The bonobo genome compared with the chimpanzee and human genomes

Two African apes are the closest living relatives of humans: the chimpanzee (Pan troglodytes) and the bonobo (Pan paniscus). Although they are similar in many respects, bonobos and chimpanzees differ strikingly in key social and sexual behaviours, and for some of these traits they show more similarity with humans than with each other. Here we report the sequencing and assembly of the bonobo genome to study its evolutionary relationship with the chimpanzee and human genomes. We find that more than three per cent of the human genome is more closely related to either the bonobo or the chimpanzee genome than these are to each other. These regions allow various aspects of the ancestry of the two ape species to be reconstructed. In addition, many of the regions that overlap genes may eventually help us understand the genetic basis of phenotypes that humans share with one of the two apes to the exclusion of the other.     

The netrin receptor UNC5B mediates guidance events controlling morphogenesis of the vascular system

Blood vessels and nerves are complex, branched structures that share a high degree of anatomical similarity. Guidance of vessels and nerves has to be exquisitely regulated to ensure proper wiring of both systems. Several regulators of axon guidance have been identified and some of these are also expressed in endothelial cells; however, the extent to which their guidance functions are conserved in the vascular system is still incompletely understood. We show here that the repulsive netrin receptor UNC5B is expressed by endothelial tip cells of the vascular system. Disruption of the Unc5b gene in mice, or of Unc5b or netrin-1a in zebrafish, leads to aberrant extension of endothelial tip cell filopodia, excessive vessel branching and abnormal navigation. Netrin-1 causes endothelial filopodial retraction, but only when UNC5B is present. Thus, UNC5B functions as a repulsive netrin receptor in endothelial cells controlling morphogenesis of the vascular system.     

Sex differences in learning in chimpanzees

The wild chimpanzees in Gombe National Park, Tanzania, fish for termites with flexible tools that they make out of vegetation, inserting them into the termite mound and then extracting and eating the termites that cling to the tool. Tools may be used in different ways by different chimpanzee communities according to the local chimpanzee culture. Here we describe the results of a four-year longitudinal field study in which we investigated how this cultural behaviour is learned by the community's offspring. We find that there are distinct sex-based differences, akin to those found in human children, in the way in which young chimpanzees develop their termite-fishing skills.     

Influence of PPCA inhibitor on CaCO3 scale surface deposition and bulk precipitation at elevated temperature

Scale formation is a serious and costly problem encountered in the oil and gas industry. Polyphosphinocarboxylic acid (PPCA) is a common commercial organic scale inhibitor used in the oil and gas industry which is normally referred to a nucleation inhibitor. In this paper, the effect of PPCA on calcium carbonate scale is studied systematically and some new insights into the mechanisms of PPCA inhibition are given. Traditionally, the studies of scale formation and inhibition have focused on bulk precipitation or surface deposition. Few studies have focused on the difference between surface deposition and bulk precipitation processes. In this paper, the effect of PPCA inhibitor on calcium carbonate scale formation is studied both in the bulk solution and on the metal surface in supersaturated scale formation solutions which represent typical waters encountered in oil and gas production. It is clear that PPCA inhibits both bulk precipitation and surface deposition but to a different degree. At 4 ppm PPCA, the inhibition efficiency of surface deposition is greater than the inhibition efficiency of bulk precipitation. It is assumed that the inhibitor film formed on the metal surface at the highest concentration of PPCA (4 ppm) prevent the adsorption of scale crystals on the metal surface. In addition, PPCA suppresses aragonite and calcite crystal formation and results in the least stable vaterite crystal dominating the scale.     

A deletion in the gene encoding sphingomyelin phosphodiesterase 3 (Smpd3) results in osteogenesis and dentinogenesis imperfecta in the mouse

The mouse mutation fragilitas ossium (fro) leads to a syndrome of severe osteogenesis and dentinogenesis imperfecta with no detectable collagen defect. Positional cloning of the locus identified a deletion in the gene encoding neutral sphingomyelin phosphodiesterase 3 (Smpd3) that led to complete loss of enzymatic activity. Our knowledge of SMPD3 function is consistent with the pathology observed in mutant mice and provides new insight into human pathologies.     

