occurred frequently between A- and B-subgenomes in allopolyploids. Genomic variation within progenitors resulted in functional divergence of subgenomes. Global homoeologue expression dominance occurred between subgenomes of the allotriploid. Gene families related to ethylene biosynthesis and starch metabolism exhibited significant expansion at the pathway level and wide homoeologue expression dominance in the B-subgenome of the allotriploid. The independent origin of 1-aminocyclopropane-1-carboxylic acid oxidase (ACO) homoeologue gene pairs and tandem duplication-driven expansion of ACO genes in the B-subgenome contributed to rapid and major ethylene production post-harvest in allotriploid banana fruits. The findings of this study provide greater context for understanding fruit biology, and aid the development of tools for breeding optimal banana cultivars.
Incidence of type II diabetes in chronic obstructive pulmonary disease: a nested case–control study
Authors: Gayle Alicia , Dickinson Scott , Poole Chris , Pang Marie , Fauconnot Ornella , Quint Jennifer K. 
Published: July 2019

AbstractWe investigated the incidence of type II diabetes mellitus (T2DM) among people with COPD and whether exposure to inhaled corticosteroid (ICS) and exacerbation status was associated with T2DM. This descriptive cohort study used primary care data from the Clinical Practice Research Datalink (CPRD). The patient cohort included people with a diagnosis of COPD and previous smoking history registered at a CPRD practice between January 2010 and December 2016. We determined incidence rates by age, gender and deprivation. Using a nested case–control design—where cases and controls are drawn from the cohort population—we matched 1:5 with patients by age, gender and GP practice and estimated odds of T2DM using logistic regression (adjusting for smoking status, deprivation, BMI, hypertension, coronary heart disease and heart failure). We identified 220,971 COPD patients; mean age at COPD diagnosis was 66 years (SD 12) and 54% were male. The incidence rate of T2DM in COPD patients was 1.26 per 100 patient years (95% CI: 1.24–1.28) and was higher among men (1.32 vs 1.18 among women). The adjusted odds ratio for T2DM was 1.47 (95% CI: 1.36–1.60) among frequent exacerbators (≥2 treated exacerbations per year) compared to infrequent exacerbators and the odds ratio for patients receiving high-dose ICS (>800 mcg budesonide equivalent dose) was 1.73 (95% CI 1.65–1.82) compared to patients receiving no ICS therapy. Incidence of T2DM among COPD patients is high and exposure to ICS and frequent exacerbations are associated with a higher risk of T2DM among patients with COPD.
Towards Quality by Design and process analytical technology for enhanced nutrient recovery from wastewaters
Authors: Vaneeckhaute Céline 
Published: July 2019

AbstractRecovering nutrients from wastewater as sustainable bio-based products provides a key solution to major environmental problems. Classical technology development approaches for resource recovery largely ignore the real-world variability in raw waste materials, which currently hinders the successful implementation of recovery strategies. A major challenge is to create a consistent and environmentally friendly supply of high-quality end-products that can compete with fossil-derived products currently on the market. This paper suggests the use of a Quality by Design approach as adapted from the pharmaceutical industry to ensure a high standard of quality consistency. Key elements of this approach involve mathematical models and integrated design-control strategies that support the production of high-quality marketable end-products from variable input waste and wastewater streams. Further research in terms of cost evaluation and optimisation of such approach for resource recovery applications is needed. A regulatory framework for Process Analytical Technology implementation in the field is also suggested.
Syndecan-4 regulates extravillous trophoblast migration by coordinating protein kinase C activation
Authors: Jeyarajah Mariyan J. , Jaju Bhattad Gargi , Kops Brianna F. , Renaud Stephen J. 
Published: July 2019

