Binding of the C-terminal sterile alpha motif (SAM) domain of human p73 to lipid membranes

The alpha splice variant of p73 (p73alpha), a homologue of the tumor suppressor p53, has close to its C terminus a sterile alpha motif (SAM), SAMp73, that is thought to be involved in protein-protein interactions. Here, we report the lipid binding properties of this domain. Binding was assayed against zwitterionic (phosphatidylcholine) and anionic (phosphatidic acid) lipids and was studied by different biophysical techniques, namely, circular dichroism and fluorescence spectroscopies and differential scanning calorimetry. These techniques unambiguously indicate that SAMp73 binds to lipids. The binding involves protein surface attachment and partial membrane penetration, accompanied by changes in SAMp73 structure.     

Stability and effect of ingestion on the levels of folate in plasma

The physiological demand of folates increases during adolescence, pregnancy and lactation due to the rapid growth and anabolic activity during these stages of life. The periconceptional deficiency of folates is a risk for the presence of neural tube defects. We studied the stability of folates concentration in plasma and the effect of ingestion of a breakfast rich in folates on the postprandial levels of this micronutrient, up to two hours after food intake. For the stability assay the samples were stored protected from light at -70 degrees C and analysed at time intervals of 1, 8, 30, 90 and 120 days. The mean folates concentration in plasma was higher in postprandial stage (8.9 ng/dl) that in fasting (7.9 ng/dl), which represents a statistically significant (p < 0.01) increase of 11%. This study confirms that fasting is important in folates determination for diagnosis and research purposes to establish deficiency prevalence of this micronutrient in a population. Concerning the stability of folates concentration, we did not find a significant difference between the several time analysis (p > 0.1); this suggests that folates concentrations in plasma remain stable under the experimental conditions described.     

Segregation of phosphatidic acid-rich domains in reconstituted acetylcholine receptor membranes

Purified Acetylcholine Receptor (AcChR) from Torpedo has been reconstituted at low (approximately 1:3500) and high (approximately 1:560) protein to phospholipid molar ratios into vesicles containing egg phosphatidylcholine, cholesterol, and different dimyristoyl phospholipids (dimyristoyl phosphatidylcholine, phosphatidylserine, phosphatidylglycerol and phosphatidic acid) as probes to explore the effects of the protein on phospholipid organization by differential scanning calorimetry, infrared, and fluorescence spectroscopy. All the experimental results indicate that the presence of the AcChR protein, even at the lower protein to phospholipid molar ratio, directs lateral phase separation of the monoanionic phosphoryl form of the phosphatidic acid probe, causing the formation of specific phosphatidic acid-rich lipid domains that become segregated from the bulk lipids and whose extent (phosphatidic acid sequestered into the domain, out of the total population in the vesicle) is protein-dependent. Furthermore, fluorescence energy transfer using the protein tryptophan residues as energy donors and the fluorescence probes trans-parinaric acid or diphenylhexatriene as acceptors, establishes that the AcChR is included in the domain. Other dimyristoyl phospholipid probes (phosphatidylcholine, phosphatidylserine, phosphatidylglycerol) under identical conditions could not mimic the protein-induced domain formation observed with the phosphatidic acid probe and result in ideal mixing of all lipid components in the reconstituted vesicles. Likewise, in the absence of protein, all the phospholipid probes, including phosphatidic acid, exhibit ideal mixing behavior. Since phosphatidic acid and cholesterol have been implicated in functional modulation of the reconstituted AcChR, it is suggested that such a specific modulatory role could be mediated by domain segregation of the relevant lipid classes.     

The influence of a membrane environment on the structure and stability of a prokaryotic potassium channel, KcsA

The lack of a membrane environment in membrane protein crystals is considered one of the major limiting factors to fully imply X-ray structural data to explain functional properties of ion channels [Gulbis, J.M. and Doyle, D. (2004) Curr. Opin. Struct. Biol. 14, 440-446]. Here, we provide infrared spectroscopic evidence that the structure and stability of the potassium channel KcsA and its chymotryptic derivative 1-125 KcsA reconstituted into native-like membranes differ from those exhibited by these proteins in detergent solution, the latter taken as an approximation of the mixed detergent-protein crystal conditions.     

