Hydrodynamic orienting of asymmetric microobjects under gravity

It is shown that nonsymmetric microobjects orient while settling under gravity in a viscous fluid. To analyze this process, a simple shape is chosen: a non-deformable `chain'. The chain consists of two straight arms, made of touching solid spheres. In the absence of external torques, the spheres are free to spin along the arms. The motion of the chain is evaluated by solving the Stokes equations with the use of the multipole method. It is demonstrated that the spinning beads speed up sedimentation by a small amount, and increase the orientation rate significantly in comparison to the corresponding rigid chain. It is shown that chains orient towards the V-shaped stable stationary configuration. In contrast, rods and star-shaped microobjects do not rotate. The hydrodynamic orienting is relevant for efficient swimming of non-symmetric microobjects, and for sedimenting suspensions.Comment: 9 page

Neuropsychiatric manifestations of some tropical diseases

Some tropical diseases are the direct cause of severe disturbances of cerebral function while others affect only finer cerebral systems controlling fears, anxiety and personality traits. The mechanisms by which psychiatric symptoms are produced in tropical disorders are not any different from the mechanisms that relate to any physical disorders. Neuropsychiatric symptoms may be caused by a number of different mechanisms including bacterial toxins, release of cytokines, hyperthermia, shock (poor perfusion), acute renal insufficiency, pulmonary failure (shock lung), coagulopathy, disruption of the blood-brain barrier, and/or the nest of pathogens into the central nervous system. The following tropical illnesses can be associated with neuropsychiatric symptoms: neurocysticercosis, malaria, trypanosomiasis, dengue, and schistosomiasis. Neurological and psychiatric impairments induced by tropical diseases both represent a major category of invalidating disorders, which cause profound changes in the nervous system functions, often associated with severe sequels or late-onset disturbances. It is therefore important to disseminate knowledge of the neuropsychiatric symptoms accompanying tropical diseases in order to increase the awareness of these problems and challenges

Equilibrium and nonequilibrium thermodynamics of particle-stabilized thin liquid films

Our recent quasi-two-dimensional thermodynamic description of thin-liquid films stabilized by colloidal particles is generalized to describe nonuniform equilibrium states of films in external potentials and nonequilibrium transport processes produced in the film by gradients of thermodynamic forces. Using a Monte--Carlo simulation method, we have determined equilibrium equations of state for a film stabilized by a suspension of hard spheres. Employing a multipolar-expansion method combined with a flow-reflection technique, we have also evaluated the short-time film-viscosity coefficients and collective particle mobility.Comment: 16 pages, 10 figure

Dynamics of fibers in a wide microchannel

Dynamics of single flexible non-Brownian fibers, tumbling in a Poiseuille flow between two parallel solid plane walls, is studied with the use of the hydromultipole numerical code, based on the multipole expansion of the Stokes equations, corrected for lubrication. It is shown that for a wide range of the system parameters, the migration rate towards the middle plane of the channel increases for fibers, which are closer to a wall, or are more flexible (less stiff), or are longer. The faster motion towards the channel center is accompanied by a slower translation along the flow and a larger fiber deformation.Comment: 9 pages, 16 figure

Bifunctional TaqII restriction endonuclease: redefining the prototype DNA recognition site and establishing the Fidelity Index for partial cleaving

