bluuebunny/crossref_metadata_2025_split huggingface dataset:
A high definition picture of somatic mutations in chronic lymphoproliferative disorder of natural killer cells
Authors: Gasparini Vanessa Rebecca , Binatti Andrea , Coppe Alessandro , Teramo Antonella , Vicenzetto Cristina , Calabretto Giulia , Barilà Gregorio , Barizza Annica , Giussani Edoardo , Facco Monica , Mustjoki Satu , Semenzato Gianpietro , Zambello Renato , Bortoluzzi Stefania 
Published: April 2020

AbstractThe molecular pathogenesis of chronic lymphoproliferative disorder of natural killer (NK) cells (CLPD‐NK) is poorly understood. Following the screening of 57 CLPD-NK patients, only five presented STAT3 mutations. WES profiling of 13 cases negative for STAT3/STAT5B mutations uncovered an average of 18 clonal, population rare and deleterious somatic variants per patient. The mutational landscape of CLPD-NK showed that most patients carry a heavy mutational burden, with major and subclonal deleterious mutations co-existing in the leukemic clone. Somatic mutations hit genes wired to cancer proliferation, survival, and migration pathways, in the first place Ras/MAPK, PI3K-AKT, in addition to JAK/STAT (PIK3R1 and PTK2). We confirmed variants with putative driver role of MAP10, MPZL1, RPS6KA1, SETD1B, TAOK2, TMEM127, and TNFRSF1A genes, and of genes linked to viral infections (DDX3X and RSF1) and DNA repair (PAXIP1). A truncating mutation of the epigenetic regulator TET2 and a variant likely abrogating PIK3R1-negative regulatory activity were validated. This study significantly furthered the view of the genes and pathways involved in CLPD-NK, indicated similarities with aggressive diseases of NK cells and detected mutated genes targetable by approved drugs, being a step forward to personalized precision medicine for CLPD-NK patients.
Effects of rice-based and wheat-based diets on bowel movements in young Korean women with functional constipation
Authors: Jung Su-Jin , Oh Mi-Ra , Park Soo-Hyun , Chae Soo-Wan 
Published: April 2020

AbstractBackgroundAlthough several studies have reported the effects that dietary fiber intake from different types of grains and fiber components have on bowel movements, insufficient attention has been paid to comparing and evaluating the effects of rice-based and wheat-based diets. This study compared and evaluated the effects of ingesting rice-based (brown rice-based diet: BRD; white rice-based diet: WRD) and wheat-based diet (WD) on the bowel movements of young women with functional constipation.MethodBased on an open, randomized, controlled, and parallel design, 39 subjects were assigned to BRD, WRD, and WD groups (13 in each group). Each participant had received three types of experimental diets over the course of 4 weeks and we recommended that the subjects eat only the test diet provided during the study. Primary outcomes (total colon transit time TCTT) and secondary outcomes (bowel movements, short-chain fatty acid content, and fecal enzyme activity) were compared before and after the 4-week intervention period.ResultsAfter the 4-week study, the rice-based diet (BRD and WRD) groups and the WD group had a statistically significant difference in TCTT (p = 0.028). The TCTT of the BRD group was significantly reduced (p = 0.028) compared with the WRD group (−16.5 ± 8.1 vs +6.8 ± 2.1), and the TCTT of the WD group was also significantly reduced (p = 0.022) compared with that of the WRD group (−17.1 ± 11.9 vs +6.8 ± 2.1).ConclusionAmong women with functional constipation, the BRD and WD both improved bowel function by reducing TCTT and increasing the number of bowel movements compared with the WRD group.
Risk factors for astigmatic components and internal compensation: the Nanjing Eye Study
Authors: Wang Zijin , Tong Haohai , Hao Qingfeng , Chen Xuejuan , Zhu Hui , Huang Dan , Li Rui , Hu Zhibin , Liu Hu 
Published: April 2020

Abstract
Purpose
To determine the risk factors for total astigmatism (TA), anterior corneal astigmatism (ACA), and internal compensation in Chinese preschool children.

Methods
In the population-based Nanjing Eye Study, children were measured for noncycloplegic refractive error and for biometric parameters. Data from questionnaires and measures from right eyes were analyzed for determining risk factors for TA, ACA, and internal compensation from multivariate logistic regression models.

