bluuebunny/crossref_metadata_2025 huggingface dataset:
Combined application of selected heavy metals and EDTA reduced the growth of Petunia hybrida L.
Authors: Khan Aqib Hassan Ali , Butt Tayyab Ashfaq , Mirza Cyrus Raza , Yousaf Sohail , Nawaz Ismat , Iqbal Mazhar
Published: March 2019

Up till now, despite of well-developed ornamental market, very little information is available on Petunia hybrida L. tolerance against heavy metals (HMs), which can contribute in both beautification of urban dwellings, as well as potential in phytoremediation. Therefore, hydroponic study was conducted to check the effects of Cd, Cr, Cu, Ni and Pb individually (50 and 100 μM) and with co-application of EDTA (2.5 mM) in Hoagland’s nutrient solution. Results indicated higher uptake of Cd, Cr, Ni and Pb in above ground parts, and Cu in roots, further the co-application of EDTA enhanced HMs uptake in P. hybrida L. This uptake accompanied changes in biochemical stress indicators, included significantly higher MDA, H2O2 contents and electrolyte leakage with reduced chlorophyll a, chlorophyll b, total chlorophyll and carotenoid content. Upon exposure to HMs increased antioxidant enzyme activities (CAT, POX, GST, APX, and SOD) were noted. Though selected HMs can be removed by using P. hybrida L., the findings of current study indicated that the direct exposure of P. hybrida L. to Cd, Cr, Cu, Ni and Pb damaged the plant’s aesthetics, and to use P. hybrida L. for beautification of urban landscape or phytoremediation, appropriate soil modification should be included.
The In Vitro Biotransformation of the Fusion Protein Tetranectin-Apolipoprotein A1
Authors: Schadt Simone , Husser Christophe , Staack Roland F. , Ekiciler Aynur , Qiu Na Hong , Fowler Stephen , Funk Christoph , Kratochwil Nicole A.
Published: March 2019

As more and more protein biotherapeutics enter the drug discovery pipelines, there is an increasing interest in tools for mechanistic drug metabolism investigations of biologics in order to identify and prioritize the most promising candidates. Understanding or even predicting the in vivo clearance of biologics and to support translational pharmacokinetic modeling activities is essential, however there is a lack of effective and validated in vitro cellular tools. Although different mechanisms have to be adressed in the context of biologics disposition, the scope is not comparable to the nowadays widely established tools for early characterization of small molecule disposition. Here, we describe a biotransformation study of the fusion protein tetranectin apolipoprotein A1 by cellular systems. The in vivo biotransformation of tetranectin apolipoprotein A1 has been described previously, and the same major biotransformation product could also be detected in vitro, by a targeted and highly sensitive detection method based on chymotrypsin digest. In addition, the protease responsible for the formation of this biotransformation product could be elucidated to be DPP4. To our knowledge, this is one of the first reports of an in vitro biotransformation study by cells of a therapeutic protein.
Signs of biological activities of 28,000-year-old mammoth nuclei in mouse oocytes visualized by live-cell imaging
Authors: Yamagata Kazuo , Nagai Kouhei , Miyamoto Hiroshi , Anzai Masayuki , Kato Hiromi , Miyamoto Kei , Kurosaka Satoshi , Azuma Rika , Kolodeznikov Igor I. , Protopopov Albert V. , Plotnikov Valerii V. , Kobayashi Hisato , Kawahara-Miki Ryouka , Kono Tomohiro , Uchida Masao , Shibata Yasuyuki , Handa Tetsuya , Kimura Hiroshi , Hosoi Yoshihiko , Mitani Tasuku , Matsumoto Kazuya , Iritani Akira
Published: March 2019

The 28,000-year-old remains of a woolly mammoth, named ‘Yuka’, were found in Siberian permafrost. Here we recovered the less-damaged nucleus-like structures from the remains and visualised their dynamics in living mouse oocytes after nuclear transfer. Proteomic analyses demonstrated the presence of nuclear components in the remains. Nucleus-like structures found in the tissue homogenate were histone- and lamin-positive by immunostaining. In the reconstructed oocytes, the mammoth nuclei showed the spindle assembly, histone incorporation and partial nuclear formation; however, the full activation of nuclei for cleavage was not confirmed. DNA damage levels, which varied among the nuclei, were comparable to those of frozen-thawed mouse sperm and were reduced in some reconstructed oocytes. Our work provides a platform to evaluate the biological activities of nuclei in extinct animal species.
Cortical-like mini-columns of neuronal cells on zinc oxide nanowire surfaces
Authors: Onesto V. , Villani M. , Narducci R. , Malara N. , Imbrogno A. , Allione M. , Costa N. , Coppedè N. , Zappettini A. , Cannistraci C. V. , Cancedda L. , Amato F. , Di Fabrizio Enzo , Gentile F.
Published: March 2019

