bluuebunny/crossref_metadata_2025 huggingface dataset:
Optical Signatures of the Outer Radiation Belt Boundary
Authors: Sivadas Nithin , Semeter Joshua , Nishimura Yukitoshi , Mrak Sebastijan
Published: July 2019

We present observations that show structured diffuse aurora (SDA) correlated with electron precipitation directly from the outer boundary of the outer radiation belt. The SDA maps to the nightside transition region (∼9–12 RE) in the magnetic‐equatorial plane during a substorm growth phase. The energy flux of 100‐ to 300‐keV electrons lost from the outer boundary of the radiation belt is ∼0.4 mW/m2, which is comparable to electron dropouts >100 keV during magnetic storms. The latitudinal dispersion of energetic electrons observed in the ionosphere with energetic electrons more equatorward suggests nonadiabatic scattering from a thinning current sheet. The GLobal airglOW (GLOW) model shows significant optical contributions (up to 46%) from electrons >30 keV within the SDA. Ground‐ and space‐based measurements are consistent with the conclusion that the SDA marks the outer radiation belt boundary during substorm growth phase.
A Black Carbon‐Tracer Method for Estimating Cooking Organic Aerosol From Aerosol Mass Spectrometer Measurements
Authors: He Yao , Sun Yele , Wang Qingqing , Zhou Wei , Xu Weiqi , Zhang Yunjiang , Xie Conghui , Zhao Jian , Du Wei , Qiu Yanmei , Lei Lu , Fu Pingqing , Wang Zifa , Worsnop Douglas R.
Published: July 2019

Cooking organic aerosol (COA) constitutes a considerable fraction of organic aerosol (OA) in urban environments, yet it is often challenging to resolve COA in summer through positive matrix factorization of unit mass resolution spectra of OA from aerosol mass spectrometer measurements. Here we developed a black carbon‐tracer method for estimating COA in summer. The estimated COA agreed reasonably well with those from other methods. This method can also be applied to other seasons and megacities without substantial emissions from biomass burning and coal combustion. Globally, much higher COA concentrations in China and India than those in North America and Europe were observed, while the COA contributions were comparable (15.5–20%), highlighting the importance of COA in urban areas. Considering the rapidly increased aerosol mass spectrometer measurements worldwide, this method has significant implications for a better source apportionment of OA and also benefits the health studies associated with cooking exposure.
Nonlinear Effects of Electron‐Electron Collisions on ISR Temperature Measurements
Authors: Longley William J. , Oppenheim Meers M. , Dimant Yakov S.
Published: July 2019

Incoherent scatter radars (ISR) estimate the electron and ion temperatures in the ionosphere by fitting measured spectra of ion‐acoustic waves to forward models. For radars looking at aspect angles within 5° off perpendicular to the Earth's magnetic field, the magnetic field constrains electron movement and Coulomb collisions add an additional source of damping that narrows the spectra. Fitting the collisionally narrowed spectra to collisionless forward models leads to errors or underestimates of the plasma temperatures. This paper presents the first fully kinetic particle‐in‐cell (PIC) simulations of ISR spectra with collisional damping by velocity‐dependent electron‐electron and electron‐ion collisions. For aspect angles between 0.5° and 2° off perpendicular, the damping effects of electron‐ion and electron‐electron collisions in the PIC simulations are the same and the resulting spectra are narrower than what current theories and models predict. For aspect angles larger than 3° away from perpendicular, the simulations with electron‐ion collisions match collisionless ISR theory well, but spectra with electron‐electron collisions are narrower than theory predicts at aspect angles as large as 5° away from perpendicular. At aspect angles less than 5° the PIC simulations produce narrower spectra than previous simulations using single‐particle displacement statistics that include both electron‐ion and electron‐electron collisions. The narrowing of spectra by electron‐electron collisions in the PIC code between 3° and 5° away from perpendicular is currently neglected when fitting measured spectra from the Jicamarca and Millstone Hill radars, leading to underestimates of electron temperatures by as much as 25% at small aspect angles.
Impact of sea surface height anomalies on cyclone track
Authors: Ali M.M , Sinha Palash , Jain Sarika , Mohanty U.C
Published: July 2019

Predicting accurate cyclone tracks is crucial for disaster management practices. The unusual westward movement of the 6-11 May 2002 Arabian Sea cyclone has been investigated through community mesoscale National Centre for Atmospheric Research model by giving different sea surface temperatures (SST) in different experiments keeping all other conditions same. In one experiment, we converted sea surface height anomalies (SSHAs) to SST. Oceanic eddies and SSHAs, representing the subsurface thermal structure, played a prominent role in the unusual westward movement of this cyclone. This is the first time that the effect of eddies and SSHAs on cyclone track has been reported.
Water and the Biology of Prions and Plaques
Authors: Steel Graham , Wiggins Phillippa
Published: July 2019

This is an attempt to account for the insolubility and/or aggregation of prions and plaques in terms of a model of water consisting of an equilibrium between high density and low density microdomains. Hydrophobic molecules, including proteins, accumulate selectively into stable populations, enriched in high density water, at charged sites on biopolymers. In enriched high density water, proteins are probably partially unfolded and may precipitate out when released. All extracellular matrices contain such charged polymers. Prions, which have been shown to accumulate in soils and clays containing silicates and aluminates also probably accumulate in extracellular matrices. Release of proteins follows hydrolysis of the charged groups by highly reactive high density water. This is normally a slow process but is greatly accelerated by urea. Plaques may form with age and disease because of accumulation of urea and, perhaps, glucose in the blood. This favours precipitation of proteins emerging from matrices, rather than refolding and solution. Dialysis should, therefore, interfere with plaque formation and impede the development of some age-related diseases.
Characterization of Fut10 and Fut11, Putative Alpha-1-3/4 Fucosyltransferase Genes Important for Vertebrate Development
Authors: Patnaik Santosh
Published: July 2019