AbstractExtravillous trophoblast (EVT) invasion is an essential component of human placentation. Poor EVT invasion is associated with obstetrical complications including preeclampsia. Integration of cues from the extracellular environment is required for directional EVT invasion, but how EVTs coordinate responses to these cues is not well understood. Syndecan-4 (SDC4) is a transmembrane heparan sulfate proteoglycan that binds to, and modulates the activity of, many extracellular proteins implicated in placental development. Therefore, we determined the functional importance of SDC4 for EVT invasion. We found that SDC4 is expressed by a first trimester EVT line (HTR8), and in EVTs in placenta throughout pregnancy, with higher expression during early pregnancy than at term. Higher expression was also observed in placentas from preeclampsia compared to normotensive pregnancies. SDC4-deficient HTR8 EVTs exhibited reduced migration and Matrigel-based invasion, both under basal conditions and following exposure to basic fibroblast growth factor and heparin-binding epidermal growth factor. SDC4-deficient HTR8 EVTs also showed reduced protein kinase C-alpha (PKCα) and AKT phosphorylation. SDC4 directly bound to activated PKCα in EVTs, and inhibition of PKCα decreased EVT invasion and migration. Our findings reveal an essential role of SDC4 as a regulator of EVT motility, in part through coordination of PKCα activation.
Oral contraceptive use increases risk of inflammatory and coagulatory disorders in women with Polycystic Ovarian Syndrome: An observational study
Authors: Manzoor Saika , Ganie Mohd Ashraf , Amin Shajrul , Shah Zaffar A , Bhat Imtiyaz A , Yousuf S. Douhath , Jeelani Humira , Kawa Iram A , Fatima Qudsia , Rashid Fouzia 
Published: July 2019

AbstractPolycystic ovarian syndrome (PCOS) is a multispectral disorder requiring lifelong management. Its pathophysiology is still being explored which makes its treatment options restrained. Present study explores impact of oral contraceptive mode of treatment on metabolic, hormonal, inflammation and coagulation profile of PCOS women. 50 subjects diagnosed with Rotterdam criteria receiving no drug treatment served as controls whereas 50 subjects receiving only OCPs (Ethinyl estradiol 0.03 mg, Levonorgestrel 0.15 mg) as a mode of treatment at least for six-months served as cases. Ferriman-Gallwey score and hormonal profile improved on OCP treatment. However, parameters like weight, Body mass index, waist-hip ratio, Oral glucose tolerance test, lipid profile, insulin, HOMA-IR, adiponectin, interleukin1β, visfatin, resistin, tissue factor, PT and APTT showed considerable derangements in OCP group. All above parameters are associated with the risk of diabetes mellitus, dyslipidemia, coronary vascular disease, cancers, hypercoagulable state, venous thromboembolism and thrombotic events. Long-term use of OCPs needs to be considered carefully for PCOS patients who are already burdened with associated risk factors. This study was conducted in a region where women do not have much access to high-end screening and diagnostic facilities that further exacerbates their clinical outcomes. Large scale, long-term studies need to be designed to further evaluate safety use of OCPs in PCOS women.
Selective and competitive inhibition of kynurenine aminotransferase 2 by glycyrrhizic acid and its analogues
Authors: Yoshida Yukihiro , Fujigaki Hidetsugu , Kato Koichi , Yamazaki Kyoka , Fujigaki Suwako , Kunisawa Kazuo , Yamamoto Yasuko , Mouri Akihiro , Oda Akifumi , Nabeshima Toshitaka , Saito Kuniaki 
Published: July 2019

