bluuebunny/crossref_metadata_2025_split huggingface dataset:
Overcoming kidney organoid challenges for regenerative medicine
Authors: Geuens Thomas , van Blitterswijk Clemens A. , LaPointe Vanessa L. S. 
Published: April 2020

AbstractKidney organoids derived from human induced pluripotent stem cells bear the potential to be used as a regenerative medicine renal replacement therapy. Advances in developmental biology shed light on the complex cellular regulation during kidney morphogenesis in animal models resulting in insights that were incorporated in the development of groundbreaking protocols for the directed differentiation of human pluripotent stem cells to kidney endpoints. Moreover, further optimization efforts to improve three-dimensional culture techniques resulted in the creation of kidney organoids. Before they can find their way to the clinic, there are critical challenges to overcome. Here, we will discuss recent advances and remaining challenges for kidney organoids to become successful in regenerative medicine. An innovative combination of tissue engineering techniques with more refined insights in the developing human kidney will ultimately lead to more mature and functional kidney organoids suitable as renal replacement therapy for patients with chronic kidney disease.
Effect of precipitation on respiration of different reconstructed soils
Authors: Lei Na , Han Jichang 
Published: April 2020

AbstractRespiration and hydrothermal characteristics of four reconstructed soils in barren gravel land at a site in Shaanxi Province were monitored before, during, and after two precipitation events. Both precipitation events significantly reduced soil temperature but there were great fluctuations in temperature after the second precipitation event. Moreover, precipitation increased the moisture content of the reconstructed soils. Before the first precipitation event, the soil volumetric water content was relatively stable, while it gradually decreased before the second precipitation event. The first precipitation event significantly stimulated the respiration rate for all reconstructed soils, while the second precipitation event generally inhibited it, especially during the precipitation event. The key factors influencing respiration for different reconstructed soils were different between the precipitation events. When soil volumetric water content showed persistent variation before precipitation, soil moisture was the most influential factor. In contrast, if water content was stable, soil temperature was more influential. Soil moisture and temperature jointly influenced soil respiration before, during, and after the precipitation event, while soil moisture was always the most influential factor after precipitation.
Anthropogenic Anoxic History of the Tuvalu Atoll Recorded as Annual Black Bands in Coral
Authors: Nakamura Nobuko , Kayanne Hajime , Takahashi Yoshio , Sunamura Michinari , Hosoi Go , Yamano Hiroya 
Published: April 2020

AbstractAtoll islands are small, low-lying and highly vulnerable to sea level rise (SLR). Because these islands are fully composed of the skeletons from coral reef creatures, the healthy coral ecosystem plays a pivotal role in island resilience against SLR. The environmental deterioration of reefs caused by increases in the human population has been recently reported, but the timing and process are unknown. We investigated the annual black bands in a coral boring core from Fongafale Island, the capital of Tuvalu, which is a symbolic atoll country that is being submerged due to SLR. The iron redox state and microbial gene segments in the coral skeleton might be new environmental indicators that reveal the linkage between anthropogenic activity and coral reef ecosystems. Our findings provide the first demonstration that iron sulfide has formed concentrated black layers since 1991 under the seasonal anoxic conditions inside coral annual bands. Since the 1990s, increasing human activity and domestic waste-induced eutrophication has promoted sludge and/or turf algae proliferation with the subsequent seasonal destruction, resulting in sulfate reduction by anaerobic bacteria. With the recent climate variability, these anthropogenic effects have induced the mass mortality of branching corals, deteriorated the coral reef ecosystem and deprived the resilience of the island against SLR.
Small RNA sequencing revealed various microRNAs involved in ethylene-triggered flowering process in Aechmea fasciata
Authors: Ding Yuanhao , Wang Jiabin , Lei Ming , Li Zhiying , Jing Yonglin , Hu Haiyan , Zhu Sitao , Xu Li 
Published: April 2020