Two new, putative alpha-1-3/4 fucosyltransferases ([alpha]1-3/4 Fuc-Ts), Fuc-TX and Fuc-TXI, were identified in the vertebrate genome and transcriptome sequence databases through sequence homology-based queries. These proteins have a significant sequence similarity to only [alpha]1-3/4 Fuc-Ts, and possess peptide motifs that are evolutionarily conserved among the known vertebrate [alpha]1-3/4 Fuc-Ts. However, Fuc-TX and Fuc-TXI lack the HH[R/W][D/E] sequence that determines the specificity for type 1 or 2 substrates among the known vertebrate enzymes, and Fuc-TXI proteins do not possess a transmembrane domain. The Fut10 and Fut11 genes that encode these proteins are expressed ubiquitously in the adult mouse and in the mouse embryo throughout development. Though a Fuc-T activity of the mouse proteins could not be detected, Fuc-TXI, but not Fuc-TX, was found to hydrolyze GDP-fucose. The interaction of Fuc-TXI with GDP-fucose was also confirmed by its binding to GDP-hexanolamine. In zebrafish, Fut11 transcripts could be detected during early embryonic development. A knock-down of Fuc-TXI in zebrafish embryos with Fut11-specific antisense morpholino oligonucleotides resulted in malformations of the posterior trunk and tail.
A new potential radiosensitizer: ammonium persulfate modified WCNTs
Authors: Yang Jian-She , Yu Bo-Zhang , Li Wen-Xin
Published: July 2019

Radiotherapy plays a very important role in cancer treatment. Radiosensitizers have been widely used to enhance the radiosensitivity of cancer cells at given radiations. Here we fabricate multi-walled carbon nanotubes with ammonium persulfate, and get very short samples with 30-50 nanometer length. Cell viability assay show that f-WCNTs induce cell death significantly. We hypothesize that free radicals originated from hydroxyl and carbonyl groups on the surface of f-WCNTs lead cell damage.
From antenna to antenna: Lateral shift of olfactory memory in bees
Authors: Rogers Lesley , Vallortigara Giorgio
Published: July 2019

Honeybees, _Apis mellifera_, readily learn to associate odours with sugar rewards and we show here that recall of the olfactory memory, as demonstrated by the bee extending its proboscis when presented with the trained odour, involves first the right and then the left antenna. At 1-2 hour after training using both antennae, recall is possible only when the bee uses its right antenna but by 6 hours after training the memory has made a lateral shift and can now be recalled only when the left antenna is in use. Long-term memory one day after training is also accessed only via the left antenna. This time-dependent shift from right to left antenna is seen as side biases in responding to odour presented to the bee's left or right side and hence may be manifested in natural behaviour.
Concurrent Acquisition of a Single Nucleotide Polymorphism in Diverse Influenza H5N1 Clade 2.2 Sub-clades
Authors: Niman Henry , Boynton Bruce
Published: July 2019

Highly pathogenic Influenza A H5N1 was first identified in Guangdong Province in 1996, followed by human cases in Hong Kong in 1997 1,2. The number of confirmed human cases now exceeds 300, and the associated Case Fatality Rate exceeds 60% 3. The genetic diversity of the serotype continues to increase. Four distinct clades or sub-clades have been linked to human cases 4-7. The gradual genetic changes identified in the sub-clades have been attributed to copy errors by viral encoded polymerases that lack an editing function, thereby resulting in antigenic drift 8. We report here the concurrent acquisition of the same polymorphism by multiple, genetically distinct, clade 2.2 sub-clades in Egypt, Russia, and Ghana. These changes are not easily explained by the current theory of “random mutation” through copy error, and are more easily explained by recombination with a common source. This conclusion is supported by additional polymorphisms shared by clade 2.2 isolates in Egypt and Germany.
Systems Biology Markup Language (SBML) Level 2: Structures and Facilities for Model Definitions
Authors: Hucka Michael , Finney Andrew , Hoops Stefan , Keating Sarah , Le Novere Nicolas
Published: July 2019

With the rise of Systems Biology as a new paradigm for understanding biological processes, the development of quantitative models is no longer restricted to a small circle of theoreticians. The dramatic increase in the number of these models precipitates the need to exchange and reuse both existing and newly created models. The Systems Biology Markup Language (SBML) is a free, open, XML-based format for representing quantitative models of biological interest that advocates the consistent specification of such models and thus facilitates both software development and model exchange.Principally oriented towards describing systems of biochemical reactions, such as cell signalling pathways, metabolic networks and gene regulation etc., SBML can also be used to encode any kinetic model. SBML offers mechanisms to describe biological components by means of compartments and reacting species, as well as their dynamic behaviour, using reactions, events and arbitrary mathematical rules. SBML also offers all the housekeeping structures needed to ensure an unambiguous understanding of quantitative descriptions.This specification presents the structures of the language and the rules used to build a valid model. SBML XML Schema and other related documents and software are also available from the SBML project web site, "http://sbml.org/":http://sbml.org/.
Rapid Dissolution of Lignocellulosic Plant Materials in an Ionic Liquid
Authors: Rayne Sierra , Mazza Giuseppe
Published: July 2019

