bluuebunny/crossref_metadata_2025 huggingface dataset:
Glomerular clusterin expression is increased in diabetic nephropathy and protects against oxidative stress-induced apoptosis in podocytes
Authors: He Junling , Dijkstra Kyra L. , Bakker Kim , Bus Pascal , Bruijn Jan A. , Scharpfenecker Marion , Baelde Hans J.
Published: September 2020

Clusterin, a glycoprotein encoded by the CLU gene, is expressed in many tissues, including the kidney, and clusterin expression is upregulated in the glomeruli of patients with various forms of kidney disease. Here, we investigated the role of clusterin in diabetic nephropathy (DN). In this study, we found that glomerular clusterin expression was increased in both patients with DN and streptozotocin-induced diabetic mice and that it co-localised with the podocyte marker WT1, indicating clusterin is expressed in podocytes. In our in vitro analysis, we found no significant change in CLU mRNA expression in podocytes following stimulation with high glucose and angiotensin II; in contrast, CLU mRNA expression was significantly upregulated following methylglyoxal stimulation. Methylglyoxal treatment also significantly decreased the mRNA expression of the slit diaphragm markers ZO-1 and NEPH1 and significantly increased the mRNA expression of the oxidative stress marker HO-1. Lastly, we showed that pre-incubating podocytes with recombinant human clusterin protein increased podocyte survival, prevented slit diaphragm damage, and reduced oxidative stress‒induced apoptosis following methylglyoxal stimulation. Taken together, our results indicate that glomerular clusterin is upregulated in DN, and this increase in clusterin expression may protect against oxidative stress-induced apoptosis in podocytes, providing a possible new therapeutic target for DN and other kidney diseases.
Demystifying the spectral collapse in two-photon Rabi model
Authors: Lo C. F.
Published: September 2020

We have investigated the eigenenergy spectrum of the two-photon Rabi model at the critical coupling, particularly the special feature “spectral collapse”, by means of an elementary quantum mechanics approach. The eigenenergy spectrum is found to consist of both a set of discrete energy levels and a continuous energy spectrum. Each of these eigenenergies has a two-fold degeneracy corresponding to the spin degree of freedom. The discrete eigenenergy spectrum has a one-to-one mapping with that of a particle in a “Lorentzian function” potential well, and the continuous energy spectrum can be derived from the scattering problem associated with a potential barrier. The number of bound states available at the critical coupling is determined by the energy difference between the two atomic levels so that the extent of the “spectral collapse” can be monitored in a straightforward manner.
The type VII secretion system protects Staphylococcus aureus against antimicrobial host fatty acids
Authors: Kengmo Tchoupa Arnaud , Watkins Kate E. , Jones Rebekah A. , Kuroki Agnès , Alam Mohammad Tauqeer , Perrier Sebastien , Chen Yin , Unnikrishnan Meera
Published: September 2020

The Staphylococcus aureus type VII secretion system (T7SS) exports several proteins that are pivotal for bacterial virulence. The mechanisms underlying T7SS-mediated staphylococcal survival during infection nevertheless remain unclear. Here we report that S. aureus lacking T7SS components are more susceptible to host-derived antimicrobial fatty acids. Unsaturated fatty acids such as linoleic acid (LA) elicited an increased inhibition of S. aureus mutants lacking T7SS effectors EsxC, EsxA and EsxB, or the membrane-bound ATPase EssC, compared to the wild-type (WT). T7SS mutants generated in different S. aureus strain backgrounds also displayed an increased sensitivity to LA. Analysis of bacterial membrane lipid profiles revealed that the esxC mutant was less able to incorporate LA into its membrane phospholipids. Although the ability to bind labelled LA did not differ between the WT and mutant strains, LA induced more cell membrane damage in the T7SS mutants compared to the WT. Furthermore, proteomic analyses of WT and mutant cell fractions revealed that, in addition to compromising membranes, T7SS defects induce oxidative stress and hamper their response to LA challenge. Thus, our findings indicate that T7SS contribute to maintaining S. aureus membrane integrity and homeostasis when bacteria encounter antimicrobial fatty acids.
A CRISPR-based method for testing the essentiality of a gene
Authors: You Yan , Ramachandra Sharmila G. , Jin Tian
Published: September 2020

The CRISPR/Cas9 system is a powerful method of editing genes by randomly introducing errors into the target sites. Here, we describe a CRISPR-based test for gene essentiality (CRISPR-E test) that allows the identification of essential genes. Specifically, we use sgRNA-mediated CRISPR/Cas9 to target the open reading frame of a gene in the genome and analyze the in-frame (3n) and frameshift (3n + 1 and 3n + 2) mutations in the targeted region of the gene in surviving cells. If the gene is non-essential, the cells would carry both in-frame (3n) and frameshift (3n + 1 and 3n + 2) mutations. In contrast, the cells would carry only in-frame (3n) mutations if the targeted gene is essential, and this selective elimination of frameshift (3n + 1 and 3n + 2) mutations of the gene indicate its essentiality. As a proof of concept, we have used this CRISPR-E test in the model organism Dictyostelium discoideum to demonstrate that Dync1li1 is an essential gene while KIF1A and fAR1 are not. We further propose a simple method for quantifying the essentiality of a gene using the CRISPR-E test.
Room temperature and high response ethanol sensor based on two dimensional hybrid nanostructures of WS2/GONRs
Authors: Ahmadvand Hassan , Iraji zad Azam , Mohammadpour Raheleh , Hosseini-Shokouh Seyed Hossein , Asadian Elham
Published: September 2020