A long-standing goal of neuroscience is a theory that explains the formation of the minicolumns in the cerebral cortex. Minicolumns are the elementary computational units of the mature neocortex. Here, we use zinc oxide nanowires with controlled topography as substrates for neural-cell growth. We observe that neuronal cells form networks where the networks characteristics exhibit a high sensitivity to the topography of the nanowires. For certain values of nanowires density and fractal dimension, neuronal networks express small world attributes, with enhanced information flows. We observe that neurons in these networks congregate in superclusters of approximately 200 neurons. We demonstrate that this number is not coincidental: the maximum number of cells in a supercluster is limited by the competition between the binding energy between cells, adhesion to the substrate, and the kinetic energy of the system. Since cortical minicolumns have similar size, similar anatomical and topological characteristics of neuronal superclusters on nanowires surfaces, we conjecture that the formation of cortical minicolumns is likewise guided by the interplay between energy minimization, information optimization and topology. For the first time, we provide a clear account of the mechanisms of formation of the minicolumns in the brain.
Consistent bacterial selection by date palm root system across heterogeneous desert oasis agroecosystems
Authors: Mosqueira Maria J. , Marasco Ramona , Fusi Marco , Michoud Grégoire , Merlino Giuseppe , Cherif Ameur , Daffonchio Daniele
Published: March 2019

Highly productive conventional agroecosystems are spatially embedded in resource-homogeneous systems and count on generally nutrient-rich soils. On the contrary, desert oases are isolated, the soil is relatively poor, but yet productivity is similar to conventional agroecosystems. Soil dominates over plant as the main factor shaping root-associated microbiomes in conventional agroecosystems. We hypothesize that in desert oasis, the environmental discontinuity, the resource paucity and limited microbial diversity of the soil make the plant a prevailing factor. We have examined the bacterial communities in the root system of date palm (Phoenix dactylifera), the iconic keystone species of the oases, grown in heterogeneous soils across a broad geographic range (22,200 km2 surface area) of the Sahara Desert in Tunisia. We showed that, regardless of the edaphic conditions and geographic location, the plant invariably selects similar Gammaproteobacteria- and Alphaproteobacteria-dominated bacterial communities. The phylogeny, networking properties and predicted functionalities of the bacterial communities indicate that these two phyla are performing the ecological services of biopromotion and biofertilization. We conclude that in a desert agroecosystem, regardless of the soil microbial diversity baseline, the plant, rather than soil type, is responsible of the bacterial community assembly in its root systems, reversing the pattern observed in conventional agroecosystem.
Size distributions of fractures, dykes, and eruptions on Etna, Italy: Implications for magma-chamber volume and eruption potential
Authors: Scudero Salvatore , De Guidi Giorgio , Gudmundsson Agust
Published: March 2019

The main magma source for eruptions on Etna (Italy) is poorly constrained. Here we use data on the size distributions of volcanic fissures/feeder-dykes, crater cones, dyke thicknesses, and lava flows to estimate the average magma volume flowing out of the chamber during eruptions and the volume of the chamber. For the past four centuries the average magma volume leaving the chamber during each eruption is estimated at 0.064 km3. From the theory of poroelasticity the estimated chamber volume is then between 69 and 206 km3. For comparison, a sill-like, circular chamber (an oblate ellipsoid) 1 km thick and 14 km in diameter would have a volume of about 154 km3. The elastic strain energy stored in the host rock during inflation of such a chamber is about 2.8 × 1014 J. Estimating the surface energy of a typical dyke-fracture as about 107 J m−2, the results suggest that the stored strain energy is sufficient to generate a dyke-fracture with an area of about 28 km2. The average strike-dimension of volcanic fissures/feeder-dykes in Etna is about 2.7 km. It follows that the estimated strain energy is sufficient to generate a feeder-dyke with a strike-dimension of 2–3 km and with a dip-dimension as great as 10 km, agreeing with the maximum estimated depth of the magma chamber.
Human melanoma brain metastases cell line MUG-Mel1, isolated clones and their detailed characterization
Authors: Heitzer Ellen , Groenewoud Arwin , Meditz Katharina , Lohberger Birgit , Liegl-Atzwanger Bernadette , Prokesch Andreas , Kashofer Karl , Behrens Diana , Haybaeck Johannes , Kolb-Lenz Dagmar , Koefeler Harald , Riedl Sabrina , Schaider Helmut , Fischer Carina , Snaar-Jagalska B. Ewa , de’Jong Danielle , Szuhai Karoly , Zweytick Dagmar , Rinner Beate
Published: March 2019

Melanoma is a leading cause of high mortality that frequently spreads to the brain and is associated with deterioration in quality and quantity of life. Treatment opportunities have been restricted until now and new therapy options are urgently required. Our focus was to reveal the potential heterogeneity of melanoma brain metastasis. We succeeded to establish a brain melanoma metastasis cell line, namely MUG-Mel1 and two resulting clones D5 and C8 by morphological variety, differences in lipidome, growth behavior, surface, and stem cell markers. Mutation analysis by next-generation sequencing, copy number profiling, and cytogenetics demonstrated the different genetic profile of MUG-Mel1 and clones. Tumorigenicity was unsuccessfully tested in various mouse systems and finally established in a zebra fish model. As innovative treatment option, with high potential to pass the blood-brain barrier a peptide isolated from lactoferricin was studied in potential toxicity. Brain metastases are a major clinical challenge, therefore the development of relevant in vitro and in vivo models derived from brain melanoma metastases provides valuable information about tumor biology and offers great potential to screen for new innovative therapies.
Dual-energy CT for automatic organs-at-risk segmentation in brain-tumor patients using a multi-atlas and deep-learning approach
Authors: van der Heyden Brent , Wohlfahrt Patrick , Eekers Daniëlle B. P. , Richter Christian , Terhaag Karin , Troost Esther G. C. , Verhaegen Frank
Published: March 2019