AbstractThe enzyme kynurenine aminotransferase (KAT) catalyses the conversion of kynurenine (KYN) to kynurenic acid (KYNA). Although the isozymes KAT1–4 have been identified, KYNA is mainly produced by KAT2 in brain tissues. KNYA is an antagonist of N-methyl-D-aspartate and α-7-nicotinic acetylcholine receptors, and accumulation of KYNA in the brain has been associated with the pathology of schizophrenia. Therefore, KAT2 could be exploited as a therapeutic target for the management of schizophrenia. Although currently available KAT2 inhibitors irreversibly bind to pyridoxal 5′-phosphate (PLP), inhibition via this mechanism may cause adverse side effects because of the presence of other PLP-dependent enzymes. Therefore, we identified novel selective KAT2 inhibitors by screening approximately 13,000 molecules. Among these, glycyrrhizic acid (GL) and its analogues, glycyrrhetinic acid (GA) and carbenoxolone (CBX), were identified as KAT2 inhibitors. These compounds were highly selective for KAT2 and competed with its substrate KYN, but had no effects on the other 3 KAT isozymes. Furthermore, we demonstrated that in complex structures that were predicted in docking calculations, GL, GA and CBX were located on the same surface as the aromatic ring of KYN. These results indicate that GL and its analogues are highly selective and competitive inhibitors of KAT2.
Atomistic mechanisms underlying the activation of the G protein-coupled sweet receptor heterodimer by sugar alcohol recognition
Authors: Mahalapbutr Panupong , Darai Nitchakan , Panman Wanwisa , Opasmahakul Aunchan , Kungwan Nawee , Hannongbua Supot , Rungrotmongkol Thanyada 
Published: July 2019

AbstractThe human T1R2-T1R3 sweet taste receptor (STR) plays an important role in recognizing various low-molecular-weight sweet-tasting sugars and proteins, resulting in the release of intracellular heterotrimeric G protein that in turn leads to the sweet taste perception. Xylitol and sorbitol, which are naturally occurring sugar alcohols (polyols) found in many fruits and vegetables, exhibit the potential caries-reducing effect and are widely used for diabetic patients as low-calorie sweeteners. In the present study, computational tools were applied to investigate the structural details of binary complexes formed between these two polyols and the T1R2-T1R3 heterodimeric STR. Principal component analysis revealed that the Venus flytrap domain (VFD) of T1R2 monomer was adapted by the induced-fit mechanism to accommodate the focused polyols, in which residues 233–268 moved significantly closer to stabilize ligands. This finding likely suggested that these structural transformations might be the important mechanisms underlying polyols-STR recognitions. The calculated free energies also supported the VFD of T1R2 monomer as the preferential binding site for such polyols, rather than T1R3 region, in accord with the lower number of accessible water molecules in the T1R2 pocket. The E302 amino acid residue in T1R2 was found to be the important recognition residue for polyols binding through a strongly formed hydrogen bond. Additionally, the binding affinity of xylitol toward the T1R2 monomer was significantly higher than that of sorbitol, making it a sweeter tasting molecule.
Therapeutic effect of gold nanoparticles on DSS-induced ulcerative colitis in mice with reference to interleukin-17 expression
Authors: Abdelmegid Amira M. , Abdo Fadia K. , Ahmed Fayza E. , Kattaia Asmaa A. A. 
Published: July 2019

AbstractUlcerative colitis (UC) is among the most challenging human diseases. Nanotechnology has incontestable promising outcomes in inflammatory bowel diseases. This study aimed to investigate the therapeutic effect of naked gold nanoparticles (AuNPs) on dextran sodium sulphate (DSS) induced ulcerative colitis in mice. We also examined the expression of interleukin-17 (IL-17) following AuNPs treatment. Mice were randomly divided into control, DSS and DSS+ AuNPs groups. Severity of colitis was assessed by disease activity index (DAI) measurement. At the end of the experiment, the final body weights were recorded. The colon was dissected and processed for histopathological examinations by light and electron microscopes. Colon homogenates were prepared for assay of tissue malondialdehyde (MDA) and real-time PCR analysis of IL-17A. Immunohistochemical localization of IL-17A was carried out. Scanning electron microscopy (SEM) and Energy Dispersive X-ray (EDX) detector were used to detect the presence of AuNPs in the colonic tissue of DSS+ AuNPs groups. Our results showed that AuNPs effectively targeted the colonic tissue, and reduced changes induced by DSS. The underlying mechanisms could be related to anti-oxidant effect (as evident by decreasing tissue MDA) and anti-inflammatory potential of AuNPs. Our study draws attention to as a novel therapeutic strategy for treating UC.
Enhanced activity of highly conformal and layered tin sulfide (SnSx) prepared by atomic layer deposition (ALD) on 3D metal scaffold towards high performance supercapacitor electrode
Authors: Ansari Mohd Zahid , Parveen Nazish , Nandi Dip K. , Ramesh Rahul , Ansari Sajid Ali , Cheon Taehoon , Kim Soo-Hyun 
Published: July 2019