Trophic interactions in a changing world: modelling aboveground–belowground interactions

The rate and scale of human-driven changes can exert profound impacts on ecosystems, the species that make them up and the services they provide that sustain humanity. Given the speed at which these changes are occurring, one of society's major challenges is to coexist within ecosystems and to manage ecosystem services in a sustainable way. The effect of possible scenarios of global change on ecosystem services can be explored using ecosystem models. Such models should adequately represent ecosystem processes above and below the soil surface (aboveground and belowground) and the interactions between them. We explore possibilities to include such interactions into ecosystem models at scales that range from global to local. At the regional to global scale we suggest to expand the plant functional type concept (aggregating plants into groups according to their physiological attributes) to include functional types of aboveground–belowground interactions. At the scale of discrete plant communities, process-based and organism-oriented models could be combined into “hybrid approaches” that include organism-oriented mechanistic representation of a limited number of trophic interactions in an otherwise process-oriented approach. Under global change the density and activity of organisms determining the processes may change non-linearly and therefore explicit knowledge of the organisms and their responses should ideally be included. At the individual plant scale a common organism-based conceptual model of aboveground–belowground interactions has emerged. This conceptual model facilitates the formulation of research questions to guide experiments aiming to identify patterns that are common within, but differ between, ecosystem types and biomes. Such experiments inform modelling approaches at larger scales. Future ecosystem models should better include this evolving knowledge of common patterns of aboveground–belowground interactions. Improved ecosystem models are necessary tools to reduce the uncertainty in the information that assists us in the sustainable management of our environment in a changing world.

Zusammenfassung

Rate und Ausmaß menschen-gemachter Veränderungen wirken sich auf Ökosysteme, die Arten die diese zusammensetzen und Ökosystemfunktionen von denen die Menschheit abhängt aus. Angesichts der Geschwindigkeit dieser Veränderungen ist es eine der großen Herausforderungen der Gesellschaft miteinander und in Ökosystemen zu leben und deren Ökosystemfunktionen nachhaltig zu nutzen. Die Auswirkungen plausibler Szenarien des Globalen Wandels auf Ökosystemfunktionen können mit Hilfe von Ökosystemmodellen untersucht werden. Solche Modelle sollten die Ökosystemprozesse oberhalb und unterhalb der Erdoberfläche („oberirdisch und unterirdisch“) und die Interaktionen zwischen diesen Prozessen angemessen abbilden. Auf Skalenebenen, die von global bis lokal reichen, erkunden wir in diesem Artikel Möglichkeiten solche Interaktionen in Modelle einzubauen. Auf der regionalen bis globalen Ebene schlagen wir vor das Konzept der funktionellen Pflanzentypen (Pflanzenarten, die aufgrund von physiologischen Ähnlichkeiten in Gruppen zusammengefasst sind) auszudehnen, so dass Typen von oberirdisch-unterirdischen Interaktionen mitenthalten sind. Auf der Skalenebene eigenständiger Pflanzengesellschaften könnten prozessbasierte und organsimen-orientierte Modelle zu „Hybridmodellen“verschmolzen werden, die organismen-orientierte, mechanistische Abbildungen einiger trophischer Interaktionen enthalten, aber ansonsten prozess-basiert sind. Der Einfluss des Globalen Wandels auf die Häufigkeit und Aktivität von Organismen und die Ökosystemprozesse, die sie bestimmen, ist sehr wahrscheinlich häufig nicht-linear, so dass im Idealfall explizites Wissen über die Organismen und ihre Reaktionen in Modellen enthalten sein sollte. Auf der Skalenebene der einzelnen Pflanze hat sich ein gebräuchliches, organismen-basiertes Konzeptmodell der oberirdisch-unterirdisch Interaktionen herausgebildet. Dies erleichtert die Formulierung von Hypothesen und Fragestellungen in Experimenten, die nach gemeinsamen Mustern innerhalb von Ökosystemen und Unterschieden zwischen Ökosystemtypen und Biomen suchen. Dies ist die Basis für Modellierungsansätze auf größeren Skalenebenen. Zukünftige Ökosystemmodelle sollten die gemeinsamen Muster oberirdisch-unterirdischer Interaktionen besser berücksichtigen, die sich neuerdings abzuzeichnen beginnen. Verbesserte Ökosystemmodelle sind notwendige Werkzeuge um die Unsicherheit in der Information zu vermindern, auf der nachhaltiges Umweltmanagement in einer sich wandelnden Welt beruht.     

