Insights from chemical systems into Turing-type morphogenesis.

In 1952, Alan Turing proposed a theory showing how morphogenesis could occur from a simple two morphogen reaction-diffusion system [Turing, A. M. (1952) Phil. Trans. R. Soc. Lond. A 237, 37-72. (doi:10.1098/rstb.1952.0012)]. While the model is simple, it has found diverse applications in fields such as biology, ecology, behavioural science, mathematics and chemistry. Chemistry in particular has made significant contributions to the study of Turing-type morphogenesis, providing multiple reproducible experimental methods to both predict and study new behaviours and dynamics generated in reaction-diffusion systems. In this review, we highlight the historical role chemistry has played in the study of the Turing mechanism, summarize the numerous insights chemical systems have yielded into both the dynamics and the morphological behaviour of Turing patterns, and suggest future directions for chemical studies into Turing-type morphogenesis. This article is part of the theme issue 'Recent progress and open frontiers in Turing's theory of morphogenesis'.

On the possibility of spontaneous chemomechanical oscillations in adsorptive porous media.

We derive general conditions for the emergence of sustained chemomechanical oscillations from a non-oscillatory adsorption/desorption reaction in a gas/solid porous medium. The oscillations arise from the nonlinear response of the solid matrix to the loading of the adsorbed species. More particularly, we prove that, in order for oscillations to occur, adsorption of the gas must in general cause a swelling of the solid matrix. We also investigate the prototypical case of Langmuir kinetics both numerically and analytically.This article is part of the theme issue 'Dissipative structures in matter out of equilibrium: from chemistry, photonics and biology (part 2)'.

Speed of traveling fronts in a sigmoidal reaction-diffusion system.

We study a sigmoidal version of the FitzHugh-Nagumo reaction-diffusion system based on an analytic description using piecewise linear approximations of the reaction kinetics. We completely describe the dynamics of wave fronts and discuss the properties of the speed equation. The speed diagrams show front bifurcations between branches with one, three, or five fronts that differ significantly from the classical FitzHugh-Nagumo model. We examine how the number of fronts and their speed vary with the model parameters. We also investigate numerically the stability of the front solutions in a case when five fronts exist.

"Ask me what I need": A call for shifting responsibility upwards and creating inclusive learning environments in clinical placement.

BACKGROUND: Ontario's human-rights legislation and institutions' support for students with disabilities have influenced these students' increased enrolment in the postsecondary environment. Yet more attention is paid to in-classroom than to out-of-classroom experiences. Students with disabilities enrolled in nursing are least likely to be accommodated. This has significant implications for access and equity upon graduation, as clinical placements are a bridge between school and employment. OBJECTIVES: To explore clinical instructors' and students who identify with disabilities' perspectives on nursing clinical placements. METHOD: A descriptive case-report was used: interactive take-home diaries were completed and semi-structured interviews were conducted with clinical instructors (n-14) and nursing students with disabilities (n-14) in Ontario. An iterative inductive analysis was undertaken. RESULTS: Three overarching themes were identified: (a) an immovable clinical environment in relation to technology and time, (b) a perceived conflict between nursing and disability identity, and (c) a need to shift responsibility upwards while listening to lived experience. The clinical environment is a highly contested space; different identity groups have distinct roles and differing degrees of power within it. CONCLUSION: Our research calls for a shift in the nursing landscape to be led by education and medical institutions that can build supportive networks, develop clear policies and listen to nursing students with disabilities.

Modeling of turing structures in the chlorite--iodide--malonic Acid--starch reaction system.

Recent experiments on the chlorite-iodide-malonic acid-starch reaction in a gel reactor give the first evidence of the existence of the symmetry breaking, reaction-diffusion structures predicted by Turing in 1952. A five-variable model that describes the temporal behavior of the system is reduced to a two-variable model, and its spatial behavior is analyzed. Structures have been found with wavelengths that are in good agreement with those observed experimentally. The gel plays a key role by binding key iodine species, thereby creating the necessary difference in the effective diffusion coefficients of the activator and inhibitor species, iodide and chlorite ions, respectively.

Transient turing structures in a gradient-free closed system.