Results
Of 1327 children (66.8 ± 3.4 months, 53.2% male), older age of the child (OR = 0.95 for per month increase; P = 0.03), older paternal age at child birth (OR = 1.04 for per year increase; P = 0.03), paternal astigmatism (OR = 1.89; P = 0.003), maternal astigmatism (OR = 1.73, P = 0.008), and second-hand smoke exposure during pregnancy (OR = 1.64; P = 0.03) were associated with higher risk of TA, while partial breastfeeding (OR = 0.49, P = 0.006) or formula feeding (OR = 0.46, P = 0.003) were associated with lower risk of TA. Larger ratio of axial length to corneal radius (OR = 16.16 for per unit increase; P = 0.001), maternal working during pregnancy (OR = 1.27; P = 0.04), and cesarean delivery (OR = 1.68, P = 0.04) were associated with higher risk of ACA, while formula feeding was associated with lower risk of ACA (OR = 0.57, P = 0.01). Paternal astigmatism (OR = 0.50, P = 0.01) and assisted reproduction (OR = 0.56, P = 0.03) were associated with lower risk of horizontal or vertical internal compensation. More outdoor activity time (OR = 1.15 for per hour increase, P = 0.01) was associated with higher risk of oblique internal compensation while more nighttime sleep on weekends (OR = 0.83 for per hour increase, P = 0.01) was associated with lower risk of oblique internal compensation.

Conclusions
Our study confirmed some previously reported risk factors and identified some novel risk factors for astigmatism including formula feeding for lower risk of both ACA and TA, and older paternal age at child birth for higher risk of TA.
The Flemmingsome reveals an ESCRT-to-membrane coupling via ALIX/syntenin/syndecan-4 required for completion of cytokinesis
Authors: Addi Cyril , Presle Adrien , Frémont Stéphane , Cuvelier Frédérique , Rocancourt Murielle , Milin Florine , Schmutz Sandrine , Chamot-Rooke Julia , Douché Thibaut , Duchateau Magalie , Giai Gianetto Quentin , Salles Audrey , Ménager Hervé , Matondo Mariette , Zimmermann Pascale , Gupta-Rossi Neetu , Echard Arnaud 
Published: April 2020

AbstractCytokinesis requires the constriction of ESCRT-III filaments on the side of the midbody, where abscission occurs. After ESCRT recruitment at the midbody, it is not known how the ESCRT-III machinery localizes to the abscission site. To reveal actors involved in abscission, we obtained the proteome of intact, post-abscission midbodies (Flemmingsome) and identified 489 proteins enriched in this organelle. Among these proteins, we further characterized a plasma membrane-to-ESCRT module composed of the transmembrane proteoglycan syndecan-4, ALIX and syntenin, a protein that bridges ESCRT-III/ALIX to syndecans. The three proteins are highly recruited first at the midbody then at the abscission site, and their depletion delays abscission. Mechanistically, direct interactions between ALIX, syntenin and syndecan-4 are essential for proper enrichment of the ESCRT-III machinery at the abscission site, but not at the midbody. We propose that the ESCRT-III machinery must be physically coupled to a membrane protein at the cytokinetic abscission site for efficient scission, uncovering common requirements in cytokinesis, exosome formation and HIV budding.
Donor-delivered cell wall hydrolases facilitate nanotube penetration into recipient bacteria
Authors: Baidya Amit K. , Rosenshine Ilan , Ben-Yehuda Sigal 
Published: April 2020

AbstractBacteria can produce membranous nanotubes that mediate contact-dependent exchange of molecules among bacterial cells. However, it is unclear how nanotubes cross the cell wall to emerge from the donor or to penetrate into the recipient cell. Here, we report that Bacillus subtilis utilizes cell wall remodeling enzymes, the LytC amidase and its enhancer LytB, for efficient nanotube extrusion and penetration. Nanotube production is reduced in a lytBC mutant, and the few nanotubes formed appear deficient in penetrating into target cells. Donor-derived LytB molecules localize along nanotubes and on the surface of nanotube-connected neighbouring cells, primarily at sites of nanotube penetration. Furthermore, LytB from donor B. subtilis can activate LytC of recipient bacteria from diverse species, facilitating cell wall hydrolysis to establish nanotube connection. Our data provide a mechanistic view of how intercellular connecting devices can be formed among neighbouring bacteria.
Hierarchical levels of organization of the Brazil nut mesocarp
Authors: Sonego Marilia , Fleck Claudia , Pessan Luiz Antonio 
Published: April 2020