<p>Abstract</p> <p>Background</p> <p>The TaqII enzyme is a member of the <it>Thermus </it>sp. enzyme family that we propounded previously within Type IIS restriction endonucleases, containing related thermophilic bifunctional endonucleases-methyltransferases from various <it>Thermus </it>sp.: TaqII, Tth111II, TthHB27I, TspGWI, TspDTI and TsoI. These enzymes show significant nucleotide and amino acid sequence similarities, a rare phenomenon among restriction endonucleases, along with similarities in biochemical properties, molecular size, DNA recognition sequences and cleavage sites. They also feature some characteristics of Types I and III.</p> <p>Results</p> <p>Barker et al. reported the Type IIS/IIC restriction endonuclease TaqII as recognizing two distinct cognate site variants (5'-GACCGA-3' and 5'-CACCCA-3') while cleaving 11/9 nucleotides downstream. We used four independent methods, namely, shotgun cloning and sequencing, restriction pattern analysis, digestion of particular custom substrates and GeneScan analysis, to demonstrate that the recombinant enzyme recognizes only 5'-GACCGA-3' sites and cleaves 11/9 nucleotides downstream. We did not observe any 5'-CACCCA-3' cleavage under a variety of conditions and site arrangements tested. We also characterized the enzyme biochemically and established new digestion conditions optimal for practical enzyme applications. Finally, we developed and propose a new version of the Fidelity Index - the Fidelity Index for Partial Cleavage (FI-PC).</p> <p>Conclusions</p> <p>The DNA recognition sequence of the bifunctional prototype TaqII endonuclease-methyltransferase from <it>Thermus aquaticus </it>has been redefined as recognizing only 5'-GACCGA-3' cognate sites. The reaction conditions (pH and salt concentrations) were designed either to minimize (pH = 8.0 and 10 mM ammonium sulphate) or to enhance star activity (pH = 6.0 and no salt). Redefinition of the recognition site and reaction conditions makes this prototype endonuclease a useful tool for DNA manipulation; as yet, this enzyme has no practical applications. The extension of the Fidelity Index will be helpful for DNA manipulation with enzymes only partially cleaving DNA.</p

identification of quantitative trait loci affecting production and biochemical traits in a unique japanese quail resource population

ABSTRACT The objective of the current study was to identify QTL associated with body weight, growth rate, egg quality traits, concentration of selected blood plasma, and yolk lipids as well as concentration of selected macro- and microelements, color, pH, basic chemical composition, and drip loss of breast muscle of Japanese quail (Coturnix japonica). Twenty-two meat-type males (line F33) were crossed with twenty-two laying-type females (line S22) to produce a generation of F1 hybrids. The F2 generation was created by mating 44 randomly chosen F1 hybrids, which were full siblings. The birds were individually weighed from the first to eighth week of age. At the age of 19 wk, 2 to 4 eggs were individually collected from each female and an analysis of the egg quality traits was performed. At slaughter, blood and breast muscles were collected from 324 individuals of the resource population. The basic chemical composition, concentration of chosen macro- and microelements, color, pH, and drip loss were determined in the muscle samples. The concentration of chosen lipids was determined in egg yolk and blood plasma. In total, 30 microsatellite markers located on chromosome 1 and 2 were genotyped. QTL mapping including additive and dominance genetic effects revealed 6 loci on chromosome 1 of the Japanese quail affecting the egg number, egg production rate, egg weight, specific gravity, egg shell weight, concentration of Na in breast muscle. In turn, there were 9 loci on chromosome 2 affecting the body weight in the first, fourth, and sixth week of age, growth rate in the second and seventh week of age, specific gravity, concentration of K and Cu in breast muscle, and the levels of triacylglycerols in blood plasma. In this study, QTL with a potential effect on the Na, K, and Cu content in breast muscles in poultry and on specific gravity in the Japanese quail were mapped for the first time

Scattering series in mobility problem for suspensions

The mobility problem for suspension of spherical particles immersed in an arbitrary flow of a viscous, incompressible fluid is considered in the regime of low Reynolds numbers. The scattering series which appears in the mobility problem is simplified. The simplification relies on the reduction of the number of types of single-particle scattering operators appearing in the scattering series. In our formulation there is only one type of single-particle scattering operator.Comment: 11 page

Microbiological characterization of psychro-mezo-thermophilic endospore-producing Bacillus species isolated from industrial probiotics particles