In radiotherapy, computed tomography (CT) datasets are mostly used for radiation treatment planning to achieve a high-conformal tumor coverage while optimally sparing healthy tissue surrounding the tumor, referred to as organs-at-risk (OARs). Based on CT scan and/or magnetic resonance images, OARs have to be manually delineated by clinicians, which is one of the most time-consuming tasks in the clinical workflow. Recent multi-atlas (MA) or deep-learning (DL) based methods aim to improve the clinical routine by an automatic segmentation of OARs on a CT dataset. However, so far no studies investigated the performance of these MA or DL methods on dual-energy CT (DECT) datasets, which have been shown to improve the image quality compared to conventional 120 kVp single-energy CT. In this study, the performance of an in-house developed MA and a DL method (two-step three-dimensional U-net) was quantitatively and qualitatively evaluated on various DECT-derived pseudo-monoenergetic CT datasets ranging from 40 keV to 170 keV. At lower energies, the MA method resulted in more accurate OAR segmentations. Both the qualitative and quantitative metric analysis showed that the DL approach often performed better than the MA method.
Cellulose production increases sorghum colonization and the pathogenic potential of Herbaspirillum rubrisubalbicans M1
Authors: Tuleski Thalita Regina , Baura Valter Antônio de , Donatti Lucélia , Pedrosa Fabio de Oliveira , Souza Emanuel Maltempi de , Monteiro Rose Adele
Published: March 2019

Three species of the β-Proteobacterial genus Herbaspirillum are able to fix nitrogen in endophytic associations with such important agricultural crops as maize, rice, sorghum, sugar-cane and wheat. In addition, Herbaspirillum rubrisubalbicans causes the mottled-stripe disease in susceptible sugar-cane cultivars as well as the red-stripe disease in some sorghum cultivars. The xylem of these cultivars exhibited a massive colonisation of mucus-producing bacteria leading to blocking the vessels. A cluster of eight genes (bcs) are involved in cellulose synthesis in Herbaspirillum rubrisubalbicans. Mutation of bcsZ, that encodes a 1,4-endoglucanase, impaired the exopolysaccharide production, the ability to form early biofilm and colonize sorghum when compared to the wild-type strain M1. This mutation also impaired the ability of Herbaspirillum rubrisubalbicans M1 to cause the red-stripe disease in Sorghum bicolor. We show cellulose synthesis is involved in the biofilm formation and as a consequence significantly modulates bacterial-plant interactions, indicating the importance of cellulose biosynthesis in this process.
Antibody and Memory B Cell Responses in Hepatitis E Recovered Individuals, 1–30 Years Post Hepatitis E Virus Infection
Authors: Kulkarni Shruti P. , Sharma Meenal , Tripathy Anuradha S.
Published: March 2019

Generation and persistence of anti-hepatitis E virus (HEV) antibodies are synonymous with the development of immunity and considered as correlates of protection against HEV infection. However, issues like longevity of immunological memory following recovery from hepatitis E still remains a puzzle. It is critical to understand whether anamnestic response exists for protection from HEV re-infection. The levels and persistence of anti-HEV antibodies were assessed in hepatitis E recovered individuals 1–30 years post HEV infection. The frequencies and functionality of recombinant HEV capsid protein (rORF2p)-stimulated memory B and T cells were also investigated 1–16 years post infection. Anti-HEV antibodies persisted in 91% of hepatitis E recovered individuals. HEV-specific memory B cell responses were detected in 95% of seropositive hepatitis E recovered individuals. CD4+ and CD8+ T cells displayed an effector memory cell phenotype in hepatitis E recovered individuals. In conclusion, long-lived anti-HEV antibodies and HEV-specific memory B cells are maintained for several years in hepatitis E recovered individuals. Involvement of CD4+ and CD8+ effector memory T cells is an important observation since it is inextricably linked to long-lasting protective immunity. In addition to anti-HEV antibodies, possible role of memory B cell response against HEV re-infection could also be considered.
TouchScreen-based phenotyping: altered stimulus/reward association and lower perseveration to gain a reward in mu opioid receptor knockout mice
Authors: Boulos Laura-Joy , Nasseef Md. Taufiq , McNicholas Michael , Mechling Anna , Harsan Laura Adela , Darcq Emmanuel , Ben Hamida Sami , Kieffer Brigitte Lina
Published: March 2019

While the contribution of Mu Opioid Receptors (MORs) to hedonic aspects of reward processing is well-established, the notion that these receptors may also regulate motivation to gain a reward, and possibly other related cognitive dimensions, has been less investigated. The prefrontal cortex (PFC) is a critical site for these processes. Our previous functional magnetic resonance imaging study found alterations of functional connectivity (FC) in reward/aversion networks in MOR knockout mice. Here we pursued voxelwise seed-based FC analyses using the same dataset with a focus on the PFC. We observed significant reduction of PFC FC in mutant mice, predominantly with the nucleus accumbens, supporting the notion of altered reward-driven top-down controls. We tested motivation for palatable food in a classical operant self-administration paradigm, and found delayed performance for mutant mice. We then evaluated motivational and cognitive abilities of MOR knockout mice in TouchScreen-based behavioral tests. Learning was delayed and stimulus/reward association was impaired, suggesting lower hedonic reward value and reduced motivation. Perseverative responses were decreased, while discriminatory behavior and attention were unchanged, indicative of increased inhibitory controls with otherwise intact cognitive performance. Together, our data suggest that MORs contribute to enhance reward-seeking and facilitate perseverative behaviors. The possibility that MOR blockade could reduce maladaptive compulsivity deserves further investigation in addiction and self-control disorder research.
Andrographolide binds to ATP-binding pocket of VEGFR2 to impede VEGFA-mediated tumor-angiogenesis
Authors: Kajal Kirti , Panda Abir K. , Bhat Jyotsna , Chakraborty Dwaipayan , Bose Sayantan , Bhattacharjee Pushpak , Sarkar Tania , Chatterjee Subhrangsu , Kar Santosh K. , Sa Gaurisankar
Published: March 2019