Here in this research, room temperature ethanol and humidity sensors were prepared based on two dimensional (2D) hybrid nanostructures of tungsten di-sulfide (WS2) nanosheets and graphene oxide nanoribbons (GONRs) as GOWS. The characterization results based on scanning electron microscopy (SEM), energy dispersive X-ray spectroscopy (ESD), Raman spectroscopy and X-ray diffraction (XRD) analysis confirmed the hybrid formations. Ethanol sensing of drop-casted GOWS films on SiO2 substrate indicated increasing in gas response up to 5 and 55 times higher compared to pristine GONRs and WS2 films respectively. The sensing performance of GOWS hybrid nanostructures was investigated in different concentrations of WS2, and the highest response was about 126.5 at 1 ppm of ethanol in 40% relative humidity (R.H.) for WS2/GONRs molar ratio of 10. Flexibility of GOWS was studied on Kapton substrate with bending radius of 1 cm, and the gas response decreased less than 10% after 30th bending cycles. The high response and flexibility of the sensors inspired that GOWS are promising materials for fabrication of wearable gas sensing devices.
Wavelength of light and photophobia in inherited retinal dystrophy
Authors: Otsuka Yuki , Oishi Akio , Miyata Manabu , Oishi Maho , Hasegawa Tomoko , Numa Shogo , Ikeda Hanako Ohashi , Tsujikawa Akitaka
Published: September 2020

Inherited retinal dystrophy (IRD) patients often experience photophobia. However, its mechanism has not been elucidated. This study aimed to investigate the main wavelength of light causing photophobia in IRD and difference among patients with different phenotypes. Forty-seven retinitis pigmentosa (RP) and 22 cone-rod dystrophy (CRD) patients were prospectively recruited. We designed two tinted glasses: short wavelength filtering (SWF) glasses and middle wavelength filtering (MWF) glasses. We classified photophobia into three types: (A) white out, (B) bright glare, and (C) ocular pain. Patients were asked to assign scores between one (not at all) and five (totally applicable) for each symptom with and without glasses. In patients with RP, photophobia was better relieved with SWF glasses {“white out” (p < 0.01) and “ocular pain” (p = 0.013)}. In CRD patients, there was no significant difference in the improvement wearing two glasses (p = 0.247–1.0). All RP patients who preferred MWF glasses had Bull’s eye maculopathy. Meanwhile, only 15% of patients who preferred SWF glasses had the finding (p < 0.001). Photophobia is primarily caused by short wavelength light in many patients with IRD. However, the wavelength responsible for photophobia vary depending on the disease and probably vary according to the pathological condition.
Low ETV1 mRNA expression is associated with recurrence in gastrointestinal stromal tumors
Authors: Sakamaki Keiichi , Funasaka Kohei , Miyahara Ryoji , Furukawa Kazuhiro , Yamamura Takeshi , Ohno Eizaburo , Nakamura Masanao , Kawashima Hiroki , Hirooka Yoshiki , Fujishiro Mitsuhiro , Goto Hidemi
Published: September 2020

Although the majority of gastrointestinal stromal tumors (GISTs) possess KIT mutations that induce constitutive signal transduction, the clinical outcomes are variable. The ETS translocation variant 1 (ETV1) gene encodes a transcription factor that is reported to cooperate with KIT in GISTs. However, the clinical role of ETV1 is largely unknown. The aim of this study was to examine ETV1 expression and its associations with clinical features in GISTs. We conducted a cohort study involving 64 patients with GISTs who underwent surgical resection between October 2008 and February 2015. ETV1 mRNA expression was compared with that in non-GISTs and was analyzed among risk classifications or clinical outcomes. The GIST samples exhibited significantly higher ETV1 mRNA expression than the non-GIST samples (P < 0.0001). Sixty-four GISTs were stratified into high or low ETV1 mRNA expression groups based on the median relative abundance of ETV1 mRNA. The multivariate analysis showed that low ETV1 expression, as well as tumor size and mitotic index, was an independent factor of recurrence (hazard ratio: 8.1). Patients with high ETV1 expression achieved significantly longer recurrence-free survival (RFS) times than those with low ETV1 expression (P = 0.025). Our study revealed that low ETV1 expression is an independent factor of recurrence after surgery in patients with GISTs, and thus, low ETV1 expression might be a marker of more aggressive malignant GISTs.
Environmental filtering and spillover explain multi-species edge responses across agricultural boundaries in a biosphere reserve
Authors: van Schalkwyk J. , Pryke J. S. , Samways M. J. , Gaigher R.
Published: September 2020