Indigenous Ex Situ Conservation of Q'eqchi' Maya Medicinal Plant Resources at the Itzamma Garden—Indian Creek, Belize, Central America

The Itzamma Garden and Medicinal Plant Project is a collaborative effort focused on identifying traditionally important plants used by the Q'eqchi' Maya of southern Belize. The Garden represents a cornerstone of the project where these plant resources (~130 in total, of which 102 have been identified to the species level) are cultivated ex situ as a means of providing primary healthcare by traditional healers. Here, we present a comprehensive agro-ecological survey of the Garden describing the layout and cultivation scenarios, development challenges encountered, and associated implementation strategies for improving site practices. A general recommendation for the adaptation of this strategy to other localities is the thorough depiction of ecological features based on interactions with local practitioners, for example, leading to the effective cultivation of plants, the enhancement of soil, and the surveillance of crop nutritional status and medicinal potency. We consider that the ‘ethnobotanical garden approach’ could provide a collaborative ‘working model’ for rural development, especially indigenous communities interfacing with their local agro-ecosystems.     

MIF,CD74 and other partners in kidney disease: Tales of a promiscuous couple

Macrophage migration inhibitory factor (MIF) is increased in kidney and urine during kidney disease. MIF binds to and activates CD74 and chemokine receptors CXCR2 and CXCR4. CD74 is a protein trafficking regulator and a cell membrane receptor for MIF, D-dopachrome tautomerase (D-DT/MIF-2) and bacterial proteins. MIF signaling through CD74 requires CD44. CD74, CD44 and CXCR4 are upregulated in renal cells in diseased kidneys and MIF activation of CD74 in kidney cells promotes an inflammatory response. MIF or CXCR2 targeting protects from experimental kidney injury, CD44 deficiency modulates kidney injury and CXCR4 activation promotes glomerular injury. However, the contribution of MIF or MIF-2 to these actions of MIF receptors has not been explored. The safety and efficacy of strategies targeting MIF, CD74, CD44 and CXCR4 are under study in humans.     

Dynamics of tryptophan in the histidine-containing phosphocarrier protein of Streptomyces coelicolor: evidence of multistate equilibrium unfolding

The nanosecond dynamics of the single tryptophan, Trp10, of HPr from Streptomyces coelicolor, HPrsc, has been monitored at different pHs. Time-resolved fluorescence methods and DOSY measurements have been used to map the compactness of the protein. At low pHs, where a molten globule-like species has been described, the correlation times from fluorescence showed an abrupt change as the pH was increased. When the protein was folded (above pH 4), two correlation times were observed, which remained practically constant up to pH 9.5. The long correlation time, around 7.5 ns, corresponds to the global rotational motion of the protein, since this value is in agreement with that determined theoretically from hydrodynamic measurements. The short correlation time, around 1.4 ns, must report on fast movements of the protein segment containing the tryptophan residue. On the other hand, fluorescence lifetimes showed the same abrupt change as the correlation times at low pH, but, in addition, a sigmoidal change with a pKa approximately 4.3 was also observed. On the basis of the modeled structure of HPrsc, this last transition could be due to the proximity of Glu12 to Trp10. The changes monitored by the fluorescence lifetimes agree with those observed previously by steady-state fluorescence, CD, and ANS binding experiments. Taken together, these data suggest a multistate equilibrium during folding of HPrsc starting from low pHs.