Is urbanization scrambling the genetic structure of human populations? A case study

Recent population expansion and increased migration linked to urbanization are assumed to be eroding the genetic structure of human populations. We investigated change in population structure over three generations by analysing both demographic and mitochondrial DNA (mtDNA) data from a random sample of 2351 men from 22 Iranian populations. Potential changes in genetic diversity (theta) and genetic distance (F(ST)) over the last three generations were analysed by assigning mtDNA sequences to populations based on the individual's place of birth or that of their mother or grandmother. Despite the fact that several areas included cities of over one million inhabitants, we detected no change in genetic diversity, and only a small decrease in population structure, except in the capital city (Tehran), which was characterized by massive immigration, increased theta and a large decrease in F(ST) over time. Our results suggest that recent erosion of human population structure might not be as important as previously thought, except in some large conurbations, and this clearly has important implications for future sampling strategies.     

Is there gold at the top of the beanstalk?

A report on the 3rd International Legume Genetics and Genomics Conference, Brisbane, Australia, 9-13 April 2006.     

Is extinction the hallmark of operant discrimination?: Reinforcement and S effects

Using a successive discrimination procedure with rats, three experiments investigated the contribution of reinforcement rate and amount of S(Delta) exposure on the acquisition of an operant discrimination. S(D) components and were always 2 min in length, while S(Delta) (extinction) components were either 1 min or 4 min in length; responses in S(D) were reinforced on one of four schedules. In Experiment 1, each of eight groups were exposed to one possible combination of rate of reinforcement and S(Delta) component length. At every level of reinforcement, the 4 min S(Delta) groups acquired the discrimination more quickly. However, within each level of reinforcement, the proportions of responding in S(D) as a function cumulative S(Delta) exposure were equivalent, regardless of the number of reinforcers earned in S(D), suggesting that extinction is the "hallmark" of discrimination. Experiment 2 sought to replicate these results in a within-subjects design, and although the 4 min S(Delta) conditions always produced superior discriminations, the lack of discriminated responding in some conditions suggested that stimulus disparity was reduced. Experiment 3 clarified those results and extended the finding that the acquisition of operant discrimination closely parallels extinction of responding in S(Delta). In sum, it appears that higher reinforcement rates and longer S(Delta) exposure facilitate the acquisition of discriminated operant responding.     

Is defective electron transport at the hub of aging?

The bulwark of the mitochondrial theory of aging is that a defective respiratory chain initiates the death cascade. The increased production of superoxide is suggested to result in progressive oxidant damage to cellular components and particularly to mtDNA that encodes subunits assembled in respiratory complexes. Earlier studies of respiration in muscle mitochondria obtained from large cohorts of patients supported this notion by showing that either singly or in combinations, the respiratory complexes exhibited decreased activity in the elderly. The following critique of the most cited publications over the past decade points out the systematic errors that put earlier work at odds with recent findings. These later investigations indicate that aging has no overt effect on either the electron transport system or oxidative phosphorylation.     

Is negative turgor fallacious?

In early studies, negative turgor pressure was obtained by indirect methods and was mainly related to inaccurate measurements of osmotic and/or water potential. The uncertainties in the measurements made any discussion of the underlying reasons and phenomena premature and risky, perhaps even useless. Yet, the idea of relating negative turgor to the strength of small-sized cells with thick walls, to resist collapse when subjected to water deficit, seemed attractive. Negative turgor pressures are difficult to detect in higher plants, but they are theoretically possible. Regarding their origin, a hypothesis is discussed here, that the negative turgor detected in leaves might indicate a reversal of the water flow that has occurred in roots, under conditions of severe and prolonged drought.     

Is neural filling-in necessary to explain the perceptual completion of motion and depth information?

Retinal activity is the first stage of visual perception. Retinal sampling is non-uniform and not continuous, yet visual experience is not characterized by holes and discontinuities in the world. How does the brain achieve this perceptual completion? Fifty years ago, it was suggested that visual perception involves a two-stage process of (i) edge detection followed by (ii) neural filling-in of surface properties. We examine whether this general hypothesis can account for the specific example of perceptual completion of a small target surrounded by dynamic dots (an ''artificial scotoma''), a phenomenon argued to provide insight into the mechanisms responsible for perception. We degrade the target''s borders using first blur and then depth continuity, and find that border degradation does not influence time to target disappearance. This indicates that important information for the continuity of target perception is conveyed at a coarse spatial scale. We suggest that target disappearance could result from adaptation that is not specific to borders, and question the need to hypothesize an active filling-in process to explain this phenomenon.     