To ensure integrity of protected areas we need to understand how species respond to anthropogenic borders. We investigate, from a metacommunity perspective, the direct and indirect mechanisms by which transformed areas affect distribution patterns of ground-living arthropod assemblages inhabiting an extensive protected area adjacent to fruit orchards in an important biosphere reserve. Arthropods and environmental variables were sampled along transects perpendicular to natural-orchard edges. Influence of distance from orchard boundary, degree of impermeability of the boundary, orchard habitat quality (local scale land-use intensity), and edge-induced changes in local environmental variables on arthropod species richness and composition in non-crop habitats were assessed. Arthropod groups were assessed in terms of habitat fidelity: species associated with natural habitat (stenotopic species), those within crop habitat (cultural species), and those showing no preference for either habitat (ubiquitous species). Spillover resulted in higher cultural species richness near edges, but not higher overall species richness. Environmental filtering was important for stenotopic species composition, which was influenced by edge-induced changes in environmental variables. Ubiquitous species composition was determined by orchard impermeability. Increased orchard habitat quality was associated with higher cultural and ubiquitous species richness. The effects of orchards on assemblages in natural habitats can be variable, but predictable when using species habitat specificity in conjunction with a metacommunity framework. High intensity orchards may act as sink habitats, especially for species that readily disperse between crop and natural habitats. Here we recommend that local buffer strips are > 85 m wide, which will reduce the influence of cultural species spillover on sensitive natural ecosystems.
A water droplet-cleaning of a dusty hydrophobic surface: influence of dust layer thickness on droplet dynamics
Authors: Hassan Ghassan , Yilbas Bekir S. , Bahatab Saeed , Al-Sharafi Abdullah , Al-Qahtani Hussain
Published: September 2020

Water droplet cleaning of a dusty hydrophobic surface is examined. Environmental dust are used in the experiments and cloaking velocity of a dust layer by a droplet fluid is measured and hemi-wicking conditions for the dust layer are analyzed adopting the pores media wick structure approach. A droplet motion on dusty and inclined hydrophobic surface is analyzed using a high speed digital imaging system. Influences of dust layer thickness, droplet volume, and surface inclination angle on the mechanisms of dust removal by a rolling droplet are evaluated. The findings revealed that dust cloaking velocity decreases exponentially with time. The droplet fluid can cloak the dust layer during its transition on the dusty surface. The transition period of droplet wetted length on the dusty surface remains longer than the cloaking time of the dust layer by the droplet fluid. Translational velocity of rolling droplet is affected by the dust layer thickness, which becomes apparent for small volume droplets. Small volume droplet (20 µL) terminates on the thick dust layer (150 µm) at low surface inclination angle (1°). The quantity of dust picked up by the rolling droplet increases as the surface inclination angle increases. The amount of dust residues remaining on the rolling droplet path is relatively larger for the thick dust layer (150 µm) as compared to its counterpart of thin dust layer (50 µm).
Effects of age and speed on the ankle–foot system’s power during walking
Authors: da Silva Lucas Santana , Fukuchi Reginaldo Kisho , Watanabe Renato Naville , Fukuchi Claudiane Arakaki , Duarte Marcos
Published: September 2020

Structural and functional changes in the foot have been associated with age-related changes in gait mechanics, but walking speed may be a confounding factor in this relationship. The aim of this study was to investigate the effect of aging and speed on the ankle–foot power output during level walking. The effects of speed and aging on features of the mechanical power and work of the ankle and foot were quantified with a gait analysis of 24 young and 16 older individuals walking at different speeds. We observed gait speed having a significant effect on all the investigated features: peak power and positive and negative work of the ankle, foot, and sum of the ankle and foot (average effect size: 0.64 ± 0.22, from 0.26 to 0.87). We observed age having no effect on these same features (average effect size: 0.23 ± 0.12, from 0.03 to 0.39), with the exception of age’s effect when combined with speed on the negative work of the foot. We performed additional analysis to illustrate how the speed can become a confounding factor to the understanding of the age effect on the gait biomechanics. Based on the influence of gait speed on the mechanical power of the ankle–foot system, it is essential that studies control for the effect of gait speed if there is interest in understanding age-related effects, particularly when studying frail older individuals.
Halogenation as a tool to tune antimicrobial activity of peptoids
Authors: Molchanova Natalia , Nielsen Josefine Eilsø , Sørensen Kristian B. , Prabhala Bala Krishna , Hansen Paul Robert , Lund Reidar , Barron Annelise E. , Jenssen Håvard
Published: September 2020

Antimicrobial peptides have attracted considerable interest as potential new class of antibiotics against multi-drug resistant bacteria. However, their therapeutic potential is limited, in part due to susceptibility towards enzymatic degradation and low bioavailability. Peptoids (oligomers of N-substituted glycines) demonstrate proteolytic stability and better bioavailability than corresponding peptides while in many cases retaining antibacterial activity. In this study, we synthesized a library of 36 peptoids containing fluorine, chlorine, bromine and iodine atoms, which vary by length and level of halogen substitution in position 4 of the phenyl rings. As we observed a clear correlation between halogenation of an inactive model peptoid and its increased antimicrobial activity, we designed chlorinated and brominated analogues of a known peptoid and its shorter counterpart. Short brominated analogues displayed up to 32-fold increase of the activity against S. aureus and 16- to 64-fold against E. coli and P. aeruginosa alongside reduced cytotoxicity. The biological effect of halogens seems to be linked to the relative hydrophobicity and self-assembly properties of the compounds. By small angle X-ray scattering (SAXS) we have demontrated how the self-assembled structures are dependent on the size of the halogen, degree of substitution and length of the peptoid, and correlated these features to their activity.
Micro-climatic effects on plant phenolics at the community level in a Mediterranean savanna
Authors: Moreira Xoaquín , Abdala-Roberts Luis , Hidalgo-Galvez M. Dolores , Vázquez-González Carla , Pérez-Ramos Ignacio M.
Published: September 2020

