Folding and cytoplasm viscoelasticity contribute jointly to chromosome dynamics

The chromosome is a key player of cell physiology, and its dynamics provides valuable information about its physical organization. In both prokaryotes and eukaryotes, the short-time motion of chromosomal loci has been described as a Rouse model in a simple or viscoelastic medium. However, little emphasis has been put on the role played by the folded organization of chromosomes on the local dynamics. Clearly, stress-propagation, and thus dynamics, must be affected by such organization, but a theory allowing to extract such information from data, e.g.\ of two-point correlations, is lacking. Here, we describe a theoretical framework able to answer this general polymer dynamics question, and we provide a general scaling analysis of the stress-propagation time between two loci at a given arclength distance along the chromosomal coordinate. The results suggest a precise way to detect folding information from the dynamical coupling of chromosome segments. Additionally, we realize this framework in a specific theoretical model of a polymer with variable-range interactions in a viscoelastic medium characterized by a tunable scaling exponent, where we derive analytical estimates of the correlation functions.Comment: 14 pages including supplementary material

Foundations of plasmas for medical applications

Plasma medicine refers to the application of nonequilibrium plasmas at approximately body temperature, for therapeutic purposes. Nonequilibrium plasmas are weakly ionized gases which contain charged and neutral species and electric fields, and emit radiation, particularly in the visible and ultraviolet range. Medically-relevant cold atmospheric pressure plasma (CAP) sources and devices are usually dielectric barrier discharges and nonequilibrium atmospheric pressure plasma jets. Plasma diagnostic methods and modelling approaches are used to characterize the densities and fluxes of active plasma species and their interaction with surrounding matter. In addition to the direct application of plasma onto living tissue, the treatment of liquids like water or physiological saline by a CAP source is performed in order to study specific biological activities. A basic understanding of the interaction between plasma and liquids and bio-interfaces is essential to follow biological plasma effects. Charged species, metastable species, and other atomic and molecular reactive species first produced in the main plasma ignition are transported to the discharge afterglow to finally be exposed to the biological targets. Contact with these liquid-dominated bio-interfaces generates other secondary reactive oxygen and nitrogen species (ROS, RNS). Both ROS and RNS possess strong oxidative properties and can trigger redox-related signalling pathways in cells and tissue, leading to various impacts of therapeutic relevance. Dependent on the intensity of plasma exposure, redox balance in cells can be influenced in a way that oxidative eustress leads to stimulation of cellular processes or oxidative distress leads to cell death. Currently, clinical CAP application is realized mainly in wound healing. The use of plasma in cancer treatment (i.e. plasma oncology) is a currently emerging field of research. Future perspectives and challenges in plasma medicine are mainly directed towards the control and optimization of CAP devices, to broaden and establish its medical applications, and to open up new plasma-based therapies in medicine

Epibiontic and endobiontic polychaetes of Geodia cydonium (Porifera, Demospongiae) from the Mediterranean Sea

Polychaete assemblages associated to the sponge Geodia cydonium were investigated at two sampling sites in the Mediterranean Sea: Porto Cesareo Basin (Apulia) and Marsala Lagoon (Sicily), both characterized by sheltered hydrodynamic conditions. Samples were seasonally performed during 1997, in order to compare the assemblages coming from the two localities studied, considering separately the internal and external tissues of the sponge, and with the aim of evaluating the influence of sponge size on polychaete colonization. The examined sponge is characterized by a peculiar stratification of its tissues: an external thick and hard layer, the cortex, and an internal softer one, the choanosome. Statistical analysis showed that this was the main factor controlling polychaete assemblage, with the internal tissue, less rich and diversified, appearing impoverished with respect to the external layer. A similarity in species composition was observed between sites, even though some differences were evidenced in the abundance of some species, mainly reflecting differences in local environmental conditions. Species richness and density increased with the increasing sponge size. Such a situation is particularly evident at Porto Cesareo, where sponges are covered by an algal layer which is particularly rich on the largest specimens, thus suggesting that most of the species of polychaetes were linked more to the neighbouring environment than to the sponge itself

Counting the learnable functions of geometrically structured data

Cover's function counting theorem is a milestone in the theory of artificial neural networks. It provides an answer to the fundamental question of determining how many binary assignments (dichotomies) of p points in n dimensions can be linearly realized. Regrettably, it has proved hard to extend the same approach to more advanced problems than the classification of points. In particular, an emerging necessity is to find methods to deal with geometrically structured data, and specifically with non-point-like patterns. A prominent case is that of invariant recognition, whereby identification of a stimulus is insensitive to irrelevant transformations on the inputs (such as rotations or changes in perspective in an image). An object is thus represented by an extended perceptual manifold, consisting of inputs that are classified similarly. Here, we develop a function counting theory for structured data of this kind, by extending Cover's combinatorial technique, and we derive analytical expressions for the average number of dichotomies of generically correlated sets of patterns. As an application, we obtain a closed formula for the capacity of a binary classifier trained to distinguish general polytopes of any dimension. These results extend our theoretical understanding of the role of data structure in machine learning, and provide useful quantitative tools for the analysis of generalization, feature extraction, and invariant object recognition by neural networks

