Climate change, genetics or human choice: why were the shells of mankind’s earliest ornament larger in the Pleistocene than in the Holocene?

The southern African tick shell, Nassarius kraussianus (Dunker, 1846), has been identified as being the earliest known ornamental object used by human beings. Shell beads dated from ~75,000 years ago (Pleistocene era) were found in a cave located on South Africa's south coast. Beads made from N. kraussianus shells have also been found in deposits in this region dating from the beginning of the Holocene era (<10,000 years ago). These younger shells were significantly smaller, a phenomenon that has been attributed to a change in human preference. We investigated two alternative hypotheses explaining the difference in shell size: a) N. kraussianus comprises at least two genetic lineages that differ in size; b) the difference in shell size is due to phenotypic plasticity and is a function of environmental conditions. To test these hypotheses, we first reconstructed the species' phylogeographic history, and second, we measured the shell sizes of extant individuals throughout South Africa. Although two genetic lineages were identified, the sharing of haplotypes between these suggests that there is no genetic basis for the size differences. Extant individuals from the cool temperate west coast had significantly larger shells than populations in the remainder of the country, suggesting that N. kraussianus grows to a larger size in colder water. The decrease in fossil shell size from Pleistocene to Holocene was likely due to increased temperatures as a result of climate change at the beginning of the present interglacial period. We hypothesise that the sizes of N. kraussianus fossil shells can therefore serve as indicators of the climatic conditions that were prevalent in a particular region at the time when they were deposited. Moreover, N. kraussianus could serve as a biomonitor to study the impacts of future climate change on coastal biota in southern Africa

Oceanic dispersal barriers, adaptation and larval retention: an interdisciplinary assessment of potential factors maintaining a phylogeographic break between sister lineages of an African prawn

<p>Abstract</p> <p>Background</p> <p>Genetic breaks separating regional lineages of marine organisms with potentially high broadcasting abilities are generally attributed either to dispersal barriers such as currents or upwelling, or to behavioural strategies promoting self-recruitment. We investigated whether such patterns could potentially also be explained by adaptations to different environmental conditions by studying two morphologically distinguishable genetic lineages of the estuarine mudprawn <it>Upogebia africana </it>across a biogeographic disjunction in south-eastern Africa. The study area encompasses a transition between temperate and subtropical biotas, where the warm, southward-flowing Agulhas Current is deflected away from the coast, and its inshore edge is characterised by intermittent upwelling. To determine how this phylogeographic break is maintained, we estimated gene flow among populations in the region, tested for isolation by distance as an indication of larval retention, and reared larvae of the temperate and subtropical lineages at a range of different temperatures.</p> <p>Results</p> <p>Of four populations sampled, the two northernmost exclusively included the subtropical lineage, a central population had a mixture of both lineages, and the southernmost estuary had only haplotypes of the temperate lineage. No evidence was found for isolation by distance, and gene flow was bidirectional and of similar magnitude among adjacent populations. In both lineages, the optimum temperature for larval development was at about 23°C, but a clear difference was found at lower temperatures. While larvae of the temperate lineage could complete development at temperatures as low as 12°C, those of the subtropical lineage did not complete development below 17°C.</p> <p>Conclusion</p> <p>The results indicate that both southward dispersal of the subtropical lineage inshore of the Agulhas Current, and its establishment in the temperate province, may be limited primarily by low water temperatures. There is no evidence that the larvae of the temperate lineage would survive less well in the subtropical province than in their native habitat, and their exclusion from this region may be due to a combination of upwelling, short larval duration with limited dispersal potential near the coast, plus transport away from the coast of larvae that become entrained in the Agulhas Current. This study shows how methods from different fields of research (genetics, physiology, oceanography and morphology) can be combined to study phylogeographic patterns.</p

Tri-locus sequence data reject a Gondwanan origin hypothesis for the African/South Pacific crab genus Hymenosoma

Crabs of the family Hymenosomatidae are common in coastal and shelf regions throughout much of the southern hemisphere. One of the genera in the family, Hymenosoma, is represented in Africa and the South Pacific (Australia and New Zealand). This distribution can be explained either by vicariance (presence of the genus on the Gondwanan supercontinent and divergence following its break-up) or more recent transoceanic dispersal from one region to the other. We tested these hypotheses by reconstructing phylogenetic relationships among the seven presently-accepted species in the genus, as well as examining their placement among other hymenosomatid crabs, using sequence data from two nuclear markers (Adenine Nucleotide Transporter [ANT] exon 2 and 18S rDNA) and three mitochondrial markers (COI, 12S and 16S rDNA). The five southern African representatives of the genus were recovered as a monophyletic lineage, and another southern African species, Neorhynchoplax bovis, was identified as their sister taxon. The two species of Hymenosoma from the South Pacific neither clustered with their African congeners, nor with each other, and should therefore both be placed into different genera. Molecular dating supports a post-Gondwanan origin of the Hymenosomatidae. While long-distance dispersal cannot be ruled out to explain the presence of the family Hymenosomatidae on the former Gondwanan land-masses and beyond, the evolutionary history of the African species of Hymenosoma indicates that a third means of speciation may be important in this group: gradual along-coast dispersal from tropical towards temperate regions, with range expansions into formerly inhospitable habitat during warm climatic phases, followed by adaptation and speciation during subsequent cooler phases

