Developmental stage modifies diet-induced peripheral insulin resistance in rats

In the present study, the effects of age and diet on glucose disappearance and tissue-specific glucose uptake (R'g) were examined under basal or hyperinsulinemic, euglycemic conditions in male Sprague-Dawley rats. Rats were equicalorically fed either a high-starch diet (68% of kcal), high-fat diet (HFD; 45% of kcal), or high-sucrose diet (68% of kcal), beginning at either 5 (W; weanling), 10 (Y; young), 18 (M; mature), or 58 wk (O; older) of age for 5 wks (n = 6-9. group(-1) x diet(-1)). Body weight gain was not significantly different among dietary groups within a given age. Significant (P< 0.05) age effects were observed on basal and clamp free fatty acid concentrations. Significant diet effects were observed on basal and clamp triglyceride concentrations. There were significant diet and age effects on basal skeletal muscle R'g. This interaction was primarily due to an age-associated increase in basal R'g microg x g(-1). min(-1)) in HFD (gastrocnemius R'g: 0.9+/-0.2 in W, 1.1+/-0.2 in Y, 1.8+/-0.2 in M, 2.5+/-0.2 in O). Both age and diet significantly decreased insulin-stimulated muscle R'g. However, whereas age-associated reductions in both glucose-6-phosphate concentration and glycogen synthase activity were observed, significant diet effects were observed on glucose-6-phosphate concentrations only. Age significantly reduced basal and clamp adipose tissue R'g when expressed per gram of tissue but significantly increased R'g when expressed per total fat pad mass. These data suggest that diet-induced changes in peripheral glucose metabolism are modulated by age.     

Syntheses of R and S isomers of AF-DX 384, a selective antagonist of muscarinic M2 receptors

Enantiomers of 5,11-dihydro-11-[2-[2-[(N,N-dipropylaminomethyl)piperidin-1- yl]ethylamino]-carbonyl]-6H-pyrido[2,3-b][1,4]benzodiazepin-6-one (AF-DX 384) 1, have been synthesized from (S)-(+) and (R)-(-)-2-[N,N-dipropylaminomethyl]piperidine 4. The enantiomeric excess of 1 has been determined by capillary electrophoresis by using the alpha-highly sulphated cyclodextrin (alpha-HSCD) as chiral selector within the running electrolyte. (S)-(+)-(4) was prepared from (S)-(-)-pipecolic acid in a 4-step procedure (overall yield: 30%, ee: 99%) and (R)-(-)-AF-DX 384 from (R)-(+)-pipecolic acid. The (R)-(-) isomer exhibited in vitro a 23-fold higher affinity than its enantiomer (S)-(+) towards muscarinic receptors of subtype 2.     

A genetic linkage map of the baboon (Papio hamadryas) genome based on human microsatellite polymorphisms

A first-generation genetic linkage map of the baboon (Papio hamadryas) genome was developed for use in biomedical and evolutionary genetics. Pedigreed baboons (n = 694) were selected from the breeding colony maintained by the Southwest Foundation for Biomedical Research. To facilitate comparison with the human genome, the baboon linkage map consists primarily of human microsatellite loci amplified using published human PCR primers. Genotypes for 325 human microsatellites and 6 novel baboon microsatellites were used in linkage analyses performed with the MultiMap expert system. The resulting sex-averaged meiotic recombination map covers all 20 baboon autosomes, with average spacing among loci of 7.2 cM. Direct comparison among homologous (orthologous) loci reveals that, for 7 human autosomes, locus order is conserved between humans and baboons. For the other 15 autosomes, one or more rearrangements distinguish the two genomes. The total centimorgan distances among homologous markers are 28.0% longer in the human genome than in the baboon, suggesting that rates of recombination may be higher in humans. This baboon linkage map is the first reported for any nonhuman primate species and creates opportunities for mapping quantitative trait loci in baboons, as well as for comparative evolutionary analyses of genome structure.     