Partial characterization of the trait for enhanced K+−Na+ discrimination in the D genome of wheat

The long arm of chromosome 4D of wheat (Triticum aestivum L.) contains a gene (or genes) which influences the ability of wheat plants to discriminate between Na⁺ and K⁺. This discrimination most obviously affects transport from the roots to the shoots, in which less Na⁺ and more K⁺ accumulate in those plants which contain the long arm of chromosome 4D. Concentrations of Na⁺ and K⁺ in the roots, and Cl⁻ concentrations in the roots and shoots, are not significantly affected by this trait, but Na⁺, K⁺ and Cl⁻ contents of the grain are reduced. The trait operates over a wide range of salinities and appears to be constitutive. At the moment it is not possible to determine accurately the effect of this trait on growth or grain yield because the aneuploid lines which are available are much less vigorous and less fertile than their euploid parents.     

Is the Natura 2000 network sufficient for conservation of butterfly diversity? A case study in Slovenia

Slovenia has one of the most extensive Natura 2000 networks in Europe with 259 SAC’s covering 31.4% of the country. To determine how well does the current network cover the areas of high butterfly diversity and/or aggregation of the butterfly species of conservation concern, the data from the recent survey for a distribution atlas were used. Altogether 99,423 records of 173 species collated after 1979 were used. The data distribution is slightly biased towards SAC’s, with 44.8% of localities within them, most likely due to sparsely sampled urban areas and intensive farmland areas which are found only outside SAC’s. The diversity and distribution of red listed species was evaluated at a 5 × 5 km grid square level. Additionally the importance of the size of the SAC’s was compared to their butterfly species diversity. In general the high diversity areas also hold the largest aggregation of red listed species with core areas concentrated in SW Slovenia. The SAC’s cover majority of areas with high diversity and the distribution of all but one threatened butterfly species. That species is Colias myrmidone, which is now considered extinct in Slovenia with no records after 1993. The most prominent areas with high conservation value in Slovenia not included in the SAC’s network are the Koro?ka region, Gori?ka Brda region, lower Sava River valley and Slovenske Gorice region. The butterfly diversity in small SAC’s is relatively high with increases in size only gradually increasing the species numbers, thus emphasizing the importance and conservation value of small SAC’s for sustaining high butterfly diversity in Slovenia.     

Is a constant low-entropy process at the root of glycolytic oscillations?

We measured temporal oscillations in thermodynamic variables such as temperature, heat flux, and cellular volume in suspensions of non-dividing yeast cells which exhibit temporal glycolytic oscillations. Oscillations in these variables have the same frequency as oscillations in the activity of intracellular metabolites, suggesting strong coupling between them. These results can be interpreted in light of a recently proposed theoretical formalism in which isentropic thermodynamic systems can display coupled oscillations in all extensive and intensive variables, reminiscent of adiabatic waves. This interpretation suggests that oscillations may be a consequence of the requirement of living cells for a constant low-entropy state while simultaneously performing biochemical transformations, i.e., remaining metabolically active. This hypothesis, which is in line with the view of the cellular interior as a highly structured and near equilibrium system where energy inputs can be low and sustain regular oscillatory regimes, calls into question the notion that metabolic processes are essentially dissipative.     

Is use of translocation for the conservation of subpopulations of oribi Ourebia ourebi (Zimmermann) effective? A case study

In South Africa, the oribi, Ourebia ourebi is an endangered small antelope that requires conservation management and intervention to prevent their extinction. Use of translocation for the conservation of subpopulations facing local extinction in the wild has been proposed. In this study, fifteen oribi from threatened populations were captured and released (November 2004) on a private game reserve in KwaZulu-Natal, South Africa. Radio telemetry was used to monitor the dispersal and survival of translocated oribi. Only one death occurred during that period. All other released oribi survived, and most remained in close proximity of the release site for more than a year postrelease. Reproduction also occurred. This suggests that, translocation could be a viable option for conserving wild populations of oribi, assuming that other factors, such as availability of suitable grassland habitat and that poaching has been curtailed, are met.     

Is the cost of herbicide resistance expressed in the breakdown of the relationships between characters? A case study using synthetic-auxin-resistant Arabidopsis thaliana mutants

A mutation endowing herbicide resistance is often found to induce a parallel morphological or fitness penalty. To test whether such 'cost' of resistance to herbicides is expressed through lower resource acquisition, changes in resource allocation, or both, is of ecological significance. Here, we analysed 12 morphological traits in 900 plants covering three herbicide resistance mutations at genes AUX1 , AXR1 and AXR2 in the model species Arabidopsis thaliana . Comparing these 2,4-D herbicide-resistant homozygous (RR) and heterozygous (RS) plants to homozygous susceptible (SS) plants, this analysis estimates the dominance level of the resistance allele on morphology. We also demonstrated that the herbicide resistance cost was primarily expressed as a change in resource acquisition (62.1-94% of the analysed traits). Although AUX1 , AXR1 and AXR2 genes act in the same metabolic pathway of auxin response, each resistance factor was found to have its own unique signature in the way the cost was expressed. Furthermore, no link was observed between the absolute fitness penalty and the respective modifications of resource acquisition and/or resource allocation in the resistant plants. These results and their implications for herbicide resistance spread and establishment are discussed.     