Transient, symmetry-breaking, spatial patterns were obtained in a closed, gradient-free, aqueous medium containing chlorine dioxide, iodine, malonic acid, and starch at 4 degrees to 5 degrees C. The conditions under which these Turing-type structures appear can be accurately predicted from a simple mathematical model of the system. The patterns, which consist of spots, stripes, or both spots and stripes, require about 25 minutes to form and remain stationary for 10 to 30 minutes.

Inwardly rotating spiral waves in a reaction-diffusion system.

Almost 30 years have passed since the discovery of concentric (target) and spiral waves in the spatially extended Belousov-Zhabotinsky (BZ) reaction. Since then, rotating spirals and target waves have been observed in a variety of physical, chemical, and biological reaction-diffusion systems. All of these waves propagate out from the spiral center or pacemaker. We report observations of inwardly rotating spirals found in the BZ system dispersed in water droplets of a water-in-oil microemulsion. These "antispirals" were also generated in computer simulations.

Arm splitting and backfiring of spiral waves in media displaying local mixed-mode oscillations.

The behavior of spiral waves is investigated in a model of reaction-diffusion media supporting local mixed-mode oscillations for a range of values of a control parameter. This local behavior is accompanied by the formation of nodes, at which the arms of the simple spiral waves begin to split. With further parameter changes, this nodal structure loses stability, becoming quite irregular, eventually evolving into turbulence, while the local dynamics increases in complexity. The breakup of the spiral waves arises from a backfiring instability of the nodes induced by the arm splitting. This process of spiral breakup in the presence of mixed-mode oscillations represents an alternative to previously described scenarios of instability of line defects and superspirals in media with period-doubling and quasiperiodic oscillations, respectively.

Examining predictors of help-seeking behaviours in patients with mood and anxiety symptoms.

Relatively little is known about individual characteristics that factor into the decision to seek help for mood and anxiety symptoms. The current study was undertaken in order to examine factors that predict the likelihood of seeking help for mood and anxiety symptoms amongst a clinical population. Patients (N = 278) referred to a tertiary care clinic in Toronto, Canada were asked about their help-seeking behaviours (HSB) through initial intake assessments and self-administered questionnaires, including the Beck Anxiety Inventory, Anxiety Sensitivity Index, Intolerance of Uncertainty Scale, and Beck Depression Inventory-II. Correlates of anxiety and depression were examined to determine whether they could predict HSB amongst individuals with Generalized Anxiety Disorder with or without comorbid Major Depressive Disorder, as well as Panic Disorder and Social Anxiety Disorder. Psychiatric diagnoses were then examined to determine whether comorbidity and demographic factors impacted HSB. Results indicated that there were significant differences in anxiety and depression correlating mainly with anxiety sensitivity, as a predictor of HSB, and that there is a complex relationship between disorder type and demographic variables. The implications of these findings and suggested targeted interventions are discussed.

Targeting the PI3K/Akt pathway in murine MDS/MPN driven by hyperactive Ras.

Chronic and juvenile myelomonocytic leukemias (CMML and JMML) are myelodysplastic/myeloproliferative neoplasia (MDS/MPN) overlap syndromes that respond poorly to conventional treatments. Aberrant Ras activation because of NRAS, KRAS, PTPN11, CBL and NF1 mutations is common in CMML and JMML. However, no mechanism-based treatments currently exist for cancers with any of these mutations. An alternative therapeutic strategy involves targeting Ras-regulated effector pathways that are aberrantly activated in CMML and JMML, which include the Raf/MEK/ERK and phosphoinositide-3'-OH kinase (PI3K)/Akt cascades. Mx1-Cre, Kras(D12) and Mx1-Cre, Nf1(flox/)(-) mice accurately model many aspects of CMML and JMML. Treating Mx1-Cre, Kras(D12) mice with GDC-0941 (also referred to as pictilisib), an orally bioavailable inhibitor of class I PI3K isoforms, reduced leukocytosis, anemia and splenomegaly while extending survival. However, GDC-0941 treatment attenuated activation of both PI3K/Akt and Raf/MEK/ERK pathways in primary hematopoietic cells, suggesting it could be acting through suppression of Raf/MEK/ERK signals. To interrogate the importance of the PI3K/Akt pathway specifically, we treated mice with the allosteric Akt inhibitor MK-2206. This compound had no effect on Raf/MEK/ERK signaling, yet it also induced robust hematologic responses in Kras and Nf1 mice with MPN. These data support investigating PI3K/Akt pathway inhibitors as a therapeutic strategy in JMML and CMML patients.