AbstractAiming to understand Nature´s strategies that inspire new composite materials, the hierarchical levels of organization of the Brazil nut (Bertholletia excelsa) mesocarp were investigated. Optical microscopy, scanning electron microscopy (SEM), microtomography (MicroCT) and small-angle X-ray scattering (SAXS) were used to deeply describe the cellular and fibrillary levels of organization. The mesocarp is the middle layer of the fruit which has developed several strategies to avoid its opening and protect its seed. Fibers have a different orientation in the three layers of the mesocarp, what reduces the anisotropy of the structure. Sclereids cells with thick cell walls fill the spaces between the fibers resembling a foam-filled structural composite. The mesocarp has several tubular channels and fractured surfaces which may work as sites for crack trapping and increase toughness. The thick and lignified cell wall of sclereids and fibers and the weak interface between cells can promote a longer and tortuous intercellular crack path. Additionally, fibers with high strength and stiffness due to microfibrils oriented along the main cell axis (µ = 0° to 17°) were identified in the innermost layer of the mesocarp. Such an understanding of each hierarchical level can inspire the development of new cellular composites with improved mechanical behavior
miR-548aq-3p is a novel target of Far infrared radiation which predicts coronary artery disease endothelial colony forming cell responsiveness
Authors: Tsai Wei-Che , Chiang Wei-Hui , Wu Chun-Hsien , Li Yue-Cheng , Campbell Mel , Huang Po-Hsun , Lin Ming-Wei , Lin Chi-Hung , Cheng Shu-Meng , Chang Pei-Ching , Cheng Cheng-Chung 
Published: April 2020

AbstractNon-invasive far infrared radiation (FIR) has been observed to improve the health of patients with coronary artery disease (CAD). Endothelial colony forming cells (ECFCs) contribute to vascular repair and CAD. The goal of this study was to uncover the role of FIR in ECFCs function and to reveal potential biomarkers for indication of FIR therapy in CAD patients. FIR significantly enhanced in vitro migration (transwell assay) and tube formation (tube length) capacities in a subpopulation of CAD ECFCs. Clinical parameters associated with the responsiveness of ECFCs to FIR include smoking and gender. ECFCs from CAD patients that smoke did not respond to FIR in most cases. In contrast, ECFCs from females showed a higher responsiveness to FIR than ECFCs from males. To decipher the molecular mechanisms by which FIR modulates ECFCs functions, regardless of sex, RNA sequencing analysis was performed in both genders of FIR-responsive and FIR-non/unresponsive ECFCs. Gene Ontology (GO) analysis of FIR up-regulated genes indicated that the pathways enriched in FIR-responsive ECFCs were involved in cell viability, angiogenesis and transcription. Small RNA sequencing illustrated 18 and 14 miRNAs that are up- and down-regulated, respectively, in FIR-responsive CAD ECFCs in both genders. Among the top 5 up- and down-regulated miRNAs, down-regulation of miR-548aq-3p in CAD ECFCs after FIR treatment was observed in FIR-responsive CAD ECFCs by RT-qPCR. Down-regulation of miR-548aq-3p was correlated with the tube formation activity of CAD ECFCs enhanced by FIR. After establishment of the down-regulation of miR-548aq-3p by FIR in CAD ECFCs, we demonstrated through overexpression and knockdown experiments that miR-548aq-3p contributes to the inhibition of the tube formation of ECFCs. This study suggests the down-regulation of miR-548aq-3p by FIR may contribute to the improvement of ECFCs function, and represents a novel biomarker for therapeutic usage of FIR in CAD patients.
Constraining the sub-arc, parental magma composition for the giant Altiplano-Puna Volcanic Complex, northern Chile
Authors: González-Maurel Osvaldo , Deegan Frances M. , le Roux Petrus , Harris Chris , Troll Valentin R. , Godoy Benigno 
Published: April 2020

AbstractThe Andean continental arc is built upon the thickest crust on Earth, whose eruption products reflect varying degrees of crustal assimilation. In order to robustly model magma evolution and assimilation at subduction zones such as the Andes, the compositions of parental magmas feeding crustal magma reservoirs need to be defined. Here we present new olivine and clinopyroxene oxygen isotope data from rare mafic volcanic rocks erupted at the margins of the giant Altiplano-Puna Magma Body (APMB) of the Altiplano-Puna Volcanic Complex, Central Andes. Existing olivine and pyroxene δ18O values for the Central Andes are highly variable and potentially not representative of sub-arc parental compositions. However, new olivine (n = 6) and clinopyroxene (n = 12) δ18O values of six Central Andean volcanoes presented here display a narrow range, with averages at 6.0‰ ± 0.2 (2σ S.D.) and 6.7‰ ± 0.3 (2σ S.D.), consistent with a common history for the investigated minerals. These data allow us to estimate the δ18O values of sub-arc, parental melts to ca. 7.0‰ ± 0.2 (2σ S.D.). Parental melts feeding the APMB and associated volcanic centres are postulated to form in the felsic continental crust following assimilation of up to 28% high-δ18O basement rocks by mantle-derived magmas.
Exploring the operating factors controlling Kouleothrix (type 1851), the dominant filamentous bacterial population, in a full-scale A2O plant
Authors: Nittami Tadashi , Kasakura Risa , Kobayashi Toshimasa , Suzuki Kota , Koshiba Yusuke , Fukuda Junji , Takeda Minoru , Tobino Tomohiro , Kurisu Futoshi , Rice Daniel , Petrovski Steve , Seviour Robert J. 
Published: April 2020

