Atomic force microscopy characterization of supported planar bilayers that mimic the mitochondrial inner membrane

In this study we examined the properties of supported planar bilayers (SPBs) formed from phospholipid components that comprise the mitochondrial inner membrane. We used 1-palmitoyl-2-oleoyl-sn-glycero- 3-phosphocholine (POPC), 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoethanolamine (POPE) and cardiolipin (CL). Liposomes of binary POPE:POPC (1:1, mol:mol) and ternary (POPE:POPC:CL (0.5:0.3:0.2, mol:mol:mol) composition were used in the formation of SPBs on mica. The characterization of the SPBs was carried out below (4 degrees C) and above (24 and 37 degrees C) the phase transition temperature (Tm) of the mixtures in solution. We observed: (i) that the thickness of the bilayers, calculated from a cross-sectional analysis, decreased as the visualization temperature increased; (ii) the existence of laterally segregated domains that respond to temperature in SPBs of POPE:POPC:CL; (iii) a decrease in height and an increase in roughness (Ra) of SPBs after cytochrome c (cyt c) injection at room temperature. To obtain further insight into the nature of the interaction between cyt c and the bilayers, the competition between 8-anilino-1-naphthalene sulfonate (ANS) and the protein for the same binding sites in liposomes was monitored by fluorescence. The results confirm the existence of preferential interaction of cyt c with CL containing liposomes. Taking these results and those of previous papers published by the group, we discuss the preferential adsorption of cyt c in CL domains. This provides support for the relevance of these phospholipids as a proton trap in the oxidative phosphorylation process that occurs in the energy transducing membranes.     

The importance of water-level fluctuation for the conservation of shallow water benthic macroinvertebrates: an example in the Andean zone of Chile

Many researchers have shown the importance of water chemistry and benthic habitat characteristics for the conservation of the freshwater macroinvertebrate biodiversity. However, few authors have examined the physical effect of extreme water-level fluctuations in lakes. The present study set out to determine, through a comparative study between a regulated lake (Laja Lake, LL) and an unregulated lake (Icalma Lake, IL) of the Andean zone of southern Chile, how man-made disturbances of the natural hydrological regime affect the structure of the benthic macroinvertebrate community. The results showed LL had very low values for species richness, density and biomass in comparison with IL, and the community was composed mainly of few individuals belonging to opportunistic taxa such as Chironomidae and Naididae. We suggest that the low values in the regulated lake are potentially explained by littoral zone factors driven by the water-level fluctuations such as: desiccation, freezing of the biota, removal of organic particles from the sediment and absence of aquatic macrophytes.     

Adaptation of a recombinant xylose-utilizing Saccharomyces cerevisiae strain to a sugarcane bagasse hydrolysate with high content of fermentation inhibitors

Adaptation of a xylose-utilizing genetically engineered strain of Saccharomyces cerevisiae to sugarcane bagasse hydrolysates by cultivation during 353h using medium with increasing concentrations of inhibitors, including phenolic compounds, furaldehydes and aliphatic acids, led to improved performance with respect to ethanol production. The remaining xylose concentration in the medium at the end of the cultivation was 5.2g l(-1), while it was 11gl(-1) in the feed, indicating that approximately half of the xylose was consumed. The performance of the adapted strain was compared with the parental strain with respect to its ability to ferment three bagasse hydrolysates with different inhibitor concentration. The ethanol yield after 24h of fermentation of the bagasse hydrolysate with lowest inhibitor concentration increased from 0.18gg(-1) of total sugar with the non-adapted strain to 0.38gg(-1) with the adapted strain. The specific ethanol productivity increased from 1.15g ethanol per g initial biomass per h with the non-adapted strain to 2.55gg(-1) h(-1) with the adapted strain. The adapted strain performed better than the non-adapted also in the two bagasse hydrolysates containing higher concentrations of inhibitors. The adapted strain converted the inhibitory furaldehydes 2-furaldehyde (furfural) and 5-hydroxymethyl-2-furaldehyde (HMF) at a faster rate than the non-adapted strain. The xylose-utilizing ability of the yeast strain did not seem to be affected by the adaptation and the results suggest that ethanol rather than xylitol was formed from the consumed xylose.     