AbstractEthylene-triggered flowering is a common phenomenon in plants of the family Bromeliaceae, but its molecular mechanism remains unclear. As a classical group of small RNAs, microRNAs play an essential role in the regulation of flowering. In this study, we found that various miRNAs participate in the ethylene-triggered flowering process in Aechmea fasciata via small RNA sequencing using juvenile and adult plants treated with ethylene for 24 hours. Finally, 63 known miRNAs, 52 novel miRNAs and 1721 target genes were identified or predicted. Expression changes of specific miRNAs were validated by qRT-PCR and northern blotting. Some predicted targets, including SPL, GAMYB and ARF, were verified in RLM-RACE experiments. Gene Ontology (GO) and KEGG analysis showed that numerous developmental and RNA-related processes were enriched. Integrated analysis of the transcriptomic data with small RNA sequencing revealed that numerous miRNAs and targets involved in ethylene-triggered flowering in A. fasciata. Our study is helpful for illuminating the molecular basis of the ethylene-triggered flowering phenomenon in Bromeliaceae.
PETER-assay: Combined Impedimetric Detection of Permeability (PE) and Resistance (TER) of Barrier-Forming Cell Layers
Authors: Urban Florian , Hajek Kathrin , Naber Tobias , Anczykowski Boris , Schäfer Marcus , Wegener Joachim 
Published: April 2020

AbstractEpithelial and endothelial barrier function is typically studied in vitro by growing the cells of interest on permeable supports that are sandwiched between two fluid compartments. This setup mimics the physiological situation with the cell layer as the diffusion barrier at the interface between two chemically distinct fluids. Routinely, the barrier function is quantitatively described by two key parameters: (i) the transepithelial or transendothelial electrical resistance (TER) as a measure of the permeability for small inorganic ions and (ii) the permeability coefficient (PE) as a descriptor of the permeability for molecular tracers. So far the two parameters have been determined in separate experiments. This study introduces a device that allows for simultaneous detection of PE and TER of the very same cell monolayer in one single experiment (PETER-assay). The novel approach is entirely based on AC impedance measurements in two different modes, so that TER and PE become available in real time. The new approach is demonstrated for three epithelial cell lines derived from the kidney (MDCK-I, MDCK-II, NRK) with very different barrier properties under stationary conditions and when challenged by barrier-breaking fungal toxin cytochalasin D. PETER provides an excellent time-resolution and completely automated data collection.
Using mathematical modelling to investigate the adaptive divergence of whitefish in Fennoscandia
Authors: Thibert-Plante Xavier , Præbel Kim , Østbye Kjartan , Kahilainen Kimmo K. , Amundsen Per-Arne , Gavrilets Sergey 
Published: April 2020

AbstractModern speciation theory has greatly benefited from a variety of simple mathematical models focusing on the conditions and patterns of speciation and diversification in the presence of gene flow. Unfortunately the application of general theoretical concepts and tools to specific ecological systems remains a challenge. Here we apply modeling tools to better understand adaptive divergence of whitefish during the postglacial period in lakes of northern Fennoscandia. These lakes harbor up to three different morphs associated with the three major lake habitats: littoral, pelagic, and profundal. Using large-scale individual-based simulations, we aim to identify factors required forin situemergence of the pelagic and profundal morphs in lakes initially colonized by the littoral morph. The importance of some of the factors we identify and study - sufficiently large levels of initial genetic variation, size- and habitat-specific mating, sufficiently large carrying capacity of the new niche - is already well recognized. In addition, our model also points to two other factors that have been largely disregarded in theoretical studies: fitness-dependent dispersal and strong predation in the ancestral niche coupled with the lack of it in the new niche(s). We use our theoretical results to speculate about the process of diversification of whitefish in Fennoscandia and to identify potentially profitable directions for future empirical research.
Review Global seroprevalence of legionellosis - a systematic review and meta-analysis
Authors: Graham Frances F. , Hales Simon , White Paul S. , Baker Michael G. 
Published: April 2020

AbstractLegionellais a ubiquitous pathogen yet the global occurrence of legionellosis is poorly understood. To address this deficit, this paper summarises the available evidence on the seroprevalence ofLegionellaantibodies and explores factors that may influence seroprevalence estimates. Through a systematic review, a total of 3979 studies were identified with seroprevalence results published after 1 January 1990. We tabulated findings by World Health Organization (WHO) region, location, study period and design, composition of study population(s) for all ages in terms of exposure, sex, detection methods, IFA titre,Legionellaspecies measured, and present seroprevalence point estimates and 95% confidence intervals. Sampled populations were classified according to income, WHO region, gender, age, occupation and publication date. We conducted a meta-analysis on these subgroups using Comprehensive Meta-Analysis 3.0 software. Heterogeneity across studies was evaluated by the Q test in conjunction withI2statistics. Publication bias was evaluated via funnel plot and Egger’s test. Fifty-seven studies met our inclusion criteria, giving an overall estimate of seroprevalence forLegionellaof 13.7% (95% CI 11.3–16.5), but with substantial heterogeneity across studies.
Genomic copy number variation correlates with survival outcomes in WHO grade IV glioma
Authors: Buchwald Zachary S. , Tian Sibo , Rossi Michael , Smith Geoffrey H. , Switchenko Jeffrey , Hauenstein Jennifer E. , Moreno Carlos S. , Press Robert H. , Prabhu Roshan S. , Zhong Jim , Saxe Debra F. , Neill Stewart G. , Olson Jeffrey J. , Crocker Ian R. , Curran Walter J. , Shu Hui-Kuo G. 
Published: April 2020