AbstractThis study reveals that the abundance of the filament Kouleothrix (Eikelboom type 1851) correlated positively with poor settleability of activated sludge biomass in a Japanese full-scale nutrient removal wastewater treatment plant sampled over a one-year period. 16S rRNA amplicon sequence data confirmed that Kouleothrix was the dominant filament in the plant, with a relative abundance of 3.06% positively correlated with sludge volume index (SVI) (R = 0.691). Moreover, Kouleothrix (type 1851) appeared to form interfloc bridges, typical of bulking sludge, regardless of season. Together with earlier studies that indicated the responsibility of Kouleothrix (type 1851) on bulking events, these data suggest that their high relative abundances alone may be responsible for sludge bulking. 16S rRNA qPCR data for this filament showed changes in its relative abundance correlated with changes in several operational parameters, including mixed liquor temperature, sludge retention time, and suspended solids concentration, and it may be that manipulating these may help control Kouleothrix bulking.
Conceptual framework and uncertainty analysis for large-scale, species-agnostic modelling of landscape connectivity across Alberta, Canada
Authors: Marrec Ronan , Abdel Moniem Hossam E. , Iravani Majid , Hricko Branko , Kariyeva Jahan , Wagner Helene H. 
Published: April 2020

AbstractSustainable land-use planning should consider large-scale landscape connectivity. Commonly-used species-specific connectivity models are difficult to generalize for a wide range of taxa. In the context of multi-functional land-use planning, there is growing interest in species-agnostic approaches, modelling connectivity as a function of human landscape modification. We propose a conceptual framework, apply it to model connectivity as current density across Alberta, Canada, and assess map sensitivity to modelling decisions. We directly compared the uncertainty related to (1) the definition of the degree of human modification, (2) the decision whether water bodies are considered barriers to movement, and (3) the scaling function used to translate degree of human modification into resistance values. Connectivity maps were most sensitive to the consideration of water as barrier to movement, followed by the choice of scaling function, whereas maps were more robust to different conceptualizations of the degree of human modification. We observed higher concordance among cells with high (standardized) current density values than among cells with low values, which supports the identification of cells contributing to larger-scale connectivity based on a cut-off value. We conclude that every parameter in species-agnostic connectivity modelling requires attention, not only the definition of often-criticized expert-based degrees of human modification.
Possibility of cancer-stem-cell-targeted radioimmunotherapy for acute myelogenous leukemia using 211At-CXCR4 monoclonal antibody
Authors: Oriuchi Noboru , Aoki Miho , Ukon Naoyuki , Washiyama Kohshin , Tan Chengbo , Shimoyama Saki , Nishijima Ken-ichi , Takahashi Kazuhiro , Ito Hiroshi , Ikezoe Takayuki , Zhao Songji 
Published: April 2020

AbstractTo explore stem-cell-targeted radioimmunotherapy with α-particles in acute myelogenous leukemia (AML), pharmacokinetics and dosimetry of the 211At-labeled anti-C-X-C chemokine receptor type 4 monoclonal antibody (211At-CXCR4 mAb) were conducted using tumor xenografted mice. The biological half-life of 211At-CXCR4 mAb in blood was 15.0 h. The highest tumor uptake of 5.05%ID/g with the highest tumor-to-muscle ratio of 8.51 ± 6.14 was obtained at 6 h. Radiation dosimetry estimated with a human phantom showed absorbed doses of 0.512 mGy/MBq in the bone marrow, 0.287 mGy/MBq in the kidney, and <1 mGy/MBq in other major organs except bone. Sphere model analysis revealed 22.8 mGy/MBq in a tumor of 10 g; in this case, the tumor-to-bone marrow and tumor-to-kidney ratios were 44.5 and 79.4, respectively. The stem-cell-targeted α-particle therapy using 211At-CXCR4 mAb for AML appears possible and requires further therapeutic studies.
In-vitro reconfigurability of native chemical automata, the inclusiveness of their hierarchy and their thermodynamics
Authors: Dueñas-Díez Marta , Pérez-Mercader Juan 
Published: April 2020