Climate change might increase the invasion potential of the alien C4 grass Setaria parviflora (Poaceae) in the Mediterranean Basin

Aim Current climate change is supposed to be beneficial to many biological invaders, especially to C4 alien plants. While several experiments have been dedicated to measuring alien plants’ response to increased atmospheric CO₂ concentration, very few studies have been undertaken to measure the response of alien plants to warming. This study was aimed to test experimentally whether the predicted climate change in the Mediterranean Basin could be beneficial to the alien C4 grass Setaria parviflora (Poir.) Kerguélen. Location Three populations of S. parviflora from Corsica, southern France, were grown in Montpellier, southern France. Methods  The C4 alien grass S. parviflora was exposed to artificial climate change conditions for 3 years in open field and in competition with the local native community. We measured the response to artificial warming of +1.5 and +3 °C and artificial drought (?30% precipitation) versus ambient conditions for phenology, biomass and fecundity of S. parviflora. We compared the response of S. parviflora individuals to the response of the local community. Results Artificial warming strongly enhanced the biomass and the fecundity of S. parviflora, while it decreased or did not affect the biomass and fecundity of the local community. The phenology (onset of growth, first spike pollinating and fruit ripeness) of S. parviflora was advanced significantly and explained the changes observed in biomass and fecundity. Main conclusions Here, we report a positive effect of climate change on the growth and fertility of S. parviflora, a C4 alien plant. Our results suggest that climate change predicted for the next decades in the Mediterranean Basin might substantially enhance the performance of S. parviflora, potentially increasing its invasion success.     

Marine turtle mitogenome phylogenetics and evolution

The sea turtles are a group of cretaceous origin containing seven recognized living species: leatherback, hawksbill, Kemp's ridley, olive ridley, loggerhead, green, and flatback. The leatherback is the single member of the Dermochelidae family, whereas all other sea turtles belong in Cheloniidae. Analyses of partial mitochondrial sequences and some nuclear markers have revealed phylogenetic inconsistencies within Cheloniidae, especially regarding the placement of the flatback. Population genetic studies based on D-Loop sequences have shown considerable structuring in species with broad geographic distributions, shedding light on complex migration patterns and possible geographic or climatic events as driving forces of sea-turtle distribution. We have sequenced complete mitogenomes for all sea-turtle species, including samples from their geographic range extremes, and performed phylogenetic analyses to assess sea-turtle evolution with a large molecular dataset. We found variation in the length of the ATP8 gene and a highly variable site in ND4 near a proton translocation channel in the resulting protein. Complete mitogenomes show strong support and resolution for phylogenetic relationships among all sea turtles, and reveal phylogeographic patterns within globally-distributed species. Although there was clear concordance between phylogenies and geographic origin of samples in most taxa, we found evidence of more recent dispersal events in the loggerhead and olive ridley turtles, suggesting more recent migrations (<1Myr) in these species. Overall, our results demonstrate the complexity of sea-turtle diversity, and indicate the need for further research in phylogeography and molecular evolution.     

Manipulation of single polymerase-DNA complexes: A mechanical view of DNA unwinding during replication