Research has shown that warming and drought change plant phenolics. However, much of this work has centered on the effects of individual abiotic stressors on single plant species rather than the concurrent effects of multiple stressors at the plant community level. To address this gap, we manipulated rainfall and air temperature to test for their individual and interactive effects on the expression of leaf phenolics at the community level for annual plant species occurring in two habitat types (under oak tree canopies or in open grasslands) in a Mediterranean savanna. We found that augmented temperature had a significant positive effect on the community-weighted mean of total phenolics whereas reduced rainfall had no effect. In addition, we found no evidence of interactive effects between climatic stressors and these patterns remained consistent across habitat types. Overall, this study points at increasing efforts to investigate the linkages between climate change and community-level shifts in plant secondary chemistry.
2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD) dysregulates hepatic one carbon metabolism during the progression of steatosis to steatohepatitis with fibrosis in mice
Authors: Fling Russell R. , Doskey Claire M. , Fader Kelly A. , Nault Rance , Zacharewski Tim R.
Published: September 2020

2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD), a persistent environmental contaminant, induces steatosis that can progress to steatohepatitis with fibrosis, pathologies that parallel stages in the development of non-alcoholic fatty liver disease (NAFLD). Coincidently, one carbon metabolism (OCM) gene expression and metabolites are often altered during NAFLD progression. In this study, the time- and dose-dependent effects of TCDD were examined on hepatic OCM in mice. Despite AhR ChIP-seq enrichment at 2 h, OCM gene expression was not changed within 72 h following a bolus dose of TCDD. Dose-dependent repression of methionine adenosyltransferase 1A (Mat1a), adenosylhomocysteinase (Achy) and betaine-homocysteine S-methyltransferase (Bhmt) mRNA and protein levels following repeated treatments were greater at 28 days compared to 8 days. Accordingly, levels of methionine, betaine, and homocysteic acid were dose-dependently increased, while S-adenosylmethionine, S-adenosylhomocysteine, and cystathionine exhibited non-monotonic dose-dependent responses consistent with regulation by OCM intermediates and repression of glycine N-methyltransferase (Gnmt). However, the dose-dependent effects on SAM-dependent metabolism of polyamines and creatine could not be directly attributed to alterations in SAM levels. Collectively, these results demonstrate persistent AhR activation disrupts hepatic OCM metabolism at the transcript, protein and metabolite levels within context of TCDD-elicited progression of steatosis to steatohepatitis with fibrosis.
Defective development and microcirculation of intestine in Npr2 mutant mice
Authors: Sogawa-Fujiwara Chizuru , Hanagata Atsuki , Fujiwara Yasuhiro , Ishida Yukisato , Tomiyasu Hirotaka , Kunieda Tetsuo , Nakatomi Hirofumi , Hori Masatoshi
Published: September 2020

Intractable gastrointestinal (GI) diseases often develop during infancy. Our group previously reported that natriuretic peptide receptor B (NPR-B)-deficient Npr2slw/slw mice exhibit severe intestinal dysfunction, such as stenosis and distention, which resembles the dysfunction observed in Hirschsprung’s disease-allied disorders. However, the root cause of intestinal dysfunction and the detailed of pathophysiological condition in the intestine are not yet clear. Here, we report that the intestine of preweaning Npr2slw/slw mice showed bloodless blood vessels, and nodes were found in the lymphatic vessel. Additionally, the lacteals, smooth muscle, blood vessel, and nerves were barely observed in the villi of preweaning Npr2slw/slw mice. Moreover, intramuscular interstitial cells of Cajal (ICC-IM) were clearly reduced. In contrast, villi and ICC-IM were developed normally in surviving adult Npr2slw/slw mice. However, adult Npr2slw/slw mice exhibited partially hypoplastic blood vessels and an atrophied enteric nervous. Furthermore, adult Npr2slw/slw mice showed markedly reduced white adipose tissue. These findings suggest that the cause of GI dysfunction in preweaning Npr2slw/slw mice is attributed to defective intestinal development with microcirculation disorder. Thus, it is suggested that NPR-B signaling is involved in intestinal development and control of microcirculation and fat metabolism. This report provides new insights into intractable GI diseases, obesity, and NPR-B signaling.
The effectiveness of nonsteroidal anti-inflammatory drugs and acetaminophen in reduce the risk of amyotrophic lateral sclerosis? A meta-analysis
Authors: Chang Min Cheol , Kwak Sang Gyu , Park Jin-Sung , Park Donghwi
Published: September 2020