Vasculogenesis and angiogenesis are process of formation of blood vessels. Blood vessels are evolved to distribute nutrients and oxygen to distant organs. These vessels are crucial for growth and repair of wounded tissue. During tumor condition there occurs imbalance in the growth of blood vessels which leads to neo-angiogenesis. Neo-angiogenesis is major perpetrator behind the establishment of tumor. Tumor cells secrete pro-angiogenic factor VEGFA which binds to VEGFR2 present over surface of endothelial cells and triggers formation of new blood vessels. To inhibit tumor-angiogenesis, a physiologically-safe small molecule inhibitor was screened which can potentially interact with kinase domain of VEGFR2 and inhibit its activity. Molecular-docking module and biochemical analysis identified andrographolide as one of the best docking molecules that binds to ATP-binding pocket of VEGFR2 and inhibits its kinase activity. Thus, for a more radical approach towards safe VEGFR2 inhibitor, andrographolide was repurposed to inhibit tumor-angiogenesis and reduce tumor burden.
H727 cells are inherently resistant to the proteasome inhibitor carfilzomib, yet require proteasome activity for cell survival and growth
Authors: Lee Min Jae , Miller Zachary , Park Ji Eun , Bhattarai Deepak , Lee Wooin , Kim Kyung Bo
Published: March 2019

The second-in-class proteasome inhibitor (PI) carfilzomib (Kyprolis, Cfz) has contributed to a substantial advancement in multiple myeloma treatment by improving patient survival and quality of life. A considerable portion of patients however display intrinsic resistance to Cfz. Our mechanistic understanding of intrinsic Cfz resistance is limited due to a lack of suitable cell-based models. We report that H727 human bronchial carcinoid cells are inherently resistant to Cfz, yet susceptible to other PIs and inhibitors targeting upstream components of the ubiquitin-proteasome system (UPS). These results indicate that H727 cells remain dependent on the UPS for cell survival and growth despite harboring intrinsic resistance to Cfz. Alterations in the composition of proteasome catalytic subunits via interferon-γ treatment or siRNA knockdown results in sensitization of H727 cells to Cfz. We postulate that a potential link may exist between the composition of proteasome catalytic subunits and the cellular response to Cfz. Overall, H727 cells may serve as a useful cell-based model for de novo Cfz resistance and our results suggest previously unexplored mechanisms of de novo PI resistance.
Plasma-activated medium triggers cell death and the presentation of immune activating danger signals in melanoma and pancreatic cancer cells
Authors: Azzariti Amalia , Iacobazzi Rosa Maria , Di Fonte Roberta , Porcelli Letizia , Gristina Roberto , Favia Pietro , Fracassi Francesco , Trizio Ilaria , Silvestris Nicola , Guida Gabriella , Tommasi Stefania , Sardella Eloisa
Published: March 2019

Over the past decade, cold atmospheric plasmas have shown promising application in cancer therapy. The therapeutic use of plasma-activated media is a topic addressed in an emerging field known as plasma pharmacy. In oncology, plasma-activated media are  used to harness the therapeutic effects of oxidant species when they come in contact with cancer cells. Among several factors that contribute to the anticancer effect of plasma-activated liquid media (PALM), H2O2 and NO derivatives likely play a key role in the apoptotic pathway. Despite the significant amount of literature produced in recent years, a full understanding of the mechanisms by which PALM exert their activity against cancer cells is limited. In this paper, a sealed dielectric-barrier discharge was used to disentangle the effect of reactive nitrogen species (RNS) from that of reactive oxygen species (ROS) on cancer cells. Two cancers characterized by poor prognosis have been investigated: metastatic melanoma and pancreatic cancer. Both tumour models exposed to PALM rich in H2O2 showed a reduction in proliferation and an increase in calreticulin exposure and ATP release, suggesting the potential use of activated media as an inducer of immunogenic cell death via activation of the innate immune system.
Topological edge states in high-temperature superconductiving FeSe/SrTiO3 films with Te substitution
Authors: Chen Li , Liu Hongmei , Jiang Chuan , Shi Changmin , Wang Dongchao , Cui Guangliang , Li Xiaolong , Zhuang Qiandong
Published: March 2019

Using first principles theory, we investigated the behavior of the one-dimensional (1D) topological edge states of high temperature superconductiviing FeSe/SrTiO3 films with Te atoms substitution to Se atoms in the bottom (top) layer in single-layer FeSe, as a function of strain. It was discovered that the 1D topological edge states are present in single-unit-cell FeSe film on SrTiO3, but are absent when more than 50% Se atoms are replaced by Te atoms. Stress induced displacive phase transformation exists in FeSe/SrTiO3 film when Te atoms substitute Se atoms in the bottom (top) layer in single-layer FeSe under 3% strain respectively. The 1D topological edge states are present under 3% (1.8%) strain in FeSe/SrTiO3 films with Te substitution Se in the bottom (top) layer in single-layer FeSe, even up to 5%, respectively. This indicates that the bonding angle of Se-Fe-Se (Te) and the distance of Te (or Se) atoms to the Fe plane are correlated with the topological edge states. Our findings provide an effective interface system that provides both superconducting and topological states, opening a new route for realizing 2D topological superconductors with proximity effect.
Diffusion-based tractography atlas of the human acoustic radiation
Authors: Maffei Chiara , Sarubbo Silvio , Jovicich Jorge
Published: March 2019