Regulatory control and function of alanine dehydrogenase from a thermophilic bacillus.

L-alanine dehydrogenase, (L-alanine:NAD+ oxidoreductase (deaminating), EC 1.4.1.1) synthesis in a thermophilic bacillus was found to be subjected to regulatory control. Addition of L- and D-alanine and L-serine to cultures growing in the presence of either succinate or pyruvate, induced an accelerated synthesis of the alanine dehydrogenase enzyme. Synthesis of the enzyme was dependent on the presence of inducer during growth and was arrested by addition of glucose. Catabolite repression by glucose was abolished by limiting the ammonium concentration during growth. The apparent Km values of the substrates involved in alanine dehydrogenase activity are as follows (M): NH4+, 4-10(-2); pyruvate, 5-10(-4); NADH, 6-10(-5); L-alanine, 3.1-10(-3) and NAD, 2-10(-4). Alanine dehydrogenase activity was measurable at temperatures below the minimal growth temperature (at 25 degrees C) and the highest activity was found at 65 degrees C; heat denaturation occurred at 80 degrees C.

Relationship between culture density and catabolite repression of an inducible aliphatic amidase in a thermophilic bacillus.

A direct correlation between the absorbance of a thermophilic bacillus and specific amidase activity was observed, which was found to depend on the cell density of the culture rather than on the time of contact of the culture with the inducer. Dilution of high density cultures caused the specific amidase activity to decrease. Environmental factors such as pH, concentration of inducer or degree of aeration, and level of NH+4 and glutamate had no effect on amidase synthesis. The decrease in amidase activity upon dilution could not be ascribed to destruction by oxygen or by inactivation or decay. Several lines of evidence suggest that catabolite repression is responsible for the phenomenon described. Succinate-grown cultures gave a stronger dilution effect thatn glutamate-grown cells. The mutant strain E-21, relatively resistant to catabolite repression, did not show the characteristic dilution effect nor the direct correlation between absorbance and specific amidase activity.

The PRIME North America randomized double-blind clinical trial of olanzapine versus placebo in patients at risk of being prodromally symptomatic for psychosis. II. Baseline characteristics of the "prodromal" sample.

The first double-blind placebo-controlled clinical trial of an atypical neuroleptic medication is being conducted in symptomatic treatment-seeking patients meeting new diagnostic criteria for a putative prodromal syndrome. This identifies them as being at high risk for developing psychosis in the near future. The study aims include prevention of psychosis onset and disability, as well as palliation of ongoing symptomatology. The purpose of this report is to describe the study's "prodromally symptomatic" sample at baseline, i.e., at intake immediately prior to randomization and prior to receiving study medication. Sixty treatment-seeking patients meeting prodromal inclusion criteria were recruited across four sites: New Haven, CT (n=39), Toronto, Ontario (n=9), Calgary, Alberta (n=6), and Chapel Hill, NC (n=6). The sample was young (median age 16), largely male (65%), and came from families with high titers of serious mental illness (44%). Most patients (93%) met criteria for the Attenuated Positive Symptom (APS) prodromal syndrome and presented with significant but nonpsychotic suspiciousness, perceptual aberrations, unusual thought content, and conceptual disorganization. They presented with minimal to mild affective symptoms and substance use/abuse, but they were quite functionally compromised (mean Global Assessment of Functioning (GAF) score=42). The prodromal sample was compared with other clinical-trial samples of adolescent depression, adolescent mania, and first episode schizophrenia. Prodromal patients proved not to be depressed or manic. They were less severely ill than untreated first episode schizophrenia but more severely ill than treated first episode schizophrenia. While not psychotically disabled, these patients nevertheless present with a clinical syndrome. Subsequent reports will detail the effects of drug versus placebo on prodromal symptoms, neuropsychological profile, and the rate of conversion to psychosis.

Coexistence, competition and hypercyclic interaction in some systems of biological interest.