Concerns regarding the non-renewable nature of, and pollution from, petroleum derived energy and commercial products has led to the concept of a biomass economy. As part of this vision for a society based on sustainable biomaterials, proposed biorefineries need to tackle the challenges of taking a wide diversity of raw biomass and rapidly and effectively transforming it into functionalizable platform molecules that can be derivatized into industrial and consumer products, or converted into biofuels. A substantial research effort is underway focussed on degrading biomass into smaller constituents using a variety of physical, chemical, and biological processes. One promising technology for the solubilization of biomass is ionic liquids (ILs), which has received considerable attention as a medium for efficient solubilization of a variety of materials. ILs also allow fractional separation when combined with solvent extraction (conventional, and green technologies such as supercritical CO2), precipitation, and adsorption/absorption methods, and to conduct a wide range of chemical reactions using thermal, electrochemical, photochemical, and biocatalytic processes. As a potential pretreatment technology for the biorefineries of the future, we report herein the first rapid dissolution of a range of coniferous and deciduous woods and grassy lignocellulosic plant materials in an IL using microwave radiation.
Meta-Potentiation: Neuro-Astroglial Interactions Supporting Perceptual Consciousness
Authors: Pereira Jr Alfredo , Furlan Fábio Augusto
Published: July 2019

Conscious perceptual processing involves the sequential activation of cortical networks at several brain locations, and the onset of oscillatory synchrony affecting the same neuronal population. How do the earlier activated circuits sustain their excitation to synchronize with the later ones? We call such a sustaining process "meta-potentiation", and propose that it depends on neuro-astroglial interactions. In our proposed model, attentional cholinergic and stimulus-related glutamatergic inputs to astroglia elicit the release of astroglial glutamate to bind with neuronal NMDA receptors containing the NR2B subunit. Once calcium channels are open, slow inward currents activate the CaM/CaMKII complex to phosphorylate AMPA receptors in a population of neurons connected with the astrocyte, thus amplifying the local excitatory pattern to participate in a larger synchronized assembly that supports consciousness.
Remote estimation of carbon dioxide uptake of terrestrial ecosystems
Authors: Garbulsky Martin F.
Published: July 2019

The estimation of the carbon balance in ecosystems, regions, and the biosphere is currently one of the main concerns in the study of the ecology of global change. Current remote sensing methodologies for estimating gross primary productivity are not satisfactory because they rely too heavily on (i) the availability of climatic data, (ii) the definition of land-use cover, and (iii) the assumptions of the effects of these two factors on the radiation-use efficiency of vegetation (RUE). A new methodology is urgently needed that will actually assess RUE and overcome the problems associated with the capture of fluctuations in carbon absorption in space and over time. Remote sensing techniques such as the widely used reflectance vegetation indices (e.g., NDVI, EVI) allow green plant biomass and therefore plant photosynthetic capacity to be assessed. Nevertheless, detecting how much of this capacity is actually realized is a much more challenging goal. The Photochemical Reflectance Index (PRI) derived from freely available satellite information (MODIS sensor) presented an exponential relationship with the RUE. Thus, we show that it is possible to estimate RUE in real time and therefore actual carbon uptake at ecosystem, regional, and biosphere levels using the PRI. This conceptual and technological advancement avoids the need to rely on either the sometimes unreliable maximum RUE for each ecosystem, hard-to-obtain climate data, or on imprecise land-use/land-cover data.
An integrated solution for rapid biosensing combining linker free binding, freeze drying and high sensitivity ellipsometric detection
Authors: Yin Yongbai , McKenzie David , Fisher Keith , Guo Chuan , Nosworthy Neil , Bilek Marcela
Published: July 2019

A novel integrated biosensor methodology is proposed and demonstrated. The methodology utilizes a nitrogen-containing plasma polymer to achieve linker-free binding of biorecognition molecules that allows the sensor surface to be freeze dried for long shelf life under ambient conditions. The sensor is configured for single wavelength ellipsometric detection providing a low cost, versatile, and rapid sensing and diagnosis platform suitable for a wide range of applications and end-users. The merits of the methodology were demonstrated using three antigen-antibody pairs.
Bacteriophages as a model for studying carbon regulation in aquatic system
Authors: Sanmukh Swapnil , Paunikar Waman , Swaminathan Sandhya , Lokhande Satish
Published: July 2019

The interconversion of carbon in organic, inorganic and refractory carbon is still beyond the grasp of present environmentalists. The bacteria and their phages, being the most abundant constituents of the aquatic environment, represent an ideal model for studing carbon regulation in the aquatic system. The refractory dissolved organic carbon (DOC), a recently coined terminology from the microbe-driven conversion of bioavailable organic carbon into difficult-to-digest refractory DOC by microbial carbon pump (MCP), is suggested to have the potential to revolutionize our view of carbon sequestration. It is estimated that about 95% of organic carbon is in the form of refractory DOC, which is the largest pool of organic matter in the ocean. The refractory DOC is supposed to be the major factor in the global carbon cycle whose source is not yet well understood. A key element of the carbon cycle is the microbial conversion of dissolved organic carbon into inedible forms. The time studies of phage-host interaction under control conditions reveal their impact on the total carbon content of the source and their interconversion among organic, inorganic and other forms of carbon with respect to control source. The TOC- analysis statistics stipulate an increase in inorganic carbon content by 15-25 percent in the sample with phage as compared to the sample without phage. The results signify a 60-70 fold increase in inorganic carbon content in sample with phage, whereas, 50-55 fold in the case of sample without phages as compared with control. This increase in inorganic carbon content may be due to lysis of the host cell releasing its cellular constituents and utilization of carbon constituent for phage assembly and development. It also proves the role of phages in regulating the carbon flow in aquatic systems like oceans, where their concentration outnumbered other species.
PROM Khad an efficient source of P to replace the costly chemical Phosphatic Fertilizer
Authors: Sekhar DMR , Katewa MK , Shaktawat MS
Published: July 2019