Diffusion MRI tractography allows in-vivo characterization of white matter architecture, including the localization and description of brain fibre bundles. However, some primary bundles are still only partially reconstructed, or not reconstructed at all. The acoustic radiation (AR) represents a primary sensory pathway that has been largely omitted in many tractography studies because its location and anatomical features make it challenging to reconstruct. In this study, we investigated the effects of acquisition and tractography parameters on the AR reconstruction using publicly available Human Connectome Project data. The aims of this study are: (i) using a subgroup of subjects and a reference AR for each subject, define an optimum set of parameters for AR reconstruction, and (ii) use the optimum parameters set on the full group to build a tractography-based atlas of the AR. Starting from the same data, the use of different acquisition and tractography parameters lead to very different AR reconstructions. Optimal results in terms of topographical accuracy and correspondence to the reference were obtained for probabilistic tractography, high b-values and default tractography parameters: these parameters were used to build an AR probabilistic tractography atlas. A significant left-hemispheric lateralization was found in the AR reconstruction of the 34 subjects.
Flavobacterium petrolei sp. nov., a novel psychrophilic, diesel-degrading bacterium isolated from oil-contaminated Arctic soil
Authors: Chaudhary Dhiraj Kumar , Kim Dong-Uk , Kim Dockyu , Kim Jaisoo
Published: March 2019

This study presents taxonomic description of two novel diesel-degrading, psychrophilic strains: Kopri-42T and Kopri-43, isolated during screening of oil-degrading psychrotrophs from oil-contaminated Arctic soil. A preliminary 16S rRNA gene sequence and phylogenetic tree analysis indicated that these Arctic strains belonged to the genus Flavobacterium, with the nearest relative being Flavobacterium psychrolimnae LMG 22018T (98.9% sequence similarity). The pairwise 16S rRNA gene sequence identity between strains Kopri-42T and Kopri-43 was 99.7%. The DNA-DNA hybridization value between strain Kopri-42T and Kopri-43 was 88.6 ± 2.1% indicating that Kopri-42T and Kopri-43 represents two strains of the same genomospecies. The average nucleotide identity and in silico DNA-DNA hybridization values between strain Kopri-42T and nearest relative F. psychrolimnae LMG 22018T were 92.4% and 47.9%, respectively. These values support the authenticity of the novel species and confirmed the strain Kopri-42T belonged to the genus Flavobacterium as a new member. The morphological, physiological, biochemical and chemotaxonomic data also distinguished strain Kopri-42T from its closest phylogenetic neighbors. Based on the polyphasic data, strains Kopri-42T and Kopri-43 represents a single novel species of the genus Flavobacterium, for which the name Flavobacterium petrolei sp. nov. is proposed. The type strain is Kopri-42T (=KEMB 9005-710T = KACC 19625T = NBRC 113374T).
Confidence Predictions Affect Performance Confidence and Neural Preparation in Perceptual Decision Making
Authors: Boldt Annika , Schiffer Anne-Marike , Waszak Florian , Yeung Nick
Published: March 2019

Decisions are usually accompanied by a feeling of being wrong or right – a subjective confidence estimate. But what information is this confidence estimate based on, and what is confidence used for? To answer these questions, research has largely focused on confidence regarding current or past decisions, for example identifying how characteristics of the stimulus affect confidence, how confidence can be used as an internally generated feedback signal, and how communicating confidence can affect group decisions. Here, we report two studies which implemented a novel metacognitive measure: predictions of confidence for future perceptual decisions. Using computational modeling of behaviour and EEG, we established that experience-based confidence predictions are one source of information that affects how confident we are in future decision-making, and that learned confidence-expectations affect neural preparation for future decisions. Results from both studies show that participants develop precise confidence predictions informed by past confidence experience. Notably, our results also show that confidence predictions affect performance confidence rated after a decision is made; this finding supports the proposal that confidence judgments are based on multiple sources of information, including expectations. We found strong support for this link in neural correlates of stimulus preparation and processing. EEG measures of preparatory neural activity (contingent negative variation; CNV) and evidence accumulation (centro-parietal positivity; CPP) show that predicted confidence affects neural preparation for stimulus processing, supporting the proposal that one purpose of confidence judgments may be to learn about performance for future encounters and prepare accordingly.
Observation of magnetic skyrmions in unpatterned symmetric multilayers at room temperature and zero magnetic field
Authors: Brandão J. , Dugato D. A. , Seeger R. L. , Denardin J. C. , Mori T. J. A. , Cezar J. C.
Published: March 2019