To test the hypothesis that aspirin, non-aspirin nonsteroidal anti-infammatory drugs (NA-NSAIDs), or acetaminophen can reduce the risk of ALS, we conducted a systematic review and meta-analysis of related previous studies. A comprehensive search was conducted on the PubMed, Embase, Cochrane Library and SCOPUS databases. It included studies published up to 29 February 2020 that fulfilled our inclusion criteria. Aspirin, acetaminophen and NA-NSAIDs use information, between the ALS and control groups, was collected for the meta-analysis. Rates of aspirin, NA-NSAID, and acetaminophen use in ALS group, compared with control group were investigated. In the results, only three studies that relate the risk of ALS to aspirin, NA-NSAIDs and acetaminophen use satisfied the inclusion criteria for the meta-analysis. Regarding aspirin, the studies did not show any statistically significant difference in aspirin use between the ALS and control groups (Odds ratio, 1.04 [95% confidence interval, 0.90–1.21]). NA-NSAIDs and acetaminophen use, however, did show up statistically significant differences in between the ALS and control groups. (Odds ratio, 0.82 [95% confidence interval, 0.73–0.91]) and (Odds ratio, 0.80 [95% confidence interval, 0.69–0.93]). However, our study has some limitations. Firstly, we only included a small number of studies. Secondly, the included studies did not control for past medical history, which may have confounded their results, and in turn, could have caused bias in our study. Thirdly, in this meta-analysis, the ALS patients were not subdivided into sporadic or familial type. Lastly, the studies also did not consider the types of NSAIDs and dosages used of each drug. For more convincing evidence regarding the effectiveness of aspirin, NA-NSAIDs and acetaminophen to reduce the risk of ALS occurrence, more qualified prospective studies are required. In conclusion, the use of NA-NSAIDs and acetaminophen is associated with a decreased risk for the development of ALS. In contrast, aspirin did not have any effect on the reduction of the risk of ALS occurrence.
Seasonal variability of net sea-air CO2 fluxes in a coastal region of the northern Antarctic Peninsula
Authors: Monteiro Thiago , Kerr Rodrigo , Machado Eunice da Costa
Published: September 2020

We show an annual overview of the sea-air CO2 exchanges and primary drivers in the Gerlache Strait, a hotspot for climate change that is ecologically important in the northern Antarctic Peninsula. In autumn and winter, episodic upwelling events increase the remineralized carbon in the sea surface, leading the region to act as a moderate or strong CO2 source to the atmosphere of up to 40 mmol m–2 day–1. During summer and late spring, photosynthesis decreases the CO2 partial pressure in the surface seawater, enhancing ocean CO2 uptake, which reaches values higher than − 40 mmol m–2 day–1. Thus, autumn/winter CO2 outgassing is nearly balanced by an only 4-month period of intense ocean CO2 ingassing during summer/spring. Hence, the estimated annual net sea-air CO2 flux from 2002 to 2017 was 1.24 ± 4.33 mmol m–2 day–1, opposing the common CO2 sink behaviour observed in other coastal regions around Antarctica. The main drivers of changes in the surface CO2 system in this region were total dissolved inorganic carbon and total alkalinity, revealing dominant influences of both physical and biological processes. These findings demonstrate the importance of Antarctica coastal zones as summer carbon sinks and emphasize the need to better understand local/regional seasonal sensitivity to the net CO2 flux effect on the Southern Ocean carbon cycle, especially considering the impacts caused by climate change.
Surface-plasmon-coupled optical force sensors based on metal–insulator–metal metamaterials with movable air gap
Authors: Okatani Taiyu , Sekiguchi Shota , Hane Kazuhiro , Kanamori Yoshiaki
Published: September 2020

We proposed surface-plasmon-coupled optical force sensors based on metal–insulator–metal (MIM) metamaterials with a movable air gap as an insulator layer. The MIM metamaterial was composed of an air gap sandwiched by a metal nanodot array and a metal diaphragm, the resonant wavelength of which was red-shifted when the air gap was narrowed by applying a normal force. We designed and fabricated a prototype of the proposed sensor and confirmed that the MIM metamaterial could be used as a force sensor with larger sensitivity than a force sensor based on Fabry-Pérot interferometer (FPI).
Greenbug (Schizaphis graminum) herbivory significantly impacts protein and phosphorylation abundance in switchgrass (Panicum virgatum)
Authors: Zogli Prince , Alvarez Sophie , Naldrett Michael J. , Palmer Nathan A. , Koch Kyle G. , Pingault Lise , Bradshaw Jeffrey D. , Twigg Paul , Heng-Moss Tiffany M. , Louis Joe , Sarath Gautam
Published: September 2020

Switchgrass (Panicum virgatum L.) is an important crop for biofuel production but it also serves as host for greenbugs (Schizaphis graminum Rondani; GB). Although transcriptomic studies have been done to infer the molecular mechanisms of plant defense against GB, little is known about the effect of GB infestation on the switchgrass protein expression and phosphorylation regulation. The global response of the switchgrass cultivar Summer proteome and phosphoproteome was monitored by label-free proteomics shotgun in GB-infested and uninfested control plants at 10 days post infestation. Peptides matching a total of 3,594 proteins were identified and 429 were differentially expressed proteins in GB-infested plants relative to uninfested control plants. Among these, 291 and 138 were up and downregulated by GB infestation, respectively. Phosphoproteome analysis identified 310 differentially phosphorylated proteins (DP) from 350 phosphopeptides with a total of 399 phosphorylated sites. These phosphopeptides had more serine phosphorylated residues (79%), compared to threonine phosphorylated sites (21%). Overall, KEGG pathway analysis revealed that GB feeding led to the enriched accumulation of proteins important for biosynthesis of plant defense secondary metabolites and repressed the accumulation of proteins involved in photosynthesis. Interestingly, defense modulators such as terpene synthase, papain-like cysteine protease, serine carboxypeptidase, and lipoxygenase2 were upregulated at the proteome level, corroborating previously published transcriptomic data.
An artificial cationic oligosaccharide combined with phosphorothioate linkages strongly improves siRNA stability
Authors: Irie Atsushi , Sato Kazuki , Hara Rintaro Iwata , Wada Takeshi , Shibasaki Futoshi
Published: September 2020