Evaluating the performance of a multilocus Bayesian method for the estimation of migration rates

Bayesian methods have become extremely popular in molecular ecology studies because they allow us to estimate demographic parameters of complex demographic scenarios using genetic data. Articles presenting new methods generally include sensitivity studies that evaluate their performance, but they tend to be limited and need to be followed by a more thorough evaluation. Here we evaluate the performance of a recent method, bayesass , which allows the estimation of recent migration rates among populations, as well as the inbreeding coefficient of each local population. We expand the simulation study of the original publication by considering multi-allelic markers and scenarios with varying number of populations. We also investigate the effect of varying migration rates and F _ST more thoroughly in order to identify the region of parameter space where the method is and is not able to provide accurate estimates of migration rate. Results indicate that if the demographic history of the species being studied fits the assumptions of the inference model, and if genetic differentiation is not too low ( F _ST ≥ 0.05), then the method can give fairly accurate estimates of migration rates even when they are fairly high (about 0.1). However, when the assumptions of the inference model are violated, accurate estimates are obtained only if migration rates are very low ( m  = 0.01) and genetic differentiation is high ( F _ST ≥ 0.10). Our results also show that using posterior assignment probabilities as an indication of how much confidence we can place on the assignments is problematical since the posterior probability of assignment can be very high even when the individual assignments are very inaccurate.     

Genetic isolation of a now extinct population of bottlenose dolphins (Tursiops truncatus)

A number of dolphin species, though highly mobile, show genetic structure among parapatric and sometimes sympatric populations. However, little is known about the temporal patterns of population structure for these species. Here, we apply Bayesian inference and data from ancient DNA to assess the structure and dynamics of bottlenose dolphin (Tursiops truncatus) populations in the coastal waters of the UK. We show that regional population structure in UK waters is consistent with earlier studies suggesting local habitat dependence for this species in the Mediterranean Sea and North Atlantic. One genetically differentiated UK population went extinct at least 100 years ago and has not been replaced. The data indicate that this was a local extinction, and not a case of historical range shift or contraction. One possible interpretation is a declining metapopulation and conservation need for this species in the UK.     

Modulation of polyamine balance in Lotus glaber by salinity and arbuscular mycorrhiza.

In this work we investigated the involvement of Glomus intraradices in the regulation of plant growth, polyamines and proline levels of two Lotus glaber genotypes differing in salt tolerance, after longterm exposure to saline stress. The experiment consisted of a randomized block design with three factors: (1) mycorrhizal treatments (with or without AM fungus); (2) two salinity levels of 0 and 200mM NaCl; and (3) L. glaber genotype. Experiments were performed using stem cuttings derived from L. glaber individuals representing a natural population from saline lowlands. One of the most relevant results was the higher content of total free polyamines in mycorrhized plants compared to non-AM ones. Since polyamines have been proposed as candidates for the regulation of root development under saline situations, it is possible that AM plants (which contained higher polyamine levels and showed improved root growth) were better shaped to cope with salt stress. Colonization by G. intraradices also increased (Spd+Spm)/Put ratio in L. glaber roots. Interestingly, such increment in salt stressed AM plants of the sensitive genotype, was even higher than that produced by salinization or AM symbiosis separately. On the other hand, salinity but not mycorrhizal colonization influenced proline levels in both L. glaber genotypes since high proline accumulation was observed in both genotypes under salt stress conditions. Our results suggest that modulation of polyamine pools can be one of the mechanisms used by AM fungi to improve L. glaber adaptation to saline soils. Proline accumulation in response to salt stress is a good indicator of stress perception and our results suggest that it could be used as such among L. glaber genotypes differing in salt stress tolerance.     

Supported planar bilayers from hexagonal phases

In this work the presence of inverted hexagonal phases H(II) of 1-palmitoy-2-oleoyl-sn-glycero-3-phosphoethanolamine (POPE) and cardiolipin (CL) (0.8:0.2, mol/mol) in the presence of Ca(2+) were observed via (31)P-NMR spectroscopy. When suspensions of the same composition were extended onto mica, H(II) phases transformed into structures which features are those of supported planar bilayers (SPBs). When characterized by atomic force microscopy (AFM), the SPBs revealed the existence of two laterally segregated domains (the interdomain height being approximately 1 nm). Cytochrome c (cyt c), which binds preferentially to acidic phospholipids like CL, was used to demonstrate the nature of the domains. We used 1-anilinonaphtalen-8-sulfonate (ANS) to demonstrate that in the presence of cyt c, the fluorescence of ANS decreased significantly in lamellar phases. Conversely, the ANS binding to H(II) phases was negligible. When cyt c was injected into AFM fluid imaging cells, where SPBs of POPE:CL had previously formed poorly defined structures, protein aggregates ( approximately 100 nm diameter) were ostensibly observed only on the upper domains, which suggests not only that they are mainly formed by CL, but also provides evidence of bilayer formation from H(II) phases. Furthermore, a model for the nanostructure of the SPBs is herein proposed.