Magnetic skyrmions are promising candidates for the next generation of spintronic devices due to their small size and topologically protected structure. One challenge for using these magnetic states in applications lies on controlling the nucleation process and stabilization that usually requires an external force. Here, we report on the evidence of skyrmions in unpatterned symmetric Pd/Co/Pd multilayers at room temperature without prior application of neither electric current nor magnetic field. Decreasing the ferromagnetic interlayer thickness, the tuning of the physical properties across the ferromagnetic/non-magnetic interface gives rise to a transition from worm like domains patterns to isolated skyrmions as demonstrated by magnetic force microscopy. On the direct comparison of the measured and simulated skyrmions size, the interfacial Dzyaloshinskii-Moriya interaction (iDMI) was estimated, reveling that isolated skyrmions are just stabilized at zero magnetic field taking into account non-null values of iDMI. Our findings provide new insights towards the use of stabilized skyrmions for room temperature devices in nominally symmetric multilayers.
Coordination-induced emission enhancement in gold-nanoclusters with solid-state quantum yields up to 40% for eco-friendly, low-reabsorption nano-phosphors
Authors: Huang Hsiu-Ying , Cai Kun-Bin , Talite Maria Jessabel , Chou Wu-Ching , Chen Po-Wen , Yuan Chi-Tsu
Published: March 2019

Colloidal quantum dots (CQDs) have gained much attention as light-emitting materials for light-conversion nano-phosphors and luminescent solar concentrators. Unfortunately, those CQDs involve toxic heavy metals and frequently need to be synthesized in the hazardous organic solvent. In addition, they suffer from severe solid-state aggregation-induced self-quenching and reabsorption losses. To address these issues, here we prepare Zn-coordinated glutathione-stabilized gold-nanocluster (Zn-GSH-AuNCs) assemblies without involving heavy metals and organic solvent. Unlike GSH-AuNCs dispersed in an aqueous solution with poor photoluminescence quantum yields (PL-QYs, typically ~1%), those Zn-GSH-AuNCs powders hold high solid-state PL-QYs up to 40 ± 5% in the aggregated state. Such Zn-induced coordination-enhanced emission (CEE) is attributed to the combined effects of suppressed non-radiative relaxation and enhanced charge-transfer interaction. In addition, they also exhibit a large Stokes shift, thus mitigating both aggregation-induced self-quenching and reabsorption losses. Motivated by these photophysical properties, we demonstrated white-light emission from all non-toxic, aqueous-synthesis nano-materials.
Cognitive impairment in an animal model of multiple sclerosis and its amelioration by glatiramer acetate
Authors: Aharoni Rina , Schottlender Nofar , Bar-Lev Dekel D. , Eilam Raya , Sela Michael , Tsoory Michael , Arnon Ruth
Published: March 2019

The severe motor impairment in the MS animal model experimental autoimmune encephalomyelitis (EAE) obstructs the assessment of cognitive functions. We developed an experimental system that evaluates memory faculties in EAE-affected mice, irrespective of their motor performance, enabling the assessment of cognitive impairments along the disease duration, the associated brain damage, and the consequences of glatiramer acetate (GA) treatment on these manifestations. The delayed-non-matching to sample (DNMS) T-maze task, testing working and long term memory was adapted and utilized. Following the appearance of clinical manifestations task performances of the EAE-untreated mice drastically declined. Cognitive impairments were associated with disease severity, as indicated by a significant correlation between the T-maze performance and the clinical symptoms in EAE-untreated mice. GA-treatment conserved cognitive functions, so that despite their exhibited mild motor impairments, the treated mice performed similarly to naïve controls. The cognitive deficit of EAE-mice coincided with inflammatory and neurodegenerative damage to the frontal cortex and the hippocampus; these damages were alleviated by GA-treatment. These combined findings indicate that in addition to motor impairment, EAE leads to substantial impairment of cognitive functions, starting at the early stages and increasing with disease aggravation. GA-treatment, conserves cognitive capacities and prevents its disease related deterioration.
A mathematical model to estimate the seasonal change in apparent longevity of bee colony
Authors: Yamada Yasuhiro , Yamada Toshiro , Yamada Kazuko
Published: March 2019

The longevity of a honeybee colony is far more significant than the lifespan of an individual honeybee, a social insect. The longevity of a honeybee colony is integral to the fate of the colony. We have proposed a new mathematical model to estimate the apparent longevity defined in the upper limit of an integral equation. The apparent longevity can be determined only from the numbers of adult bees and capped brood. By applying the mathematical model to a honeybee colony in Japan, seasonal changes in apparent longevity were estimated in three long-term field experiments. Three apparent longevities showed very similar season-changes to one another, increasing from early autumn, reaching a maximum at the end of overwintering and falling approximately plumb down after overwintering. The influence of measurement errors in the numbers of adult bees and capped brood on the apparent longevity was investigated.
Specific elastin degradation products are associated with poor outcome in the ECLIPSE COPD cohort
Authors: Rønnow Sarah Rank , Langholm Lasse Løcke , Sand Jannie Marie Bülow , Thorlacius-Ussing Jeppe , Leeming Diana Julie , Manon-Jensen Tina , Tal-Singer Ruth , Miller Bruce E. , Karsdal Morten Asser , Vestbo Jørgen
Published: March 2019