Intrinsic dimension estimation for locally undersampled data

Identifying the minimal number of parameters needed to describe a dataset is a challenging problem known in the literature as intrinsic dimension estimation. All the existing intrinsic dimension estimators are not reliable whenever the dataset is locally undersampled, and this is at the core of the so called curse of dimensionality. Here we introduce a new intrinsic dimension estimator that leverages on simple properties of the tangent space of a manifold and extends the usual correlation integral estimator to alleviate the extreme undersampling problem. Based on this insight, we explore a multiscale generalization of the algorithm that is capable of (i) identifying multiple dimensionalities in a dataset, and (ii) providing accurate estimates of the intrinsic dimension of extremely curved manifolds. We test the method on manifolds generated from global transformations of high-contrast images, relevant for invariant object recognition and considered a challenge for state-of-the-art intrinsic dimension estimators

Habitat use and dispersal of the invasive crayfish Procambarus clarkii in ephemeral water bodies of Portugal.

We used radio-telemetry to analyze habitat use and dispersal of the invasive crayfish Procambarus clarkii in the extreme environmental conditions of a temporary river in southern Portugal. The rationale of this study was that an understanding of the properties that make this species a successful invader can be of help for the conservation of freshwater biodiversity. The results showed that: (1) crayfish displaced at a similar rate (ranging 2.5–38md 1) as other European populations; (2)movement was faster at night; (3) crayfish movement had no clear environmental correlates, except for water temperature; (4) peaks of more intense locomotion were intercalated with longer periods of slow or null speed; and (5) P. clarkii did not excavate burrows in the study habitat, but took refuge under boulders and most often occupied complex microhabitats (e.g., vegetated sections of the river). The conclusion was that, notwithstanding their extreme conditions, ephemeral water bodies in southern Europe are highly susceptible to invasion by P. clarkii

Preface: Bioplasmas and plasmas with liquids

The Bioplasma and Plasmas with Liquids joint conference of the COST Actions TD1208 Electrical discharges with liquids for future applications and MP1101 Biomedical applications of atmospheric pressure plasma technology was held in Bertinoro (Italy) on September 13-16, 2015. The purpose of the Bioplasma and Plasmas with Liquids joint conference was to bring together researchers of different fields, and to establish an open forum for presentation and discussion of the latest advances in the fields of electrical discharges with liquids and plasma medicine, by bridging the scientific communities associated with the COST Actions TD1208 Electrical discharges with liquids for future applications and MP1101 Biomedical applications of atmospheric pressure plasma technology

Rules, Roles, and Practices: Exploring School Social Worker Preparation for Practice

At present, there is significant variability in the United States in regards to pre-service education and licensing requirements for school social workers. Studies have suggested that this variability impacts practice and may limit perceptions of the profession. The state of New Mexico requires a Master of Social Work (MSW) degree in order to practice as a school social worker but does not require any school-specific coursework, fieldwork, or training. This mixed-methods study describes findings from a survey of 84 school social workers in New Mexico which assessed perceptions of their preparation for practice. Quantitative survey items suggested that participants felt generally unprepared for practice when they began, although school-based fieldwork and supervision by a school social worker positively impacted perceived preparation. Open-ended survey responses outlined specific challenges practitioners faced as they entered the field, described training or experiences they felt could have mediated these challenges, and presented pathways for professional growth taken by school social workers once they were in the field. Findings suggest that lack of school-specific training in the pre-service and early-career phases of practice presented concerns for practitioners and should be an area of focused attention for social work educators, researchers, and policy makers

Foundations of Plasmas for Medical Applications

Plasma medicine refers to the application of nonequilibrium plasmas at approximately body temperature, for therapeutic purposes. Nonequilibrium plasmas are weakly ionized gases which contain charged and neutral species and electric fields, and emit radiation, particularly in the visible and ultraviolet range. Medically-relevant cold atmospheric pressure plasma (CAP) sources and devices are usually dielectric barrier discharges and nonequilibrium atmospheric pressure plasma jets. Plasma diagnostic methods and modelling approaches are used to characterize the densities and fluxes of active plasma species and their interaction with surrounding matter. In addition to the direct application of plasma onto living tissue, the treatment of liquids like water or physiological saline by a CAP source is performed in order to study specific biological activities. A basic understanding of the interaction between plasma and liquids and bio-interfaces is essential to follow biological plasma effects. Charged species, metastable species, and other atomic and molecular reactive species first produced in the main plasma ignition are transported to the discharge afterglow to finally be exposed to the biological targets. Contact with these liquid-dominated bio-interfaces generates other secondary reactive oxygen and nitrogen species (ROS, RNS). Both ROS and RNS possess strong oxidative properties and can trigger redox-related signalling pathways in cells and tissue, leading to various impacts of therapeutic relevance. Dependent on the intensity of plasma exposure, redox balance in cells can be influenced in a way that oxidative eustress leads to stimulation of cellular processes or oxidative distress leads to cell death. Currently, clinical CAP application is realized mainly in wound healing. The use of plasma in cancer treatment (i.e. plasma oncology) is a currently emerging field of research. Future perspectives and challenges in plasma medicine are mainly directed towards the control and optimization of CAP devices, to broaden and establish its medical applications, and to open up new plasma-based therapies in medicine