AbstractLayered Sn-based chalcogenides and heterostructures are widely used in batteries and photocatalysis, but its utilizations in a supercapacitor is limited by its structural instability and low conductivity. Here, SnSx thin films are directly and conformally deposited on a three-dimensional (3D) Ni-foam (NF) substrate by atomic layer deposition (ALD), using tetrakis(dimethylamino)tin [TDMASn, ((CH3)2N)4Sn] and H2S that serves as an electrode for supercapacitor without any additional treatment. Two kinds of ALD-SnSx films grown at 160 °C and 180 °C are investigated systematically by X-ray diffractometry, Raman spectroscopy, X-ray photoelectron spectroscopy, and transmission electron microscopy (TEM). All of the characterization results indicate that the films deposited at 160 °C and 180 °C predominantly consist of hexagonal structured-SnS2 and orthorhombic-SnS phases, respectively. Moreover, the high-resolution TEM analyses (HRTEM) reveals the (001) oriented polycrystalline hexagonal-SnS2 layered structure for the films grown at 160 °C. The double layer capacitance with the composite electrode of SnSx@NF grown at 160 °C is higher than that of SnSx@NF at 180 °C, while pseudocapacitive Faradaic reactions are evident for both SnSx@NF electrodes. The superior performance as an electrode is directly linked to the layered structure of SnS2. Further, the optimal thickness of ALD-SnSx thin film is found to be 60 nm for the composite electrode of SnSx@NF grown at 160 °C by controlling the number of ALD cycles. The optimized SnSx@NF electrode delivers an areal capacitance of 805.5 mF/cm2 at a current density of 0.5 mA/cm2 and excellent cyclic stability over 5000 charge/discharge cycles.
Automated cell boundary and 3D nuclear segmentation of cells in suspension
Authors: Kesler Benjamin , Li Guoliang , Thiemicke Alexander , Venkat Rohit , Neuert Gregor 
Published: July 2019

AbstractTo characterize cell types, cellular functions and intracellular processes, an understanding of the differences between individual cells is required. Although microscopy approaches have made tremendous progress in imaging cells in different contexts, the analysis of these imaging data sets is a long-standing, unsolved problem. The few robust cell segmentation approaches that exist often rely on multiple cellular markers and complex time-consuming image analysis. Recently developed deep learning approaches can address some of these challenges, but they require tremendous amounts of data and well-curated reference data sets for algorithm training. We propose an alternative experimental and computational approach, called CellDissect, in which we first optimize specimen preparation and data acquisition prior to image processing to generate high quality images that are easier to analyze computationally. By focusing on fixed suspension and dissociated adherent cells, CellDissect relies only on widefield images to identify cell boundaries and nuclear staining to automatically segment cells in two dimensions and nuclei in three dimensions. This segmentation can be performed on a desktop computer or a computing cluster for higher throughput. We compare and evaluate the accuracy of different nuclear segmentation approaches against manual expert cell segmentation for different cell lines acquired with different imaging modalities.
A Multidrug Resistance Plasmid pIMP26, Carrying blaIMP-26, fosA5, blaDHA-1, and qnrB4 in Enterobacter cloacae
Authors: Wang Su , Zhou Kaixin , Xiao Shuzhen , Xie Lianyan , Gu Feifei , Li Xinxin , Ni Yuxing , Sun Jingyong , Han Lizhong 
Published: July 2019