Small interfering RNAs (siRNAs) are potential tools for gene-silencing therapy, but their instability is one of the obstacles in the development of siRNA-based drugs. To improve siRNA stability, we synthesised a double-stranded RNA-binding cationic oligodiaminogalactose 4mer (ODAGal4) and investigated here its characteristics for siRNA stabilisation in vitro. ODAGal4 improved the resistance of various siRNAs against serum degradation. The effect of ODAGal4 on siRNA stabilisation was further amplified by introduction of modified nucleotides into the siRNA. In particular, a combination of ODAGal4 and incorporation of phosphorothioate linkages into the siRNA prominently prevented degradation by serum. The half-lives of fully phosphorothioate-modified RNA duplexes with ODAGal4 were more than 15 times longer than those of unmodified siRNAs without ODAGal4; this improvement in serum stability was superior to that observed for other chemical modifications. Serum degradation assays of RNAs with multiple chemical modifications showed that ODAGal4 preferentially improves the stability of RNAs with phosphorothioate modification among chemical modifications. Furthermore, melting temperature analysis showed that ODAGal4 greatly increases the thermal stability of phosphorothioate RNAs. Importantly, ODAGal4 did not interrupt gene-silencing activity of all the RNAs tested. Collectively, these findings demonstrate that ODAGal4 is a potent stabiliser of siRNAs, particularly nucleotides with phosphorothioate linkages, representing a promising tool in the development of gene-silencing therapies.
Global, regional, and national burden and trend of diabetes in 195 countries and territories: an analysis from 1990 to 2025
Authors: Lin Xiling , Xu Yufeng , Pan Xiaowen , Xu Jingya , Ding Yue , Sun Xue , Song Xiaoxiao , Ren Yuezhong , Shan Peng-Fei
Published: September 2020

Diabetes mellitus is a leading cause of mortality and reduced life expectancy. We aim to estimate the burden of diabetes by type, year, regions, and socioeconomic status in 195 countries and territories over the past 28 years, which provide information to achieve the goal of World Health Organization Global Action Plan for the Prevention and Control of Noncommunicable Diseases in 2025. Data were obtained from the Global Burden of Disease Study 2017. Overall, the global burden of diabetes had increased significantly since 1990. Both the trend and magnitude of diabetes related diseases burden varied substantially across regions and countries. In 2017, global incidence, prevalence, death, and disability-adjusted life-years (DALYs) associated with diabetes were 22.9 million, 476.0 million, 1.37 million, and 67.9 million, with a projection to 26.6 million, 570.9 million, 1.59 million, and 79.3 million in 2025, respectively. The trend of global type 2 diabetes burden was similar to that of total diabetes (including type 1 diabetes and type 2 diabetes), while global age-standardized rate of mortality and DALYs for type 1 diabetes declined. Globally, metabolic risks (high BMI) and behavioral factors (inappropriate diet, smoking, and low physical activity) contributed the most attributable death and DALYs of diabetes. These estimations could be useful in policy-making, priority setting, and resource allocation in diabetes prevention and treatment.
The future of endangered crayfish in light of protected areas and habitat fragmentation
Authors: Pârvulescu Lucian , Iorgu Elena-Iulia , Zaharia Claudia , Ion Mihaela C. , Satmari Alina , Krapal Ana-Maria , Popa Oana-Paula , Miok Kristian , Petrescu Iorgu , Popa Luis-Ovidiu
Published: September 2020

The long-term survival of a species requires, among other things, gene flow between populations. Approaches for the evaluation of fragmentation in the frame of freshwater habitats consider only a small amount of the information that combined demography and geography are currently able to provide. This study addresses two species ofAustropotamobiuscrayfish in the light of population genetics, spatial ecology and protected areas of the Carpathians. Advancing the classical approaches, we defined ecological distances upon the rasterised river network as a surrogate of habitat resistance to migration, quantifying the deviations from the species´ suitability range for a set of relevant geospatial variables in each cell of the network. Molecular analyses revealed the populations of the twoAustropotamobiuscrayfish species are clearly distinct, lacking hybridisation. Comparing pairs of populations, we found, in some cases, a strong disagreement regarding genetic and ecological distances, potentially due to human-mediated translocations or the geophysical phenomena of regressive erosion, which may have led to unexpected colonisation routes. Protected areas were found to offer appropriate local habitat conditions but failed to ensure connectivity. The methodology applied in this study allowed us to quantify the contribution of each geospatial (environmental) variable to the overall effect of fragmentation, and we found that water quality was the most important variable. A multilevel approach proved to reveal a better understanding of drivers behind the distribution patterns, which can lead to more adequate conservation measures.
Automated detection of cribriform growth patterns in prostate histology images
Authors: Ambrosini Pierre , Hollemans Eva , Kweldam Charlotte F. , Leenders Geert J. L. H. van , Stallinga Sjoerd , Vos Frans
Published: September 2020

Cribriform growth patterns in prostate carcinoma are associated with poor prognosis. We aimed to introduce a deep learning method to detect such patterns automatically. To do so, convolutional neural network was trained to detect cribriform growth patterns on 128 prostate needle biopsies. Ensemble learning taking into account other tumor growth patterns during training was used to cope with heterogeneous and limited tumor tissue occurrences. ROC and FROC analyses were applied to assess network performance regarding detection of biopsies harboring cribriform growth pattern. The ROC analysis yielded a mean area under the curve up to 0.81. FROC analysis demonstrated a sensitivity of 0.9 for regions larger than $${0.0150}\,\hbox {mm}^{2}$$