The subsidy on phosphate fertilizers rose to an unacceptable level while alternate cost effective technologies are available. Fertilizer industry needs to develop innovative products using the recent advances in the agricultural sciences. Manure producing industries to be supplied rock phosphate mineral (at subsidized costs) as being supplied to chemical fertilizers industries suitable to produce PROM Khad (Phosphate Rich Organic Manure).
Deterministic Separation of Cancer Cells from Blood at 10 mL/min
Authors: Loutherback Kevin , D'Silva Joseph , Liu Liyu , Wu Amy , Austin Robert , Sturm James
Published: July 2019

Circulating tumor cells (CTCs) and circulating clusters of cancer and stromal cells have been identified in the blood of patients with malignant cancer and can be used as a diagnostic for disease severity, assess the efficacy of different treatment strategies and possibly determine the eventual location of metastatic invasions for possible treatment. There is thus a critical need to isolate, propagate and characterize viable CTCs and clusters. Here, we present a microfluidic device for mL/min flow rate, continuous-flow capture of viable CTCs from blood using deterministic lateral displacement arrays. We show here that a deterministic bump array can be designed such that it will isolate with efficiency greater than 85% CTCs over a large range in sizes from millimeter volume clinical blood samples in minutes, with no effect on cell vitality so that further culturing and analysis of the cells can be carried out.
Some Computational Aspects of Essential Properties of Evolution and Life
Authors: Zenil Hector , Marshall James
Published: July 2019

While evolution has inspired algorithmic methods of heuristic optimisation, little has been done in the way of using concepts of computation to advance our understanding of salient aspects of biological evolution. We argue that under reasonable assumptions, interesting conclusions can be drawn that are of relevance to behavioural evolution. We will focus on two important features of life--robustness and fitness optimisation--which, we will argue, are related to algorithmic probability and to the thermodynamics of computation, subjects that may be capable of explaining and modelling key features of living organisms, and which can be used in understanding and formulating algorithms of evolutionary computation.
The 'consciousness' of the living state: Extending the Baars global broadcast model across physiological subsystems
Authors: Wallace Rodrick
Published: July 2019

For the broad spectrum of cognitive biological phenomena having 'dual' information sources, isolation from crosstalk between them requires more metabolic free energy than permitting correlation. This allows an evolutionary exaptation leading to dynamic global broadcasts at multiple scales, similar to the well-studied exaptation of noise to trigger stochastic resonance amplification in physiological systems. Entropy gradient models adapted from nonequilibrium thermodynamics lead to an index theorem in which analytic solutions of empirical equations describe different possible topological modes. Not only is the living state characterized by cognition at every scale and level of organization, but by multiple, shifting, tunable, cooperative broadcasts that link selected subsets of those structures to address problems. As for animal consciousness, the 'stream' of cognitive physiological broadcast is constrained by the riverbanks of embedding context, expressed in terms of systematic regularities of an enveloping environmental information source and the limitations imposed by developmental trajectory.
Gender effects on cytidine analogue metabolism and myelodysplastic syndrome treatment outcomes
Authors: Chan Kenneth , Maciejewski Jaroslaw , Ling Yonghua , Radivoyevitch Tomas , Engelke Kory , Saunthararajah Yogen , Sekeres Mikkael , Mahfouz Reda , Jankowska Ania , Ebrahem Quteba , Hu Zhenbo , Terse Pramod , Tiu Ramon , Covey Joseph
Published: July 2019

In vivo, half-lives of cytidine analogues such as 5-azacytidine and decitabine, used to treat myelodysplastic syndromes (MDS), are determined largely by cytidine deaminase (CDA), an enzyme that rapidly metabolizes these drugs into inactive uridine counterparts. Genetic factors influence CDA activity, and hence, could impact 5-azacytidine/decitabine levels and efficacy, a possibility requiring evaluation. Using an HPLC assay, plasma CDA activity was confirmed to be decreased in individuals with the CDA SNP A79C. More interestingly, there was an even larger decrease in females. Explaining the decrease in enzyme activity, liver CDA expression was significantly lower in female versus male mice. As expected, decitabine plasma levels, measured by mass-spectrometry, were significantly higher in females. In mathematical modeling, the detrimental effect of shortening half-life of S-phase specific therapy was amplified in low S-phase fraction disease (e.g., MDS). Accordingly, in multivariate analysis of MDS patients treated with 5-azacytidine/decitabine, overall survival was significantly worse in males.
Schizophrenia is a TH2 dominant autoimmune disease possibly against acetylcholine receptors of CNS
Authors: Hu Wanchung
Published: July 2019