Chronic obstructive pulmonary disease (COPD) is characterized by a slow heterogeneous progression. Therefore, improved biomarkers that can accurately identify patients with the highest likelihood of progression and therefore the ability to benefit from a given treatment, are needed. Elastin is an essential structural protein of the lungs. In this study, we investigated whether elastin degradation products generated by the enzymes proteinase 3, cathepsin G, neutrophil elastase, MMP7 or MMP9/12 were prognostic biomarkers for COPD-related outcomes. The elastin degradome was assessed in a subpopulation (n = 1307) of the Evaluation of COPD Longitudinally to Identify Predictive Surrogate End-points (ECLIPSE) cohort with 3 years of clinical follow-up. Elastin degraded by proteinase 3 could distinguish between COPD participants and non-smoking controls (p = 0.0006). A total of 30 participants (3%) died over the 3 years of observation. After adjusting for confounders, plasma levels of elastin degraded by proteinase 3 and cathepsin G were independently associated with mortality outcome with a hazard ratio per 1 SD of 1.49 (95%CI 1.24–1.80, p < 0.0001) and 1.31 (95%CI 1.10–1.57, p = 0.0029), respectively. Assessing the elastin degradome demonstrated that specific elastin degradation fragments have potential utility as biomarkers identifying subtypes of COPD patients at risk of poor prognosis and supports further exploration in confirmatory studies.
Improving the performance of computational ghost imaging by using a quadrant detector and digital micro-scanning
Authors: Sun Ming-Jie , Wang Hao-Yu , Huang Ji-Yu
Published: March 2019

Computational ghost imaging systems reconstruct images using a single element detector, which measures the level of correlation between the scene and a set of projected patterns. The sequential nature of these measurements means that increasing the system frame-rate reduces the signal-to-noise ratio (SNR) of the captured images. Furthermore, a higher spatial resolution requires the projection of more patterns, and so both frame-rate and SNR suffer from the increase of the spatial resolution. In this work, we combat these limitations by developing a hybrid few-pixel imaging system that combines structured illumination with a quadrant photodiode detector. To further boost the SNR of our system, we employ digital micro-scanning of the projected patterns. Experimental results show that our proposed imaging system is capable of reconstructing images 4 times faster and with ~33% higher SNR than a conventional single-element computational ghost imaging system utilizing orthogonal Hadamard pattern projection. Our work demonstrates a computational imaging system in which there is a flexible trade-off between frame-rate, SNR and spatial resolution, and this trade-off can be optimized to match the requirements of different applications.
Preparation of kenaf stem hemicellulosic hydrolysate and its fermentability in microbial production of xylitol by Escherichia coli BL21
Authors: Shah Siti Syazwani Mohd , Luthfi Abdullah Amru Indera , Low Kheng Oon , Harun Shuhaida , Manaf Shareena Fairuz Abdul , Illias Rosli Md. , Jahim Jamaliah Md.
Published: March 2019

Kenaf (Hibiscus cannabinus L.), a potential fibre crop with a desirably high growth rate, could serve as a sustainable feedstock in the production of xylitol. In this work, the extraction of soluble products of kenaf through dilute nitric-acid hydrolysis was elucidated with respect to three parameters, namely temperature, residence time, and acid concentration. The study will assist in evaluating the performance in terms of xylose recovery. The result point out that the maximum xylose yield of 30.7 g per 100 g of dry kenaf was attained from 2% (v/v) HNO3at 130 °C for 60 min. The detoxified hydrolysate was incorporated as the primary carbon source for subsequent fermentation by recombinantEscherichia coliand the performance of strain on five different semi-synthetic media on xylitol production were evaluated herein. Among these media, batch cultivation in a basal salt medium (BSM) afforded the highest xylitol yield of 0.35 g/g based on xylose consumption, which corresponded to 92.8% substrate utilization after 38 h. Subsequently, fermentation byE.coliin the xylose-based kenaf hydrolysate supplemented with BSM resulting in 6.8 g/L xylitol which corresponding to xylitol yield of 0.38 g/g. These findings suggested that the use of kenaf as the fermentation feedstock could be advantageous for the development of sustainable xylitol production.
Characterisation of genes differentially expressed in macrophages by virulent and attenuated Mycobacterium tuberculosis through RNA-Seq analysis
Authors: Lee Junghwan , Lee Sung-Gwon , Kim Kee K. , Lim Yun-Ji , Choi Ji-Ae , Cho Soo-Na , Park Chungoo , Song Chang-Hwa
Published: March 2019

Tuberculosis (TB) remains a global healthcare issue. Understanding the host-pathogen interactions in TB is vital to develop strategies and therapeutic tools for the control of Mycobacterium tuberculosis (Mtb). In this study, transcriptome analyses of macrophages infected with either the virulent Mtb strain H37Rv (Rv) or the avirulent Mtb strain H37Ra (Ra) were carried out and 750 differentially expressed genes (DEGs) were identified. As expected, the DEGs were mainly involved in the induction of innate immune responses against mycobacterial infections. Among the DEGs, solute carrier family 7 member 2 (Slc7a2) was more strongly expressed in Ra-infected macrophages. Induction of SLC7A2 was important for macrophages to control the intracellular survival of Mtb. Our results imply that SLC7A2 plays an important role in macrophages during Mtb infection. Our findings could prove useful for the development of new therapeutic strategies to control TB infection.
Metatranscriptomic evidence for classical and RuBisCO-mediated CO2 reduction to methane facilitated by direct interspecies electron transfer in a methanogenic system
Authors: Yang Peixian , Tan Giin-Yu Amy , Aslam Muhammad , Kim Jeonghwan , Lee Po-Heng
Published: March 2019