0.0150

mm
2

with on average 7.5 false positives. To benchmark method performance for intra-observer annotation variability, false positive and negative detections were re-evaluated by the pathologists. Pathologists considered 9% of the false positive regions as cribriform, and 11% as possibly cribriform; 44% of the false negative regions were not annotated as cribriform. As a final experiment, the network was also applied on a dataset of 60 biopsy regions annotated by 23 pathologists. With the cut-off reaching highest sensitivity, all images annotated as cribriform by at least 7/23 of the pathologists, were all detected as cribriform by the network and 9/60 of the images were detected as cribriform whereas no pathologist labelled them as such. In conclusion, the proposed deep learning method has high sensitivity for detecting cribriform growth patterns at the expense of a limited number of false positives. It can detect cribriform regions that are labelled as such by at least a minority of pathologists. Therefore, it could assist clinical decision making by suggesting suspicious regions.
Light and water treatment during the early grain filling stage regulates yield and aroma formation in aromatic rice
Authors: Li Yuzhan , Liang Luxin , Fu Xiaomeng , Gao Zifeng , Liu Hecheng , Tan Jiangtao , Potcho Mouloumdema Pouwedeou , Pan Shenggang , Tian Hua , Duan Meiyang , Tang Xiangru , Mo Zhaowen
Published: September 2020

The effect of light and water on aromatic rice remain largely unclear. A pot experiment was conducted to investigate the influences of light-water treatments (CK: natural light and well-watered conditions, WS: natural light and water-stressed conditions, LL: low light and well-watered conditions, LL-WS: low light and water-stressed treatment) on yield and 2-acetyl-1-pyrroline (2AP) formation in aromatic rice. Compared with CK, the light-water treatments decreased grain yield (10.32–39.19%) due to reductions in the filled grain percentage and total dry weight, in the regulation of biomass distribution, and in the attributes of gas exchange and antioxidant response parameters. The 2AP content in grains increased in the LL treatment (5.08–16.32%) but decreased in the WS treatment compared with that in CK. The changes in 2AP were associated with changes in 2AP formation-related traits and element content. Low light and water stress led to yield declines in aromatic rice, but low light alleviated the decrease in 2AP content caused by water stress.
The diel pattern in harbour porpoise clicking behaviour is not a response to prey activity
Authors: Osiecka Anna N. , Jones Owen , Wahlberg Magnus
Published: September 2020

Wild harbour porpoises (Phocoena phocoena) mainly forage during the night and, because they rely on echolocation to detect their prey, this is also when they are most acoustically active. It has been hypothesised that this activity pattern is a response to the diel behaviour of their major prey species. To test this hypothesis, we monitored the acoustic activity of two captive harbour porpoises held in a net pen continuously during a full year and fed by their human keepers during daylight hours, thus removing the influence of prey activity. The porpoises were exposed to similar temperature and ambient light conditions as free-ranging animals living in the same region. Throughout the year, there was a pronounced diel pattern in acoustic activity of the porpoises, with significantly greater activity at night, and a clear peak around sunrise and sunset throughout the year. Clicking activity was not dependent on lunar illumination or water level. Because the porpoises in the pen are fed and trained during daylight hours, the results indicate that factors other than fish behaviour are strongly influencing the diel clicking behaviour pattern of the species.
Paddy fields located in water storage zones could take over the wetland plant community
Authors: Osawa Takeshi , Nishida Takaaki , Oka Takashi
Published: September 2020

Land use change could affect not only local species richness but also community assemblies. Essentially, the possible patterns of plant community assemblies are nonrandom species loss (nestedness) and species turnover. Plant community assemblies in human-mediated land use have a combination of both nestedness and turnover. This is because of historical effects that cause nonrandom species loss due to previous and/or original habitat quality and because of direct effects of human activities that cause species turnover. We investigated the complexity of the process of plant community assemblage in a paddy field, which is a typical agricultural land use in the monsoon season in central Japan. Using multi-temporal plant monitoring records, we tested the relationship between the ratio of species nestedness/turnover through multi-temporal and both the original habitat conditions and the extent of human modification. The findings revealed that paddy fields that originated from wetland habitat had a high nestedness ratio, whereas paddy fields that were largely consolidated had a high turnover ratio. Thus, we could divide the community assembly processes in human-mediated land use based on original habitat conditions and human activities. This concept could help land managers establish conservation and/or restoration plans that take into account community assembly.
An improved microwave assisted sequential extraction method followed by spectrometric analysis for metal distribution determination in South African coal samples
Authors: Mketo Nomvano , Nomngongo Philiswa N.
Published: September 2020

Some metal pollutants are corrosive in nature, are associated with fouling and slagging challenges of the coal boilers, are highly volatile and might cause air pollution and are catalyst poisoners during Fischer–Tropsch catalytic reaction. Therefore, this work describes an improved microwave-assisted sequential extraction (MW-ASE) method followed by ICP-OES/MS analysis for metal distribution determination in South African coal samples. The multivariate optimum conditions for each sequential step were 0.1 g, 200 °C and 5 min for sample amount, microwave temperature and extraction time, respectively. Under the optimum conditions, Ga, Sr and Ba were the only metals that showed solubility towards water, therefore, these metals are classified as highly mobile and eco-toxic under wet environmental conditions. Additionally, all the investigated metals showed solubility towards acidic conditions (HCl and HNO3). These results suggest that, most metal ions are predominantly bonded to sulphate, sulphide, and carbonate coal minerals. Alternatively, Ce, Cr and Y showed total extraction recoveries of ≤ 90%, confirming their strong affinity towards quartz coal minerals. In overall, the proposed MW-ASE method reported short extraction time (0.34 h), environmentally friendly reagents (H2O and diluted H2O2) and rapid multivariate optimization with acceptable extraction efficiencies (79–98%) and reproducibility (RSD ≤ 5%).
Deposits from evaporating emulsion drops
Authors: Bittermann M. R. , Deblais A. , Lépinay S. , Bonn D. , Shahidzadeh N.
Published: September 2020