Schizophrenia is a very common psychiatric disorder. However, its etiology and pathogenesis is still unknown. Current theory saying that neurotransmitter imbalance such as serotonin or dopamine only provides limited effectiveness in schizophrenia treatment by drugs changing serotonin and dopamine concentration. Despite of such treatment, majority of schizophrenia patients still have very poor prognosis. Thus, the neurotransmitter imbalance theory is not correct. Here, I propose that schizophrenia is actually a TH2 dominant autoimmune disorder. The candidate of autoantigen could be acetylcholine receptors of CNS. My theory can explain the positive as well as negative symptoms of schizophrenia. By microarray analysis of PBMCS, one-tenth of the total 519 significantly expressed genes are immune-related genes. Among them, TH2 related genes are significantly up-regulated including IL-4, histidine decarboxylase, aldehyde dehydrogenase, CCR9, IgE Fc receptor, GATA2, serotonin receptor, phospholipase A2, and prostaglandin D2 synthase. Besides, TH1 and TH17 related genes are down-regulated including CXCL5, cathepsin C, and neutrophil related S100 binding proteins. The new theory sheds a light to better control this detrimental illness. Anti-inflammatory agents could be used to manage schizophrenia in the near future.
Colour reverse learning and animal personalities: the advantage of behavioural diversity assessed with agent-based simulations
Authors: Dyer Adrian , Dorin Alan , Reinhardt Verena , Rosa Marcello
Published: July 2019

Foraging bees use colour cues to help identify rewarding from unrewarding flowers, but as conditions change, bees may require behavioural flexibility to reverse their learnt preferences. Perceptually similar colours are learnt slowly by honeybees and thus potentially pose a difficult task to reverse-learn. Free-flying honeybees (N = 32) were trained to learn a fine colour discrimination task that could be resolved at ca. 70% accuracy following extended differential conditioning, and were then tested for their ability to reverse-learn this visual problem multiple times. Subsequent analyses identified three different strategies: ‘Deliberative-decisive’ bees that could, after several flower visits, decisively make a large change to learnt preferences; ‘Fickle- circumspect’ bees that changed their preferences by a small amount every time they encountered evidence in their environment; and ‘Stay’ bees that did not change from their initially learnt preference. The next aim was to determine if there was any advantage to a colony in maintaining bees with a variety of decision-making strategies. To understand the potential benefits of the observed behavioural diversity agent-based computer simulations were conducted by systematically varying parameters for flower reward switch oscillation frequency, flower handling time, and fraction of defective ‘target’ stimuli. These simulations revealed that when there is a relatively high frequency of reward reversals, fickle-circumspect bees are more efficient at nectar collection. However, as the reward reversal frequency decreases the performance of deliberative-decisive bees becomes most efficient. These findings show there to be an evolutionary benefit for honeybee colonies with individuals exhibiting these different strategies for managing resource change. The strategies have similarities to some complex decision-making processes observed in humans, and algorithms implemented in artificial intelligence systems.
A database of orthologous exons in primates for comparative analysis of RNA-seq data
Authors: Blekhman Ran
Published: July 2019

RNA-seq technology facilitates the study of gene expression at the level of individual exons and transcripts. Moreover, RNA-seq enables unbiased comparative analysis of expression levels across species. Such analyses typically start by mapping sequenced reads to the appropriate reference genome before comparing expression levels across species. However, this comparison requires prior knowledge of orthology at the exon level. With this in mind, I constructed a database of orthologous exons across three primate species (human, chimpanzee, and rhesus macaque). The database facilitates cross-species comparative analysis of exon- and transcript-level regulation. A web application allowing for an easy database query: http://giladlab.uchicago.edu/orthoExon/
Antidiabetic, Anti-hyperlipidemic & Hepatoprotective effect of a Polyherbal Unani formulation “Qurs Tabasheer” in STZ-diabetic wistar rats
Authors: Ahmed Danish , Sharma Manju , Mukerjee Alok , Kant Raja Kamal , Kumar Vikas
Published: July 2019

The present study was undertaken to evaluate the antihyperglycemic, antihyperlipidemic and hepatoprotective effect of a traditional unani formulation “Qurs Tabasheer” in streptozotocin (STZ) induced diabetic wistar rats. Up until now, no study was undertaken to appraise the efficacy of “Qurs Tabasheer” in the diabetic rats. Qurs Tabasheer is a unani formulation restraining preparations from six various herbs namely Tukhme Khurfa (Portulaca oleracea seed), Gule Surkh (Rosa damascena flower), Gile armani (Arminium bole), Gulnar (Punica granatum flower), Tabasheer (Bambusa arundinasia dried exudate on node), Tukhme Kahu (Lactuca sativa Linn seed). The effect of Qurs Tabasheer was assessed in STZ (60 mg/kg, i.p single shot) induced diabetic wistar rats. STZ produced a marked increase in the serum glucose, total cholesterol, LDL cholesterol, VLDL cholesterol, triglycerides and trimmed down the HDL level. We have weighed the effect of Qurs Tabasheer on hepatic activity through estimating levels of various liver enzymes viz. Hexokinase, Glucose-6-Phosphatase and Fructose-1-6-biphosphatase in STZ diabetic wistar rats. In STZ-induced diabetic wistar rats the level of Hexokinase, and Glucose-6-Phosphatase was decreased to a significant level while the level of fructose-1-6-biphophatase was augmented. Therapy with Qurs Tabasheer for 30 days to STZ-induced diabetic rats significantly reduces the level of serum glucose, total cholesterol, triglycerides, glucose-6-phosphatase and fructose-1-6-biphosphatase, while magnitude of HDL cholesterol and hexokinase was amplified. Antihyperglycemic, antihyperlipidemic activity of Qurs Tabasheer suspension in STZ- induced wistar rats was found to be more effective than oral hypoglycemic drug Glimepiride.
Quantum Genetics and Quantum Automata Models of Quantum-Molecular Evolution Involved in the Evolution of Organisms and Species
Authors: Baianu I.
Published: July 2019