Is proline the quintessential sentinel of plants? A case study of postharvest flower senescence in Dianthus chinensis L.

The present investigation primarily focussed on evaluating the efficacy of exogenous proline on the flower longevity of Dianthus chinensis L. Floral buds were harvested at the paint brush stage (i.e., a day prior to anthesis) and divided into 6 sets, with one set of buds (i.e., control) held in distilled water and rest of the 5 sets were supplemented with various concentrations of proline, viz., 10 mM, 20 mM, 30 mM, 40 mM and 50 mM. The application of proline at 40 mM concentration proved out to be most effective in improving the longevity of the flowers by about 4 days as compared to the control. The ameliorated longevity coincided with enhanced floral diameter, fresh mass, dry mass and water content. The flowers with delayed senescence also maintained higher soluble proteins, sugars and phenols. The results suggest that exogenous proline effectively alleviates oxidative stress in the petal tissue, as evident by a relatively lower maloendialdehyde content, which is manifested in the form of reduced lipid peroxidation (LPO). Reduced LPO was commensurate with increased membrane stability, quantified by membrane stability index. Moreover, the flowers with improved longevity exhibited a decline in lipoxygenase activity and significant augmentation of antioxidant enzymes superoxide dismutase, catalase and ascorbate peroxidase.     

A new histone at the centromere?

The centromere is a classic system to study epigenetic specification, and most research has focused on a specialized histone variant, CENP-A, that is required for kinetochore assembly. Now Nishino et?al. reveal a new level of complexity for centromeric chromatin, by showing that the kinetochore complex CENP-T-W-S-X shares structural and functional properties with canonical histones.     

Is DNA barcoding child's play? Science education and the utility of DNA barcoding for the discrimination of UK tree species

We present the findings of a DNA barcoding study of the UK tree flora, implemented as part of an innovative, research‐based science education programme called ‘Tree School’. The UK tree flora comprises native and introduced species, and is a taxonomically diverse study group for the exploration of the potential and limitations of DNA barcoding. The children participating in the project collected voucher specimens and generated DNA barcode sequences from trees and shrubs found in the grounds and surrounding woodlands of a residential field centre in Dorset, UK. We assessed the potential of rbcL and matK markers for amplification and DNA sequencing success and for species discrimination among the 67 tree and shrub species included in this study. Although we achieved 100% PCR amplification and sequencing success for rbcL and matK, mononucleotide repeats affected sequence quality in matK for some taxonomic groups (e.g. Rosaceae). Species discrimination success ranged from 65% to 71% using tree‐based methods to 86% using BLASTN. The occurrence of known hybrids (diploid and polyploid) and their progenitors on the study site reduced the overall species discrimination success for both loci. This study demonstrates that, even in a floristic context, rbcL and matK alone are insufficient for the discrimination of UK tree species, especially where taxonomically complex groups are present. From a science education perspective, DNA barcoding represents a compelling and accessible platform for the engagement of non‐experts in ongoing research, providing an opportunity for them to contribute authentic scientific data to an international research campaign.     

Is the evolution of inaccurate mimicry a result of selection by a suite of predators? A case study using myrmecomorphic spiders

Several hypotheses have been put forward to explain the evolution of inaccurate mimicry. Here we investigated the novel hypothesis that inaccurate mimicry (in color and shape) is maintained by opposing selective pressures from a suite of different predators: model-aversive visually oriented predators and model- and mimic-specialized predators indifferent to mimetic cues. We hypothesize that spiders resembling ants in color and shape escape predators that typically avoid ants but fall prey to ant-eating predators. We tested whether inaccurate myrmecomorphic spiders are perceived as their models by two types of predators and whether they can escape from these predators. We found that model-specialized (ant-eating) predators captured mimics significantly less frequently than their ant models, because mimics changed their behavior by fleeing predatory attacks. The fastest escape was found in less accurate mimics, indicating a negative association between visual resemblance and effectiveness of defenses. In trials with spider-eating predators, mimics were not captured more frequently than their models. The quality of defensive mechanisms appears to result from opposing selection forces exerted by the predator complex: mimics are more accurate (in color and shape) in microhabitats dominated by model-aversive predators and less accurate in microhabitats with model- and mimic-specialized predators.