AbstractAllele-specific copy number analysis of tumors (ASCAT) assesses copy number variations (CNV) while accounting for aberrant cell fraction and tumor ploidy. We evaluated if ASCAT-assessed CNV are associated with survival outcomes in 56 patients with WHO grade IV gliomas. Tumor data analyzed by Affymetrix OncoScan FFPE Assay yielded the log ratio (R) and B-allele frequency (BAF). Input into ASCAT quantified CNV using the segmentation function to measure copy number inflection points throughout the genome. Quantified CNV was reported as log R and BAF segment counts. Results were confirmed on The Cancer Genome Atlas (TCGA) glioblastoma dataset. 25 (44.6%) patients had MGMT hyper-methylated tumors, 6 (10.7%) were IDH1 mutated. Median follow-up was 36.4 months. Higher log R segment counts were associate with longer progression-free survival (PFS) [hazard ratio (HR) 0.32, p < 0.001], and overall survival (OS) [HR 0.45, p = 0.01], and was an independent predictor of PFS and OS on multivariable analysis. Higher BAF segment counts were linked to longer PFS (HR 0.49, p = 0.022) and OS (HR 0.49, p = 0.052). In the TCGA confirmation cohort, longer 12-month OS was seen in patients with higher BAF segment counts (62.3% vs. 51.9%, p = 0.0129) and higher log R (63.6% vs. 55.2%, p = 0.0696). Genomic CNV may be a novel prognostic biomarker for WHO grade IV glioma patient outcomes.
Nested structure of intraspecific competition network in Carnobacterium maltaromaticum
Authors: Ramia Nancy E. , Mangavel Cécile , Gaiani Claire , Muller-Gueudin Aurélie , Taha Samir , Revol-Junelles Anne-Marie , Borges Frédéric 
Published: April 2020

AbstractWhile competition targeting food-borne pathogens is being widely documented, few studies have focused on competition among non-pathogenic food bacteria. Carnobacterium maltaromaticum is a genetically diverse lactic acid bacterium known for comprising several bacteriocinogenic strains with bioprotective potentialities against the food-borne pathogen Listeria monocytogenes. The aim of our study is to examine the network properties of competition among a collection of 73 strains of C. maltaromaticum and to characterize their individual interaction potential. The performed high-throughput competition assays, investigating 5 329 pairwise interactions, showed that intraspecific competition was major in C. maltaromaticum with approximately 56% of the sender strains antagonizing at least one receiver strain. A high diversity of inhibitory and sensitivity spectra was identified along with a majority of narrow inhibitory as well as sensitivity spectra. Through network analysis approach, we determined the highly nested architecture of C. maltaromaticum competition network, thus showing that competition in this species is determined by both the spectrum width of the inhibitory activity of sender strains and the spectrum width of the sensitivity of receiver strains. This study provides knowledge of the competition network in C. maltaromaticum that could be used in rational assembly of compatible microbial strains for the design of mixed starter cultures.
Appraising the role of circulating concentrations of micro-nutrients in epithelial ovarian cancer risk: A Mendelian randomization analysis
Authors: Guo Yan , Lu Yunlong , Jin Hongchuan 
Published: April 2020