Previous theoretical or general approaches to the problems of Quantum Genetics and Molecular Evolution are considered in this article from the point of view of Quantum Automata Theory first published by the author in 1971 and further developed in several recent articles. The representation of genomes and Interactome networks in categories of many-valued logic LMn –algebras that are naturally transformed during biological evolution, or evolve through interactions with the environment provide a new insight into the mechanisms of molecular evolution, as well as organismal evolution, in terms of sequences of quantum automata. Phenotypic changes are expressed only when certain environmentally-induced quantum-molecular changes are coupled with an internal re-structuring of major submodules of the genome and Interactome networks related to cell cycling and cell growth. Contrary to the commonly held view of `standard’ Darwinist models of evolution, the evolution of organisms and species occurs through coupled multi-molecular transformations induced not only by the environment but actually realized through internal re-organizations of genome and interactome networks. The biological, evolutionary processes involve certain epigenetic transformations that are responsible for phenotypic expression of the genome and Interactome transformations initiated at the quantum-molecular level. It can thus be said that only quantum genetics can provide correct explanations of evolutionary processes that are initiated at the quantum--multi-molecular levels and propagate to the higher levels of organismal and species evolution.Biological evolution should be therefore regarded as a multi-scale process which is initiated by underlying quantum (coupled) multi-molecular transformations of the genomic and interactomic networks, followed by specific phenotypic transformations at the level of organism and the variable biogroupoids associated with the evolution of species which are essential to the survival of the species. The theoretical framework introduced in this article also paves the way to a Quantitative Biology approach to biological evolution at the quantum-molecular, as well as at the organismal and species levels. This is quite a substantial modification of the 'established’ modern Darwinist, and also of several so-called `molecular evolution’ theories.
Mechanistic mechanisms of competition and biodiversity
Authors: Kalmykov Lev , Kalmykov Vyacheslav
Published: July 2019

The nature of competition and biodiversity are open basic questions since Darwin. To investigate mechanisms of interspecific competition and their contribution in biodiversity as closely as possible we offer a white-box modelling method based on physically interpreted ecological axioms. These models are implemented as deterministic individual-based cellular automata and able to give a direct physico-mechanistic insight into studied phenomena. Competition of two trophically identical but fitness different species, competing for one limiting resource in one stable uniform habitat (which is closed for immigration, emigration, predation, herbivory and parasitism) has been investigated in conditions, which are the most unfavourable for their coexistence. The species are per capita identical in fecundity, ontogeny, regeneration features of microhabitats, and in habitat requirements. We have modelled following 8 mechanistic mechanisms of interspecific competition:1. A case of the competitive exclusion when competing species differ only in fitness.2. Coexistence based on periodic dominance changeovers as a consequence of environmental changes. Competing species differ only in fitness.3. A strong violation of the competitive exclusion principle due to the lowered fecundity of both competitors. Competing species differ only in fitness.4. Coexistence based on the competition–colonisation trade-off when greater fitness is compensated by r-strategy.5. A competition–colonisation trade-off based on differences in ontogeny.6. Competitive exclusion when recessive species drives out the dominant one having four times greater fecundity than the dominant one in stable environment (the greater fitness cannot compensate r-strategy).7. An inverted competitive exclusion when recessive species drives out the dominant one by strategy of anticipatory deprivation of resources for competitor’s offsprings propagation. Recessive species drives out the dominant one in stable environment and both competing species have identical fecundity (tripod neighbourhood). Paradoxically, but the greater fitness cannot save the dominant species when the all other parameters of the species are equal.8. Both competing species die because the regeneration of a limiting environmental resource takes too much time and they cannot propagate.The revealed mechanisms of competition can be useful not only in conservation biology, but also in economics and politics. Additionally, we speculate that the simplest way to maintain biodiversity is a controlled reduction of human fertility as the decrease in biodiversity occurs largely due to humankind overloading of biosphere resources.
Chloroplast and Cell Imaging at Submicron Resolution by Two-Photon Excitation
Authors: Baianu I
Published: July 2019

Novel, two-photon NIR excitation fluorescence correlation microspectroscopy tests and preliminary results were presented in this article with submicron resolution for concentrated suspensions of functional cells and chloroplast membranes. Related developments of these technique involve applications of Fluorescence Cross-Correlation Spectroscopy (FCCS) detection to monitoring:DNA- telomerase interactions, DNA hybridization kinetics, ligand-receptor interactions, and HIV-HBV testing.
The Kindlin2-p53-SerpinB2 signaling axis is required for cellular senescence in breast cancer
Authors: Sossey-Alaoui Khalid , Pluskota Elzbieta , Szpak Dorota , Plow Edward F.
Published: July 2019