Systems of differential equations which describe the selective behavior of self-replicating macromolecules or species under the constraint of constant organization are classified according to their coexistent and competitive behavior as well as the cooperative and/or hypercyclic nature of the inter-species interactions. Two theorems are proved which relate the possibilities for coexistence and competition among species to the presence or absence of hypercyclic linkages.

Cooperative and non-cooperative binding of large ligands to a finite one-dimensional lattice. A model for ligand-oligonucleotide interactions.

A combinatorial approach is employed to calculate exact expressions for the extent of binding to a finite one dimensional lattice of ligands which cover more than one lattice site. The binding may be either cooperative or non-cooperative. It is found that the assumption of an effectively infinite lattice is generally a good one, except with relatively low concentrations of strongly cooperative ligands. An approach to analyzing experimental data is suggested which makes explicit use of the lattice length dependence of binding to extract more information about the binding parameters than can be obtained using the infinite lattice approximation. It is shown that irreversible binding cannot be viewed as a limiting case of reversible binding. The reasons for this difference are discussed, and expressions for the extent of irreversible binding are derived.

Selection and self-organization of self-reproducing macromolecules under the constraint of constant flux.

We investigate the dynamic behavior of a set of self-reproducing macromolecules (e.g., polynucleotides) under conditions such that the fluxes of all monomer units into the system are kept constant. Such conditions might prevail in an evolution reactor or in certain naturally occurring situations. A general set of equations is developed to describe the behavior of both the macromolecule and the monomer concentrations. The question of how the rate of macromolecule synthesis varies with the monomer levels is discussed briefly. With the help of several physically reasonable approximations, we obtain an exact solution for a simplified constant flux system. Comparison with the corresponding system under the constraint of constant overall organization reveals important similarities, most notably in the existance and composition of quasispecies. Given the same set of physical and chemical parameters, a system subject to constant flux will always evolve toward selective equilibrium more slowly than under the constraint of constant organization.

Cooperative ligand-lattice binding. Approximate Gaussian binding distribution.

Nearest-neighbor cooperative binding of a ligand covering n sites and binding with equilibrium constant K and cooperativity factor omega to a large molecule with m binding sites (m much greater than n omega, n/omega) can be approximately described by a Gaussian distribution P(q-qmax), where q is the number of ligands bound and qmax the most probable value of q. The variance of the Gaussian is equal to the derivative dqmax/d ln(L), where L is the free ligand concentration. This variance, sigma 2, is a complicated function of qmax. However, in the limits of very large cooperativity, omega much greater than 1, very large anticooperativity, omega much less than 1, or noncooperativity, omega = 1, simpler expressions for sigma 2 can be given. For qmax = m/(n + 1), where the most probable number of bound ligands equals the number of free binding sites, sigma 2 has a particularly simple form: sigma 2 = 2m omega 1/2/(n + 1)3. The Gaussian and the infinite lattice approximations for the average number of ligands bound are good approximations only if sigma is much smaller than the number of binding sites. The variance may therefore provide an easy check on the validity of the infinite lattice approximation, which is commonly used to analyze experimental binding data.

Glycolytic pH oscillations in a flow reactor.

A new type of flow reactor (UCSTR) has been developed that uses anisotropic ultrafiltration membranes in a continuous flow stirred tank reactor (CSTR) to facilitate the study of nonlinear enzyme catalyzed reactions. The design allows the study of enzymes with subunit molecular weights > or = 9000 dalton and protein concentrations up to at least 2 mg/ml under flow conditions with a residence time of 3 min or more, in a reactor of volume 1.67 ml. The UCSTR allows continuous potentiometric or spectrophotometric measurement without design change. Calibration of reactor performance was carried out by reproducing pH oscillations in the ferrocyanide-hydrogen peroxide reaction. Experimental verification of oscillatory glycolysis in the UCSTR was carried out with extract of rat skeletal muscle. Input feeds were fructose-6-phosphate and ATP with low concentrations of phosphate as buffer. Oscillations in pH, sustained for over eight hours, were observed. A six-step mechanism, including product activation and substrate inhibition, seven concentration variables, and four enzymes sufficed simulate the pH oscillations observed in the UCSTR.