Comment on: Morin JA, et al. Proc Natl Acad Sci USA 2012; 109:8115-20.DNA replication requires overcoming the energetic barrier associated with the base pair melting of its double helix and a fine-tuned coordination between the processes of DNA unwinding and DNA replication. One intriguing question that remains poorly understood is the exact mechanism of the coupling of these two reactions. In some organisms, these activities are coupled within the same protein, like in the case of the phage Phi29 DNA polymerase. This polymerase works as a hybrid polymerase-helicase, because it presents an amino acid insertion that together with other protein domains forms a narrow tunnel around the template strand. This topological restriction is similar to the one imposed by hexameric helicases at the fork junction and promotes the separation of the fork ahead.¹ The Phi29 DNA polymerase, therefore, constitutes a simple, good model system to understand the basic mechanistic principles of the coupling between DNA replication and unwinding activities: the polymerase may behave as a “passive” unwinding motor, if translocation of the protein traps transient unwinding fluctuations of the fork, or as an “active” motor, if the polymerase actively destabilizes the duplex DNA at the junction. Therefore, factors that affect the stability of the fork junction, as DNA sequence or mechanical destabilization of the fork, will have a stronger effect on the unwinding kinetics of a “passive” motor than on an “active” one.To determine the DNA unwinding mechanism of the Phi29 DNA polymerase, we used optical tweezers to measure at single molecule level the effect of DNA sequence and destabilizing forces on the fork on the rates of strand displacement (replication and unwinding are tightly coupled, Δx₁, Fig. 1A) and primer extension (replication of the displaced complementary strand without unwinding, Δx₂, Fig. 1A) of two polymerases: the wild-type Phi29 DNA polymerase and a strand displacement deficient variant, which bears a couple of mutations that may affect the stability of the tunnel required for unwinding.² We quantified the free energy of interaction between the polymerase and the DNA fork, ΔG_int, and the range of this interaction, M, through a theoretical analysis of the dependence of the replication, unwinding and pause kinetics on the DNA sequence and force.^3,4Open in a separate windowFigure 1. (A) Schematic representation of the experimental design (not to scale). A single DNA hairpin was attached to functionalized beads inside a fluidics chamber. One strand of the hairpin is attached through a dsDNA handle to a bead held in the optical trap (top), while the complementary strand is attached to a bead on top of a mobile micropipette (bottom). At a constant force, after flowing the nucleotides into the reaction chamber, the strand displacement and primer extension rates of the polymerase are detected as a change in distance between the beads, Δx₁ and Δx₂, respectively. (B) Representative replication activity of a single mutant polymerase molecule. Long pauses are observed only during the strand displacement reaction. (C) Mechanistic distinction between passive and active unwinding. The cartoon illustrates the degree of activeness in DNA unwinding of different replicative helicases⁶ and the Phi29 DNA polymerase.Our results show that while the primer extension rates of both polymerases are force- and sequence-independent their average unwinding rates are sensitive to these two variables, although with different intensity. As expected, the dsDNA fork presents a much stronger physical barrier to the mutant polymerase unwinding. Qualitative reasoning might suggest that the observed differences imply different “activeness” of the unwinding mechanism of each polymerase. However, the inclusion of the pause kinetics of each polymerase in our model revealed that they use the same active mechanism; they both destabilize the two nearest base pairs of the fork (M = 2) with an interaction energy ΔG_int = 2 k_BT per base pair. These results suggest that mutations affecting the stability of the tunnel required for unwinding do not decrease the “activeness” of the motor but instead increase the probability of the unwinding mechanism to fail upon encountering a closed fork junction, inducing the entrance of the mutant polymerase into a long-lived inactive pause state (Fig. 1B). These results bring out the importance to consider pause kinetics to accurately quantify the actual unwinding mechanism of the Phi29 DNA polymerase or any other nucleic acid unwinding motor in which pauses are relevant during its operation. The presence of pauses obscures the actual pause-free rates of the motor and can lead to misleading results when they are not properly accounted.Our data are consistent with a model in which the closed template tunnel that wraps around the template strand allows the Phi29 DNA polymerase to maintain a sharp bending of this strand (essential for template reading in all replicative polymerases) and a bending of the complementary strand, due to its steric exclusion, at a closed fork junction. Bending of the two strands would generate mechanical stress at the junction promoting its active destabilization. A less stable tunnel, as in the mutant polymerase, will not be able to keep the mechanical stress at a closed fork junction, in this case the fork pressure would induce loosening of the correct protein-DNA interactions favoring the entrance to a polymerization inactive state.Similar mechanisms for mechanical destabilization of the fork junction can be envisioned for other DNA replication systems in which a DNA polymerase and a helicase work in coordination. In these systems, the leading strand can be sharply bent by the steric exclusion induced by the helicase and by the functional binding of the polymerase generating effective mechanical stress at the fork junction to account for efficient unwinding during replication. These implications are further supported by recent single molecule studies using magnetic tweezers that describe a collaborative coupling of this nature between the activities of the bacteriophage T4 DNA polymerase and DNA helicase.⁵