AbstractLiving systems process information using chemistry. Computations can be viewed as language recognition problems where both languages and automata recognizing them form an inclusive hierarchy. Chemical realizations, without using biochemistry, of the main classes of computing automata, Finite Automata (FA), 1-stack Push Down Automata (1-PDA) and Turing Machine (TM) have recently been presented. These use chemistry for the representation of input information, its processing and output information. The Turing machine uses the Belousov-Zhabotinsky (BZ) oscillatory reaction to recognize a representative Context-Sensitive Language (CSL), the 1-PDA uses a pH network to recognize a Context Free Language (CFL) and a FA for a Regular Language (RL) uses a precipitation reaction. By chemically reconfiguring them to recognize representative languages in the lower classes of the Chomsky hierarchy we illustrate the inclusiveness of the hierarchy of native chemical automata. These examples open the door for chemical programming without biochemistry. Furthermore, the thermodynamic metric originally introduced to identify the accept/reject state of the chemical output for the CSL, can equally be used for recognizing CFL and RL by the automata. Finally, we point out how the chemical and thermodynamic duality of accept/reject criteria can be used in the optimization of the energetics and efficiency of computations.
Geographic variation in maternal investment and trade-offs between egg size and clutch size in an endemic toad of the Qinghai-Tibet Plateau
Authors: Yu Tong Lei , Deng Yao Hui 
Published: April 2020

AbstractLife history theory predicts that animals often produce fewer offspring of larger size and indicate a stronger trade-off between the number and size of offspring to cope with increasing environmental stress. In order to evaluate this prediction, we tested the life history characteristics of Bufo minshanicus at eight different altitudes on the eastern Tibetan Plateau, China. Our results revealed a positive correlation between female SVL and clutch size or egg size, revealing that larger females produce more and larger eggs. However, high-altitude toads seem to favor more offspring and smaller egg sizes when removing the effect of female SVL, which is counter to theoretical predictions. In addition, there was an overall significantly negative relationship between egg size and clutch size, indicative of a trade-off between egg size and fecundity. Therefore, we suggest that higher fecundity, rather than larger egg size, is a more effective reproductive strategy for this species of anuran living at high-altitude environments.
Dispersal of female and male Aedes aegypti from discarded container habitats using a stable isotope mark-capture study design in South Texas
Authors: Juarez Jose G. , Garcia-Luna Selene , Chaves Luis Fernando , Carbajal Ester , Valdez Edwin , Avila Courtney , Tang Wendy , Martin Estelle , Barrera Roberto , Hemme Ryan R. , Mutebi John-Paul , Vuong Nga , Roark E. Brendan , Maupin Christopher R. , Badillo-Vargas Ismael E. , Hamer Gabriel L. 
Published: April 2020

AbstractAedes aegypti is the main vector of arboviral diseases such as dengue, chikungunya and Zika. A key feature for disease transmission modeling and vector control planning is adult mosquito dispersal. We studied Ae aegypti adult dispersal by conducting a mark-capture study of naturally occurring Ae. aegypti from discarded containers found along a canal that divided two residential communities in Donna, Texas, USA. Stable isotopes were used to enrich containers with either 13C or 15N. Adult mosquitoes were collected outdoors in the yards of households throughout the communities with BG Sentinel 2 traps during a 12-week period. Marked mosquito pools with stable isotopes were used to estimate the mean distance travelled using three different approaches (Net, Strip or Circular) and the probability of detecting an isotopically marked adult at different distances from the larval habitat of origin. We consistently observed, using the three approaches that male (Net: 220 m, Strip: 255 m, Circular: 250 m) Ae. aegypti dispersed further in comparison to gravid (Net: 135 m, Strip: 176 m, Circular: 189 m) and unfed females (Net: 192 m, Strip: 213 m, Circular: 198 m). We also observed that marked male capture probability slightly increased with distance, while, for both unfed and gravid females, such probability decreased with distance. Using a unique study design documenting adult dispersal from natural larval habitat, our results suggest that Ae. aegypti adults disperse longer distances than previously reported. These results may help guide local vector control authorities in their fight against Ae. aegypti and the diseases it transmits, suggesting coverage of 200 m for the use of insecticides and innovative vector control tools.