In cancer, cellular senescence is a complex process that leads to inhibition of proliferation of cells that may develop a neoplastic phenotype. A plethora of signaling pathways, when dysregulated, have been shown to elicit a senescence response. Two well-known tumor suppressor pathways, controlled by the p53 and retinoblastoma proteins, have been implicated in maintaining the cellular senescence phenotype. Kindlin-2, a member of an actin cytoskeleton organizing and integrin activator proteins, has been shown to play a key role in the regulation of several hallmarks of several cancers, including breast cancer (BC). The molecular mechanisms whereby Kindlin-2 regulates cellular senescence in BC tumors remains largely unknown. Here we show that Kindlin-2 regulates cellular senescence in part through its interaction with p53, whereby it regulates the expression of the p53-responsive genes; i.e., SerpinB2 and p21, during the induction of senescence. Our data show that knockout of Kindlin-2 via CRISPR/Cas9 in several BC cell lines significantly increases expression levels of both SerpinB2 and p21 resulting in the activation of hallmarks of cellular senescence. Mechanistically, interaction between Kindlin-2 and p53 at the promotor level is critical for the regulated expression of SerpinB2 and p21. These findings identify a previously unknown Kindlin-2/p53/SerpinB2 signaling axis that regulates cellular senescence and intervention in this axis may serve as a new therapeutic window for BCs treatment.
DNA translocation mechanism of the MCM complex and implications for replication initiation
Authors: Meagher Martin , Epling Leslie B. , Enemark Eric J.
Published: July 2019

The DNA translocation activity of the minichromosome maintenance (MCM) complex powers DNA strand separation of the replication forks of eukaryotes and archaea. Here we illustrate an atomic level mechanism for this activity with a crystal structure of an archaeal MCM hexamer bound to single-stranded DNA and nucleotide cofactors. Sequence conservation indicates this rotary mechanism is fully possible for all eukaryotes and archaea. The structure definitively demonstrates the ring orients during translocation with the N-terminal domain leading, indicating that the translocation activity could also provide the physical basis of replication initiation where a double-hexamer idly encircling double-stranded DNA transforms to single-hexamers that encircle only one strand. In this mechanism, each strand binds to the N-terminal tier of one hexamer and the AAA+ tier of the other hexamer such that one ring pulls on the other, aligning equivalent interfaces to enable each hexamer to pull its translocation strand outside of the opposing hexamer.
Immunological evidence for in vivo production of novel advanced glycation end-products from 1,5-anhydro-D-fructose, a glycogen metabolite
Authors: Sakasai-Sakai Akiko , Takata Takanobu , Suzuki Hirokazu , Maruyama Ikuro , Motomiya Yoshihiro , Takeuchi Masayoshi
Published: July 2019

The anhydrofructose pathway is an alternate pathway for glycogen degradation by α-1,4-glucan lyase. The sugar 1,5-anhydro-D-fructose (1,5-AF) acts as the central intermediate of this pathway, but its physiological role of in mammals is unclear. Glycation reactions forming advanced glycation end-products (AGEs) are important in the development of complications of diabetes mellitus. We hypothesized that 1,5-AF may contribute to cellular damage by forming 1,5-AF-derived AGEs (AF-AGEs) with intracellular proteins. To clarify the role of 1,5-AF in protein modification, we created a novel antibody targeting AF-AGEs. Serum albumin modified by AF-AGEs was prepared by incubating rabbit serum albumin (RSA) or bovine serum albumin (BSA) with 1,5-AF. After immunizing rabbits with AF-AGEs-RSA, affinity chromatography of anti-AF-AGE antiserum was performed on a Sepharose 4B column coupled with AF-AGEs-BSA or N-(carboxymethyl)/N-(carboxyethyl)lysine-BSA. A novel immunopurified anti-AF-AGE antibody was obtained and was characterized using a competitive enzyme-linked immunosorbent assay. Then an AF-AGEs assay was established using this immunopurified antibody. This assay was able to detect AF-AGEs in human and animal serum samples. Finally, intracellular accumulation of AF-AGEs was shown to be associated with damage to cultured hepatocytes (HepG2 cells). This is the first report about in vivo detection of AF-AGEs with a novel structural epitope.
New fossil cichlid from the middle Miocene of East Africa revealed as oldest known member of the Oreochromini
Authors: Penk Stefanie B. R. , Altner Melanie , F. Cerwenka Alexander , Schliewen Ulrich K. , Reichenbacher Bettina
Published: July 2019

A new genus and species of fossil cichlid fishes of middle Miocene age (12.5 Ma) is described from the Ngorora fish Lagerstätte (Tugen Hills, Kenya) in the East African Rift Valley. Parsimony analysis of morphological characters using published phylogenetic frameworks for extant cichlids combined with the application of a comprehensive best-fit approach based on morphology was employed to place the new fossil taxon in the phylogenetic context of the African cichlids. The data reveal that the fossil specimens can be assigned to the tribe Oreochromini within the haplotilapiines. †Oreochromimos kabchorensis gen. et sp. nov. shows a mosaic set of characters bearing many similarities to the almost pan-African Oreochromis and the East African lake-endemic Alcolapia. As the striking diversity of present-day African cichlids, with 1100 recognised species, has remained largely invisible in the fossil record, the material described here adds significantly to our knowledge of the Miocene diversity of the group. It effectively doubles the age of a fossil calibration point, which has hitherto been used to calibrate divergence times of the East African cichlids in molecular phylogenetic investigations. Furthermore, the comparative dataset derived from extant cichlids presented here will greatly facilitate the classification of fossil cichlids in future studies.
Enhancement of Cardiac Store Operated Calcium Entry (SOCE) within Novel Intercalated Disk Microdomains in Arrhythmic Disease
Authors: Bonilla Ingrid M. , Belevych Andriy E. , Baine Stephen , Stepanov Andrei , Mezache Louisa , Bodnar Tom , Liu Bin , Volpe Pompeo , Priori Silvia , Weisleder Noah , Sakuta Galina , Carnes Cynthia A. , Radwański Przemysław B. , Veeraraghavan Rengasayee , Gyorke Sandor
Published: July 2019