In a staged anaerobic fluidized-bed ceramic membrane bioreactor, metagenomic and metatranscriptomic analyses were performed to decipher the microbial interactions on the granular activated carbon. Metagenome bins, representing the predominating microbes in the bioreactor: syntrophic propionate-oxidizing bacteria (SPOB), acetoclastic Methanothrix concilii, and exoelectrogenic Geobacter lovleyi, were successfully recovered for the reconstruction and analysis of metabolic pathways involved in the transformation of fatty acids to methane. In particular, SPOB degraded propionate into acetate, which was further converted into methane and CO2 by M. concilii via the acetoclastic methanogenesis. Concurrently, G. lovleyi oxidized acetate into CO2, releasing electrons into the extracellular environment. By accepting these electrons through direct interspecies electron transfer (DIET), M. concilii was capable of performing CO2 reduction for further methane formation. Most notably, an alternative RuBisCO-mediated CO2 reduction (the reductive hexulose-phosphate (RHP) pathway) is transcriptionally-active in M. concilii. This RHP pathway enables M. concilii dominance and energy gain by carbon fixation and methanogenesis, respectively via a methyl-H4MPT intermediate, constituting the third methanogenesis route. The complete acetate reduction (2 mole methane formation/1 mole acetate consumption), coupling of acetoclastic methanogenesis and two CO2 reduction pathways, are thermodynamically favorable even under very low substrate condition (down to to 10−5 M level). Such tight interactions via both mediated and direct interspecies electron transfer (MIET and DIET), induced by the conductive GAC promote the overall efficiency of bioenergy processes.
Genetic overlap between birthweight and adult cardiometabolic diseases has implications for genomic medicine
Authors: Tekola-Ayele Fasil , Lee Anthony , Workalemahu Tsegaselassie , Zhang Wei , Shrestha Deepika , Amare Azmeraw T. , Ouidir Marion
Published: March 2019

Before implementing therapeutic genomic interventions for optimizing health in early life, comprehensive understanding of their effect on several traits across the life course is warranted. Abnorml  birthweight is associated with cardiometabolic disease risk in adulthood; however, the extent of genetic pleiotropy in the association has not been comprehensively investigated. We tested for pleiotropy and enrichment of functional loci between birthweight and 15 cardiometabolic disease traits (CMD). We found significantly abundant genetic pleiotropy (P < 3.3 × 10−3) and enrichment of functional annotations (P < 3.3 × 10−3) in loci influencing both birthweight and CMD. We did not observe consistent effect directions of pleiotropic loci on the traits. A total of 67 genetic loci, of which 65 loci have been reported in previous genome-wide association studies, were associated with both birthweight and CMD at a false discovery rate of 5%. Two novel loci were associated with birthweight and adult coronary artery disease (rs2870463 in CTRB1) and with birthweight and adult waist circumference (rs12704673 in CALCR). Both loci are known to have regulatory effects on expression of nearby genes. In all, our findings revealed pervasive genetic pleiotropy in early growth and adulthood cardiometabolic diseases, implying the need for caution when considering genetic loci as therapeutic targets.
Placental Pathology and Neuroimaging Correlates in Neonates with Congenital Heart Disease
Authors: Schlatterer Sarah D. , Murnick Jonathan , Jacobs Marni , White Linda , Donofrio Mary T. , Limperopoulos Catherine
Published: March 2019

Congenital heart disease (CHD) is an independent risk factor for brain injury, including stroke, and poor neurodevelopmental outcomes, and placental abnormalities may represent an additional risk factor for brain injury in neonates. The incidence and scope of placental pathology and relationship to fetal brain abnormalities in pregnancies complicated by fetal CHD has not been explored to our knowledge. In order to determine the prevalence of placental pathology findings and whether placental findings are associated with postnatal brain injury in pregnancies complicated by fetal CHD, we reviewed placental pathology reports for 51 pregnancies complicated by CHD and scored available postnatal, pre-operative brain MRI for brain pathology. Overall, 57% of CHD infants had abnormal placental pathology. Pregnancies complicated by CHD with aortic obstruction (AO) were significantly more likely than those with no obstruction to have abnormal placental pathology (79% vs. 44%). There was a trend toward more severe brain lesions amongst patients with brain lesions and placental abnormality (55% moderate/severe) compared to those without placental abnormality (11% moderate/severe). These data suggest that placental abnormalities are common in CHD and may have a compounding effect on brain lesions in this high-risk population.
Low Electric Treatment activates Rho GTPase via Heat Shock Protein 90 and Protein Kinase C for Intracellular Delivery of siRNA
Authors: Hasan Mahadi , Hama Susumu , Kogure Kentaro
Published: March 2019

Low electric treatment (LET) promotes intracellular delivery of naked siRNA by altering cellular physiology. However, which signaling molecules and cellular events contribute to LET-mediated siRNA uptake are unclear. Here, we used isobaric tags in relative and absolute quantification (iTRAQ) proteomic analysis to identify changes in the levels of phosphorylated proteins that occur during cellular uptake of siRNA promoted by LET. iTRAQ analysis revealed that heat shock protein 90 (Hsp90)α and myristoylated alanine-rich C-kinase substrate (Marcks) were highly phosphorylated following LET of NIH 3T3 cells, but not untreated cells. Furthermore, the levels of phosphorylated Hsp90α and protein kinase C (PKC)γ were increased by LET both with siRNA and liposomes having various physicochemical properties used as model macromolecules, suggesting that PKCγ activated partly by Ca2+ influx as well as Hsp90 chaperone function were involved in LET-mediated cellular siRNA uptake. Furthermore, LET with siRNA induced activation of Rho GTPase via Hsp90 and PKC, which could contribute to cellular siRNA uptake accompanied by actin cytoskeleton remodeling. Collectively, our results suggested that LET-induced Rho GTPase activation via Hsp90 and PKC would participate in actin-dependent cellular uptake of siRNA.