The processes in which droplets evaporate from solid surfaces, leaving behind distinct deposition patterns, have been studied extensively for variety of solutions. In this work, by combining different microscopy techniques (confocal fluorescence, video and Raman) we investigate pattern formation and evaporation-induced phase change in drying oil-in-water emulsion drops. This combination of techniques allows us to perform drop shape analysis while visualizing the internal emulsion structure simultaneously. We observe that drying of the continuous water phase of emulsion drops on hydrophilic surfaces favors the formation of ring-like zones depleted of oil droplets at the contact line, which originate from geometrical confinement of oil droplets by the meniscus. From such a depletion zone, a “coffee ring” composed of surfactant molecules forms as the water evaporates. On all surfaces drying induces emulsion destabilization by coalescence of oil droplets, commencing at the drop periphery. For hydrophobic surfaces, the coalescence of the oil droplets leads to a uniform oil film spreading out from the initial contact line. The evaporation dynamics of these composite drops indicate that the water in the continuous phase of the emulsion drops evaporates predominantly by diffusion through the vapor, showing no large differences to the evaporation of simple water drops.
The enhanced activity of Pt–Ce nanoalloy for oxygen electroreduction
Authors: Qin Juan , Zhang Yafeng , Leng Deying , Yin Feng
Published: September 2020

The widespread use of low-temperature polymer electrolyte membrane fuel cells for clean energy source require significant reductions in the amount of expensive electrocatalyst Pt for the oxygen reduction reaction (ORR). Pt based binary alloys are promising materials for more active and stable electrocatalysts. In this paper, we studied Pt–Ce nanoalloy, which was prepared by hydrogen reduction techniques as ORR electrocatalysts. Among all PtCe alloy catalysts, the PtCe/C-800 ℃ shows superior ORR activity, stability and durability compared to commercial Pt/C. The results presented in this paper will provide the future perspectives to research based on Pt-RE (RE = Ce, Dy, Gd, Er, Sm, and La) alloy as an novel electrocatalyst for various electrocatalytic reactions.
Foveated near-eye display using computational holography
Authors: Cem Ali , Hedili M. Kivanc , Ulusoy Erdem , Urey Hakan
Published: September 2020

Holographic display is the only technology that can offer true 3D with all the required depth cues. Holographic head-worn displays (HWD) can provide continuous depth planes with the correct stereoscopic disparity for a comfortable 3D experience. Existing HWD approaches have small field-of-view (FOV) and small exit pupil size, which are limited by the spatial light modulator (SLM). Conventional holographic HWDs are limited to about 20° × 11° FOV using a 4 K SLM panel and have fixed FOV. We present a new optical architecture that can overcome those limitations and substantially extend the FOV supported by the SLM. Our architecture, which does not contain any moving parts, automatically follows the gaze of the viewer’s pupil. Moreover, it mimics human vision by providing varying resolution across the FOV resulting in better utilization of the available space-bandwidth product of the SLM. We propose a system that can provide 28° × 28° instantaneous FOV within an extended FOV (the field of view that is covered by steering the instantaneous FOV in space) of 60° × 40° using a 4 K SLM, effectively providing a total enhancement of > 3 × in instantaneous FOV area, > 10 × in extended FOV area and the space-bandwidth product. We demonstrated 20° × 20° instantaneous FOV and 40° × 20° extended FOV in the experiments.
Humoral immune response and delayed-type hypersensitivity in rabbits infected with Trypanosoma equiperdum
Authors: Di Febo Tiziana , Krasteva Ivanka , Bonfini Barbara , Tittarelli Manuela , Matteucci Osvaldo , Orsini Gianluca , Rossi Emanuela , Podaliri Vulpiani Michele , Rodomonti Diamante , Iannetti Luigi , Luciani Mirella
Published: September 2020

Trypanosoma equiperdum is the causative agent of dourine, a parasitic venereal disease of equids. In this work, rabbits were infected with T. equiperdum strain OVI; serological tests (complement fixation test, ELISA and immunoblotting), used for the diagnosis of dourine in horses, were applied to study rabbit humoral immune response and to characterise T. equiperdum antigen pattern recognised by antibodies from infected rabbits. Moreover a protein extract of T. equiperdum strain OVI was produced and tested in skin tests on infected rabbits to detect the cell-mediated response induced by T. equiperdum, in order to evaluate its use in the field diagnosis of dourine. Sera of infected rabbits recognized in immunoblotting Trypanosoma protein bands with molecular weight below 37 kDa, providing a serological response comparable with that already observed in dourine infected horses. Moreover the trypanosome protein extract was capable to produce in vivo delayed-type hypersensitivity (DHT Type IV) in rabbits and proved itself to be non-toxic and non-sensitizing.