Store-operated Ca2+ entry (SOCE), a major Ca2+ signaling mechanism in non-myocyte cells, has recently emerged as a component of Ca2+ signaling in cardiac myocytes. Though it has been reported to play a role in cardiac arrhythmias and to be upregulated in cardiac disease, little is known about the fundamental properties of cardiac SOCE, its structural underpinnings or effector targets. An even greater question is how SOCE interacts with canonical excitation-contraction coupling (ECC). We undertook a multiscale structural and functional investigation of SOCE in cardiac myocytes from healthy mice (wild type; WT) and from a genetic murine model of arrhythmic disease (catecholaminergic ventricular tachycardia; CPVT). Here we provide the first demonstration of local, transient Ca2+entry (LoCE) events, which comprise cardiac SOCE. Although infrequent in WT myocytes, LoCEs occurred with greater frequency and amplitude in CPVT myocytes. CPVT myocytes also evidenced characteristic arrhythmogenic spontaneous Ca2+ waves under cholinergic stress, which were effectively prevented by SOCE inhibition. In a surprising finding, we report that both LoCEs and their underlying protein machinery are concentrated at the intercalated disk (ID). Therefore, localization of cardiac SOCE in the ID compartment has important implications for SOCE-mediated signaling, arrhythmogenesis and intercellular mechanical and electrical coupling in health and disease.
Facile synthesis of g-C3N4(0.94)/CeO2(0.05)/Fe3O4(0.01) nanosheets for DFT supported visible photocatalysis of 2-Chlorophenol
Authors: Rashid Jamshaid , Parveen Nadia , Iqbal Aneela , Awan Saif Ullah , Iqbal Naseem , Talib Shamraiz Hussain , Hussain Naveed , Akram Bilal , Ulhaq Ata , Ahmed Bilal , Xu Ming
Published: July 2019

Visible light active g-C3N4(0.94)/CeO2(0.05)/Fe3O4(0.01)ternary composite nanosheets were fabricated by facile co-precipitation routes. The density functional theory (DFT) computations investigated changes in geometry and electronic character of g-C3N4with CeO2and Fe3O4addition. Chemical and surface characterizations were explored with XRD, XPS, SEM, TEM, PL, DRS and Raman measurements. DRS and PL spectroscopy evidenced the energy band gap tailoring from 2.68 eV for bulk g-C3N4and 2.92 eV for CeO2to 2.45 eV for the ternary nanocomposite. Efficient electron/hole pair separation, increase in red-ox species and high exploitation of solar spectrum due to band gap tailoring lead to higher degradation efficiency of g-C3N4(0.94)/CeO2(0.05)/Fe3O4(0.01). Superior sun light photocatalytic breakdown of 2-Chlorophenol was observed with g-C3N4having CeO2loading up to 5 wt%. In case of ternary nanocomposites deposition of 1 wt% Fe3O4over g-C3N4/CeO2binary composite not only showed increment in visible light catalysis as predicted by the DFT studies, but also facilitated magnetic recovery. The g-C3N4(0.94)/CeO2(0.05)/Fe3O4(0.01)nanosheets showed complete mineralization of 25 mg.L−12-CP(aq)within 180 min exposure to visible portion of sun light and retained its high activity for 3 consecutive reuse cycles. The free radical scavenging showed superoxide ions and holes played a significant role compared to hydroxyl free radicals while chromatographic studies helped establish the 2-CP degradation mechanism. The kinetics investigations revealed 2.55 and 4.04 times increased rate of reactions compared to pristine Fe3O4and CeO2, showing highest rate constant value of 18.2 × 10−3 min−1for the ternary nanocomposite. We present very persuasive results that can be beneficial for exploration of further potential ofg-C3N4(0.94)/CeO2(0.05)/Fe3O4(0.01)in advance wastewater treatment systems.
Towards understanding the effects of heat and humidity on ageing of a NASA standard pyrotechnic igniter
Authors: Oh Juyoung , Jang Seung-gyo , Yoh Jack J.
Published: July 2019

Ageing of pyrotechnic substance, primarily fuel oxidisation, can cause changes in composition that degrade their performance. This study investigates the effect of ageing on zirconium potassium perchlorate (ZPP), a widely used NASA Standard Initiator. Although prior studies have investigated the effects of accelerated ageing on ZPP, this is the first to conduct kinetic analyses at different relative humidity (RH) levels. Here, both thermal and kinetic analyses are conducted for a variety of hygrothermal ageing cases in order to replicate the natural ageing process. X-ray photoelectron spectroscopy (XPS) results reveal that oxidant levels drop and zirconium dioxide levels rise as ZPP ages. Lower heats of reaction and increases in activation energy were also observed under the RH conditions. Calculations using van’t Hoff equation indicate that moisture shortened the lifespan of the unaged ZPP up to about 85% under extreme RH conditions, while significantly deteriorating the heat of reaction, sensitivity, and thus increased the risk of a misfire.