Probiotics are either bacteria which naturally and steadily reside in the human gastrointestinal tract (GIT), such as certain Lactobacillus sp., or are bimodal, i.e. capable of proliferation both in GIT, as well as in the external environment, these include certain Bacillus sp. In this report we characterize a mixture of Bacillus species present in widely used commercial preparations, present in lyophilized particles. Four endospore-producing species were detected through MALDI TOF mass spectrometry and microbiological analyses: Bacillus mojavensis, Bacillus vallismortis, Bacillus pumilus and Bacillus subtilis. They exhibit an exceptionally wide range of growth temperature: from 20°C to 58oC, thus they are environmentally multi-modal and cover areas occupied both by psychrophiles, mesophiles and thermophiles. Thus, they are exceedingly adaptive to different environments and able to proliferate in highly diverse niches, including the human GIT. Considering that all of the four characterized species have similar characteristics, including endospore production and growth in a wide range of pH, which allows them to survive in transiently low pH during GIT passage, as well as their widespread occurrence in the environment, it is very likely that they have evolved along with mammals as their natural, transient or permanent, GIT inhabitants, though they are not limited to this niche. Acknowledgments: the project was supported GRUPA INCO S.A., ul. Wspolna 25, 00-519 Warsaw, Poland, NCBiR grant no POIG.01.04.00-02-181/13 and by University of Gdansk task funds no. DS 530-8645-D509-15

Construction of bionanoparticles with the use of a recombinant DNA vector-enzymatic system, containing artificial poliepitopic proteins, for the delivery of new generation vaccines

DNA/RNA amplification technologies, such as the Polymerase Chain Reaction have revolutionized modern biology, medical diagnostics and forensic analyses, among others. A number of alternative nucleic acids amplification methods have been developed, tailored to specific applications. Here we present a refined version of a DNA fragment amplification technology, which enables the construction of ordered concatemers in a head-to-tail-orientation. A very high number of DNA segments, at least 500 copies, can be consecutively linked. Other key features include: (i) the application of a dedicated vector-enzymatic system, including selected subtype IIS restriction endonucleases, which has been designed to automatically generate long Open Reading Frames and (ii) an amplification-expression vector with a built-in strong transcription promoter along with optimal translation initiation signals, which allow for a high level of expression of the constructed artificial poliepitopic protein. This highly advanced technology makes it possible to obtain ordered polymers of monomeric, synthetic or natural, DNA far beyond the capabilities of current chemical synthesis methods. The constructed poliepitopic proteins are further used for construction of several types of nanoparticles, including inclusion bodies and bacteriophages, containing multiple genetic fusion with poliepitopic proteins.The technology offers significant advances in a number of scientific, industrial and medical applications, including new vaccines and tissue pro-regenerative methods. The technology is protected by an international patent application and is available for licensing. Acknowledgments: project was supported by National Center for Research and Development, Warsaw, Poland, grant no STRATEGMED1/235077/9/NCBR/2014 and POIG.01.04.00-22-140/12; Jagiellonian Center for Innovation, Krakow, Poland; SATUS VC, Warsaw, Poland and BioVentures Institute Ltd, Poznan, Poland

Near-wall diffusion tensor of an axisymmetric colloidal particle

Hydrodynamic interactions with confining boundaries often lead to drastic changes in the diffusive behaviour of microparticles in suspensions. For axially symmetric particles, earlier numerical studies have suggested a simple form of the near-wall diffusion matrix which depends on the distance and orientation of the particle with respect to the wall, which is usually calculated numerically. In this work, we derive explicit analytical formulae for the dominant correction to the bulk diffusion tensor of an axially symmetric colloidal particle due to the presence of a nearby no-slip wall. The relative correction scales as powers of inverse wall-particle distance and its angular structure is represented by simple functions in sines and cosines of the particle’s inclination angle to the wall. We analyse the correction for translational and rotational motion, as well as the translation-rotation coupling. Our findings provide a simple approximation to the anisotropic diffusion tensor near a wall, which completes and corrects relations known from earlier numerical and theoretical findings.M.L. acknowledges support from the National Center of Science Grant No. 2012/07/N/ST3/03120. Part of the research has been conducted under a David Crighton Fellowship awarded to M.L. at the University of Cambridge, and within the Mobility Plus Fellowship awarded to M.L. by the Polish Ministry of Science and Higher Education.This is the author accepted manuscript. The final version is available from AIP Publishing via http://dx.doi.org/10.1063/1.495872