Analysis and Purification of Bioactive Natural Products: The AnaPurNa Study

Based on a meta-analysis of data mined from almost 2000 publications on bioactive natural products (NPs) from >80 000 pages of 13 different journals published in 1998−1999, 2004−2005, and 2009−2010, the aim of this systematic review is to provide both a survey of the status quo and a perspective for analytical methodology used for isolation and purity assessment of bioactive NPs. The study provides numerical measures of the common means of sourcing NPs, the chromatographic methodology employed for NP purification, and the role of spectroscopy and purity assessment in NP characterization. A link is proposed between the observed use of various analytical methodologies, the challenges posed by the complexity of metabolomes, and the inescapable residual complexity of purified NPs and their biological assessment. The data provide inspiration for the development of innovative methods for NP analysis as a means of advancing the role of naturally occurring compounds as a viable source of biologically active agents with relevance for human health and global benefit

Their Day in Court: Assessing Guilty Plea Rates Among Terrorists

Individuals who are charged for traditional crimes are substantially more likely to plead guilty than individuals who are charged under the same statutes but who are officially involved in terrorism (Smith & Damphousse, 1998). Relying on a structural–contextual theory framework, a quantitative analysis not only confirmed that terrorists plead guilty more often than traditional offenders but that the defendant’s age and number of counts in the indictment are important predictors. Directions for future research are suggested.Yeshttps://us.sagepub.com/en-us/nam/manuscript-submission-guideline

Bonobo personality traits are heritable and associated with vasopressin receptor gene 1a variation

Despite being closely related, bonobos and chimpanzees show remarkable behavioral differences, the proximate origins of which remain unknown. This study examined the link between behavioral variation and variation in the vasopressin 1a receptor gene (Avpr1a) in bonobos. Chimpanzees are polymorphic for a ~360 bp deletion (DupB), which includes a microsatellite (RS3) in the 5′ promoter region of Avpr1a. In chimpanzees, the DupB deletion has been linked to lower sociability, lower social sensitivity, and higher anxiety. Chimpanzees and bonobos differ on these traits, leading some to believe that the absence of the DupB deletion in bonobos may be partly responsible for these differences, and to the prediction that similar associations between Avpr1a genotypes and personality traits should be present in bonobos. We identified bonobo personality dimensions using behavioral measures (Sociability(B), Boldness(B), Openness(B), Activity(B)) and trait ratings (Assertiveness(R), Conscientiousness(R), Openness(R), Agreeableness(R), Attentiveness(R), Extraversion(R)). In the present study we found that all 10 dimensions have nonzero heritabilities, indicating there is a genetic basis to personality, and that bonobos homozygous for shorter RS3 alleles were lower in Attentiveness(R) and higher in Openness(B). These results suggest that variations in Avpr1a genotypes explain both within and between species differences in personality traits of bonobos and chimpanzees

Advances in low-memory subgradient optimization

One of the main goals in the development of non-smooth optimization is to cope with high dimensional problems by decomposition, duality or Lagrangian relaxation which greatly reduces the number of variables at the cost of worsening differentiability of objective or constraints. Small or medium dimensionality of resulting non-smooth problems allows to use bundle-type algorithms to achieve higher rates of convergence and obtain higher accuracy, which of course came at the cost of additional memory requirements, typically of the order of n2, where n is the number of variables of non-smooth problem. However with the rapid development of more and more sophisticated models in industry, economy, finance, et all such memory requirements are becoming too hard to satisfy. It raised the interest in subgradient-based low-memory algorithms and later developments in this area significantly improved over their early variants still preserving O(n) memory requirements. To review these developments this chapter is devoted to the black-box subgradient algorithms with the minimal requirements for the storage of auxiliary results, which are necessary to execute these algorithms. To provide historical perspective this survey starts with the original result of N.Z. Shor which opened this field with the application to the classical transportation problem. The theoretical complexity bounds for smooth and non-smooth convex and quasi-convex optimization problems are briefly exposed in what follows to introduce to the relevant fundamentals of non-smooth optimization. Special attention in this section is given to the adaptive step-size policy which aims to attain lowest complexity bounds. Unfortunately the non-differentiability of objective function in convex optimization essentially slows down the theoretical low bounds for the rate of convergence in subgradient optimization compared to the smooth case but there are different modern techniques that allow to solve non-smooth convex optimization problems faster then dictate lower complexity bounds. In this work the particular attention is given to Nesterov smoothing technique, Nesterov Universal approach, and Legendre (saddle point) representation approach. The new results on Universal Mirror Prox algorithms represent the original parts of the survey. To demonstrate application of non-smooth convex optimization algorithms for solution of huge-scale extremal problems we consider convex optimization problems with non-smooth functional constraints and propose two adaptive Mirror Descent methods. The first method is of primal-dual variety and proved to be optimal in terms of lower oracle bounds for the class of Lipschitz-continuous convex objective and constraints. The advantages of application of this method to sparse Truss Topology Design problem are discussed in certain details. The second method can be applied for solution of convex and quasi-convex optimization problems and is optimal in a sense of complexity bounds. The conclusion part of the survey contains the important references that characterize recent developments of non-smooth convex optimization

The state of the Martian climate

60°N was +2.0°C, relative to the 1981–2010 average value (Fig. 5.1). This marks a new high for the record. The average annual surface air temperature (SAT) anomaly for 2016 for land stations north of starting in 1900, and is a significant increase over the previous highest value of +1.2°C, which was observed in 2007, 2011, and 2015. Average global annual temperatures also showed record values in 2015 and 2016. Currently, the Arctic is warming at more than twice the rate of lower latitudes