AbstractTo determine the causality of micro-nutrients concentrations and risk of ovarian cancer using the Mendelian randomization approach. Analyses were conducted using summary statistics data for SNPs robustly associated with concentrations of thirteen micro-nutrients (iron, copper, zinc, calcium, magnesium, phosphorus, selenium, vitamin A, β-carotene, vitamin B6, vitamin B12, vitamin E, folate). The corresponding data for ovarian cancer were obtained from the Ovarian Cancer Association Consortium (25,509 cases and 40,941 controls). In standard Mendelian randomization analysis, the odds ratios (OR) of invasive epithelial ovarian cancer were 0.14 (95% CI, 0.03–0.70; P = 0.02) per 0.1 mmol/L (about one standard deviation, SD) increase in genetically predicted magnesium concentration, 1.04 (95% CI, 1.00–1.09; P = 0.03) per 0.3 μmol/liter (about one SD) increase in genetically predicted β-carotene concentration. The OR of low malignant potential tumours were 0.82 (95% CI, 0.76–0.90; P = 1.01 × 10−5) per 0.3 μmol/liter (about one SD) increase in β-carotene concentration, 1.42 (95% CI, 1.21–1.68; P = 3 × 10−5) per 153 pmol/L (about one SD) increase in vitamin B12 concentration, 0.21 (95% CI, 0.06–0.76; P = 0.02) per 6 mg/L (about one SD) increase in vitamin E concentration. No significant associations of other micro-nutrients and ovarian cancer were observed. This study found that an increased risk of invasive epithelial ovarian cancer was observed with a genetically higher concentration of β-carotene, whereas a decreased risk of invasive epithelial ovarian cancer was found with a higher concentration of magnesium. As for low malignant potential tumours, increased concentration of vitamin B12 could increase the risk of low malignant potential tumours, while increased concentrations of β-carotene and vitamin E could lower the risk of low malignant potential tumours.
Causal contributions of human frontal eye fields to distinct aspects of decision formation
Authors: Murd Carolina , Moisa Marius , Grueschow Marcus , Polania Rafael , Ruff Christian C. 
Published: April 2020

AbstractSeveral theories propose that perceptual decision making depends on the gradual accumulation of information that provides evidence in favour of one of the choice-options. The outcome of this temporally extended integration process is thought to be categorized into the ‘winning’ and ‘losing’ choice-options for action. Neural correlates of corresponding decision formation processes have been observed in various frontal and parietal brain areas, among them the frontal eye-fields (FEF). However, the specific functional role of the FEFs is debated. Recent studies in humans and rodents provide conflicting accounts, proposing that the FEF either accumulate the choice-relevant information or categorize the outcome of such evidence integration into discrete actions. Here, we used transcranial magnetic stimulation (TMS) on humans to interfere with either left or right FEF activity during different timepoints of perceptual decision-formation. Stimulation of either FEF affected performance only when delivered during information integration but not during subsequent categorical choice. However, the patterns of behavioural changes suggest that the left-FEF contributes to general evidence integration, whereas right-FEF may direct spatial attention to the contralateral hemifield. Taken together, our results indicate an FEF involvement in evidence accumulation but not categorization, and suggest hemispheric lateralization for this function in the human brain.
Improved Non-Grignard Electrolyte Based on Magnesium Borate Trichloride for Rechargeable Magnesium Batteries
Authors: Sato Kazuhiko , Mori Goro , Kiyosu Takahiro , Yaji Toyonari , Nakanishi Koji , Ohta Toshiaki , Okamoto Kuniaki , Orikasa Yuki 
Published: April 2020

AbstractThe high anodic stability of electrolytes for rechargeable magnesium batteries enables the use of new positive electrodes, which can contribute to an increase in energy density. In this study, novel Ph3COMgCl-, Ph3SiOMgCl-, and B(OMgCl)3-based electrolytes were prepared with AlCl3 in triglyme. The Ph3COMgCl-based electrolyte showed anodic stability over 3.0 V vs. Mg but was chemically unstable, whereas the Ph3SiOMgCl-based electrolyte was chemically stable but featured lower anodic stability than the Ph3COMgCl-based electrolyte. Advantageously, the B(OMgCl)3-based electrolyte showed both anodic stability over 3.0 V vs. Mg (possibly due to the Lewis acidic nature of B in B(OMgCl)3) and chemical stability (possibly due to the hard acid character of B(OMgCl)3). B(OMgCl)3, which was prepared by reacting boric acid with a Grignard reagent, was characterized by nuclear magnetic resonance (NMR) spectroscopy, Fourier-transform infrared spectroscopy (FTIR), and X-ray absorption spectroscopy (XAS). The above analyses showed that B(OMgCl)3 has a complex structure featuring coordinated tetrahydrofuran molecules. 27Al NMR spectroscopy and Al K-edge XAS showed that when B(OMgCl)3 was present in the electrolyte, AlCl3 and AlCl2+ species were converted to AlCl4−. Mg K-edge XAS showed that the Mg species in B(OMgCl)3-based electrolytes are electrochemically positive. As a rechargeable magnesium battery, the full cell using the B(OMgCl)3-based electrolyte and a Mo6S8 Chevrel phase cathode showed stable charge-discharge cycles. Thus, B(OMgCl)3-based electrolytes, the anodic stability of which can be increased to ~3 V by the use of appropriate battery materials, are well suited for the development of practical Mg battery cathodes.
Aluminum tolerance mechanisms in Kenyan maize germplasm are independent from the citrate transporter ZmMATE1
Authors: Matonyei Thomas K. , Barros Beatriz A. , Guimaraes Roberta G. N. , Ouma Evans O. , Cheprot Reuben K. , Apolinário Leandro C. , Ligeyo Dickson O. , Costa Marcella B. R. , Were Beatrice A. , Kisinyo Peter O. , Onkware Augustino O. , Noda Roberto W. , Gudu Samuel O. , Magalhaes Jurandir V. , Guimaraes Claudia T. 
Published: April 2020