AbstractIMP-26 was a rare IMP variant with more carbapenem-hydrolyzing activities, which was increasingly reported now in China. This study characterized a transferable multidrug resistance plasmid harboring blaIMP-26 from one Enterobacter cloacae bloodstream isolate in Shanghai and investigated the genetic environment of resistance genes. The isolate was subjected to antimicrobial susceptibility testing and multilocus sequence typing using broth microdilution method, Etest and PCR. The plasmid was analyzed through conjugation experiments, S1-nuclease pulsed-field gel electrophoresis and hybridization. Whole genome sequencing and sequence analysis was conducted for further investigation of the plasmid. E. cloacae RJ702, belonging to ST528 and carrying blaIMP-26, blaDHA-1, qnrB4 and fosA5, was resistant to almost all β-lactams, but susceptible to quinolones and tigecycline. The transconjugant inherited the multidrug resistance. The resistance genes were located on a 329,420-bp IncHI2 conjugative plasmid pIMP26 (ST1 subtype), which contained trhK/trhV, tra, parA and stbA family operon. The blaIMP-26 was arranged following intI1. The blaDHA-1 and qnrB4 cluster was the downstream of ISCR1, same as that in p505108-MDR. The fosA5 cassette was mediated by IS4. This was the first report on complete nucleotide of a blaIMP-26-carrying plasmid in E. cloacae in China. Plasmid pIMP26 hosted high phylogenetic mosaicism, transferability and plasticity.
In-situ visualization of hydrogen evolution sites on helium ion treated molybdenum dichalcogenides under reaction conditions
Authors: Mitterreiter Elmar , Liang Yunchang , Golibrzuch Matthias , McLaughlin David , Csoklich Christoph , Bartl Johannes D. , Holleitner Alexander , Wurstbauer Ursula , Bandarenka Aliaksandr S. 
Published: July 2019

AbstractNanostructured 2D transition metal dichalcogenides play an increasingly important role in heterogeneous catalysis. These materials are abundant (co-)catalysts with tunable properties to catalyze a number of key reactions related to energy provision, for instance the hydrogen evolution reaction (HER). It is vital to understand which surface sites are active in order to maximize their number and to improve the overall (photo-)catalytic behavior of those materials. Here, we visualize these active sites under HER conditions at the surface of molybdenum dichalcogenides (MoX2, X = Se, S) with lateral resolution on the nanometer scale by means of electrochemical scanning tunneling microscopy. The edges of single MoX2 flakes show high catalytic activity, whereas their terraces are inactive. We demonstrate how the inert basal planes of these materials can be activated towards the HER with the help of a focused beam of a He-ion microscope. Our findings demonstrate that the He-ion induced defects contribute at lower overpotentials to the HER, while the activity of the edges exceeds the activity of the basal defects for sufficiently high overpotentials. Given the lithographic resolution of the helium ion microscope, our results show the possibility to generate active sites in transition metal dichalcogenides with a spatial resolution below a few nanometers.
Bidirectional Interference Between Simulated Driving and Speaking
Authors: Dromey Christopher , Simmons Kelsey 
Published: July 2019

Purpose
This study relied on acoustic measures of connected speech and several indices of driving performance to quantify interference between speaking and simulated driving.

Method
Three groups of 20 younger (ages 20–30 years), middle-age (ages 40–50 years), and older (ages 60–71 years) adults produced monologues and completed a simulated driving task, which involved maintaining a constant speed and lane position on a freeway. Both tasks were completed separately and concurrently.

Results
There were significant divided attention effects, with a reduced speaking time ratio, and increases in vocal intensity, speed variability, and steering wheel adjustments. There was a significant between-subjects age effect for intensity and fundamental frequency as the younger group had less variation with these variables compared to the other age groups across conditions. There was a significant between-subjects age effect for lane position, steering wheel position, and speed as the younger group had less variation in lane position compared to the other 2 groups, and the older group had more variation in speed and steering wheel position compared to the other 2 groups across the experimental conditions.

Conclusion
These findings reveal that divided attention conditions can impact both speech and simulated driving performance. The results also shed some light on the effects of age on speech and driving tasks, although the degree of interference from divided attention did not differ by age.