Explaining the excess of rare species in natural species abundance distributions

The observation that a few species in ecological communities are exceptionally abundant, whereas most are rare, prompted the development of species abundance models. Nevertheless, despite the large literature on the commonness and rarity of species inspired by these pioneering studies, some widespread empirical patterns of species abundance resist easy explanation. Notable among these is the observation that in large assemblages there are more rare species than the log normal model predicts. Here we use a long-term (21-year) data set, from an estuarine fish community, to show how an ecological community can be separated into two components. Core species, which are persistent, abundant and biologically associated with estuarine habitats, are log normally distributed. Occasional species occur infrequently in the record, are typically low in abundance and have different habitat requirements; they follow a log series distribution. These distributions are overlaid, producing the negative skew that characterizes real data sets.     

Low-temperature processing of 'baroplastics' by pressure-induced flow

The manufacturing of plastics traditionally involves melt processing at temperatures typically greater than 200 degrees C-to enable extrusion or moulding under pressure into desired forms-followed by solidification. This process consumes energy and can cause substantial degradation of polymers and additives (such as flame retardants and ultraviolet stabilizers), limiting plastics performance and recyclability. It was recently reported that the application of pressure could induce melt-like behaviour in the block copolymer polystyrene-block-poly(n-butyl methacrylate) (PS-b-PBMA), and this behaviour has now been demonstrated in a range of other block copolymer systems. These polymers have been termed baroplastics. However, in each case, the order-to-disorder transition, which gives rise to the accompanying change in rheology from soft solid to melt, was observed at temperatures far exceeding the glass transition temperatures (T(g)) of both components. Here we show that baroplastic systems containing nanophase domains of one high-T(g) and one low-T(g) component can exhibit melt-like flow under pressure at ambient temperature through an apparent semi-solid partial mixing mechanism that substantially preserves the high-T(g) phase. These systems were shredded and remoulded ten times with no evident property degradation. Baroplastics with low-temperature formability promise lower energy consumption in manufacture and processing, reduced use of additives, faster production and improved recyclability, and also provide potential alternatives to current thermoplastic elastomers, rubber-modified plastics, and semi-crystalline polymers.     

A structural state of the myosin V motor without bound nucleotide

The myosin superfamily of molecular motors use ATP hydrolysis and actin-activated product release to produce directed movement and force. Although this is generally thought to involve movement of a mechanical lever arm attached to a motor core, the structural details of the rearrangement in myosin that drive the lever arm motion on actin attachment are unknown. Motivated by kinetic evidence that the processive unconventional myosin, myosin V, populates a unique state in the absence of nucleotide and actin, we obtained a 2.0 A structure of a myosin V fragment. Here we reveal a conformation of myosin without bound nucleotide. The nucleotide-binding site has adopted new conformations of the nucleotide-binding elements that reduce the affinity for the nucleotide. The major cleft in the molecule has closed, and the lever arm has assumed a position consistent with that in an actomyosin rigor complex. These changes have been accomplished by relative movements of the subdomains of the molecule, and reveal elements of the structural communication between the actin-binding interface and nucleotide-binding site of myosin that underlie the mechanism of chemo-mechanical transduction.     

Xenoturbella is a deuterostome that eats molluscs

Xenoturbella bocki, first described in 1949 (ref. 1), is a delicate, ciliated, marine worm with a simple body plan: it lacks a through gut, organized gonads, excretory structures and coelomic cavities. Its nervous system is a diffuse nerve net with no brain. Xenoturbella's affinities have long been obscure and it was initially linked to turbellarian flatworms. Subsequent authors considered it variously as related to hemichordates and echinoderms owing to similarities of nerve net and epidermal ultrastructure, to acoelomorph flatworms based on body plan and ciliary ultrastructure (also shared by hemichordates), or as among the most primitive of Bilateria. In 1997 two papers seemed to solve this uncertainty: molecular phylogenetic analyses placed Xenoturbella within the bivalve molluscs, and eggs and larvae resembling those of bivalves were found within specimens of Xenoturbella. This molluscan origin implies that all bivalve characters are lost during a radical metamorphosis into the adult Xenoturbella. Here, using data from three genes, we show that the samples in these studies were contaminated by bivalve embryos eaten by Xenoturbella and that Xenoturbella is in fact a deuterostome related to hemichordates and echinoderms.