AbstractAluminum (Al) toxicity on acid soils adversely affects maize yields, which can be overcome by combining soil amendments with genetic tolerance. In maize, ZmMATE1 confers Al tolerance via Al-activated citrate release, whereby citrate forms non-toxic complexes with Al3+ in the rhizosphere. Here, we investigated Al tolerance mechanisms in maize germplasm originated from Kenya based on quantitative trait loci (QTL) mapping. Five QTLs and four epistatic interactions explained ~51% of the phenotypic variation for Al tolerance. The lack of Al tolerance QTL on chromosome 6 and the much lower expression of ZmMATE1 in both Kenyan lines than in Cateto Al237, which donates the superior allele of ZmMATE1, strongly indicate that this gene does not play a significant role in Al tolerance in neither parent. In turn, maize homologs to genes previously implicated in Al tolerance in other species, ZmNrat1, ZmMATE3, ZmWRKY and ZmART1, co-localized with Al tolerance QTL and were more highly expressed in the parent that donate favorable QTL alleles. However, these candidate genes will require further studies for functional validation on maize Al tolerance. The existence of Al tolerance mechanisms independent from ZmMATE1 suggests it is possible to develop highly Al tolerant cultivars by pyramiding complementary Al tolerance genes in maize.
Intercropping kura clover with prairie cordgrass mitigates soil greenhouse gas fluxes
Authors: Abagandura Gandura Omar , Sekaran Udayakumar , Singh Shikha , Singh Jasdeep , Ibrahim Mostafa A. , Subramanian Senthil , Owens Vance N. , Kumar Sandeep 
Published: April 2020

AbstractPrairie cordgrass (PCG) (Spartina pectinata Link) has a high tolerance to soil salinity and waterlogging, therefore, it can thrive on marginal lands. Optimizing the nitrogen (N) input is crucial to achieving desirable biomass production of PCG without negatively impacting the environment. Thus, this study was based on the hypothesis that the use of legumes such as kura clover (Trifolium ambiguum M. Bieb.) (KC) as an intercrop with PCG can provide extra N to the crop reducing the additional N fertilizer and mitigating soil surface greenhouse gas (GHG) emissions. Specific objective of the study was to assess the impact of PCG managed with different N rates [0 kg N ha−1 (PCG-0N), 75 kg N ha−1 (PCG-75N), 150 kg N ha−1 (PCG-150N), and 225 kg N ha−1 (PCG-255N)], and PCG intercropped with KC (PCG-KC) on GHG fluxes and biomass yield. The experimental site was established in 2010 in South Dakota under a marginally yielding cropland. The GHG fluxes were measured from 2014 through 2018 growing seasons using the static chamber. Net global warming potential (GWP) was calculated. Data showed that cumulative CH4 and CO2 fluxes were similar for all the treatments over the study period. However, the PCG-KC, PCG-0N, and PCG-75N recorded lower cumulative N2O fluxes (384, 402, and 499 g N ha−1, respectively) than the PCG-150N (644 g N ha−1) and PCG-255N (697 g N ha−1). The PCG-KC produced 85% and 39% higher yield than the PCG-0N in 2016 and 2017, respectively, and similar yield to the other treatments (PCG-75N, PCG-150N, and PCG-255N) in these years. Net GWP was 52% lower for the PCG-KC (112.38 kg CO2-eq ha−1) compared to the PCG-225N (227.78 kg CO2-eq ha−1), but similar to other treatments. Soil total N was 15%% and 13% higher under PCG-KC (3.7 g kg−1) than that under PCG-0N (3.2 g kg−1) and PCG-75N (3.3 g kg−1), respectively. This study concludes that intercropping prairie cordgrass with kura clover can enhance biomass yield and reduce fertilizer-derived N2O emissions and net global warming potential.