People versus machines: The impact of being in an automatable job on Australian worker’s mental health and life satisfaction

This study explores the effect on mental health and life satisfaction of working in an automatable job. We utilise an Australian panel dataset (HILDA), and take a fixed effects linear regression approach, to relate a person being in automatable work to proxies of their wellbeing. Overall, we find evidence that automatable work has a small, detrimental impact on the mental health and life satisfaction of workers within some industries, particularly those with higher levels of job automation risk, such as manufacturing. Furthermore, we find no strong trends to suggest that any particular demographic group is disproportionately impacted across industries. These findings are robust to a variety of specifications. We also find evidence of adaptation to these effects after one-year tenure on the job, indicating a limited role for firm policy.     

Resolving the phylogeny of lizards and snakes (Squamata) with extensive sampling of genes and species

Squamate reptiles (lizards and snakes) are one of the most diverse groups of terrestrial vertebrates. Recent molecular analyses have suggested a very different squamate phylogeny relative to morphological hypotheses, but many aspects remain uncertain from molecular data. Here, we analyse higher-level squamate phylogeny with a molecular dataset of unprecedented size, including 161 squamate species for up to 44 nuclear genes each (33 717 base pairs), using both concatenated and species-tree methods for the first time. Our results strongly resolve most squamate relationships and reveal some surprising results. In contrast to most other recent studies, we find that dibamids and gekkotans are together the sister group to all other squamates. Remarkably, we find that the distinctive scolecophidians (blind snakes) are paraphyletic with respect to other snakes, suggesting that snakes were primitively burrowers and subsequently re-invaded surface habitats. Finally, we find that some clades remain poorly supported, despite our extensive data. Our analyses show that weakly supported clades are associated with relatively short branches for which individual genes often show conflicting relationships. These latter results have important implications for all studies that attempt to resolve phylogenies with large-scale phylogenomic datasets.     

A trial on nutritionally forced mating of conventional glutamate-producing bacteria

By nutritionally forced mating, we tried to find the sex factor in glutamate producing bacteria with some auxtrophic mutants of Corynebacterium glutamicum, Micrococcus glutamicus and Brevibacterium divaricatum. We failed to find true mates in this trial, even when the cells cured by acridine orange were used to mate with non-cured ones. There were some positive growth when two densed cell suspensions were dropped on the minimum medium, but after subcultured on the minimum medium no growth was found. It seem likely that the bacteria used here, at least, require an enforced cell adhesion, unless true mating is not feasible. The evidence that Corynebacterium renale has pili might be an interesting reference, but we could not find pili in the bacteria used here.     

Complex Dynamics in an Eco-epidemiological Model

The presence of infectious diseases can dramatically change the dynamics of ecological systems. By studying an SI-type disease in the predator population of a Rosenzweig–MacArthur model, we find a wealth of complex dynamics that do not exist in the absence of the disease. Numerical solutions indicate the existence of saddle–node and subcritical Hopf bifurcations, turning points and branching in periodic solutions, and a period-doubling cascade into chaos. This means that there are regions of bistability, in which the disease can have both a stabilising and destabilising effect. We also find tristability, which involves an endemic torus (or limit cycle), an endemic equilibrium and a disease-free limit cycle. The endemic torus seems to disappear via a homoclinic orbit. Notably, some of these dynamics occur when the basic reproduction number is less than one, and endemic situations would not be expected at all. The multistable regimes render the eco-epidemic system very sensitive to perturbations and facilitate a number of regime shifts, some of which we find to be irreversible.     

Height and subjective well-being in Italy

Using an Italian survey, we investigate the effect of height on individual happiness. We find that a large part of the effect of height on well-being is driven by a positive correlation between height and economic and health conditions. However, for young men the effect of height on happiness persists even after controlling for these variables, implying that height is associated with some psycho-social direct effects on well-being. Consistent with this hypothesis, we find that men care not only about their own height but also about the height of others in their reference group. Well-being is greater for individuals who are taller than other men in their reference group. Results are robust to different definitions of reference group and controlling for a number of other reference group characteristics.     

Testing Darwin's naturalization hypothesis in the Azores

Invasive species are a threat for ecosystems worldwide, especially oceanic islands. Predicting the invasive potential of introduced species remains difficult, and only a few studies have found traits correlated to invasiveness. We produced a molecular phylogenetic dataset and an ecological trait database for the entire Azorean flora and find that the phylogenetic nearest neighbour distance (PNND), a measure of evolutionary relatedness, is significantly correlated with invasiveness. We show that introduced plant species are more likely to become invasive in the absence of closely related species in the native flora of the Azores, verifying Darwin's 'naturalization hypothesis'. In addition, we find that some ecological traits (especially life form and seed size) also have predictive power on invasive success in the Azores. Therefore, we suggest a combination of PNND with ecological trait values as a universal predictor of invasiveness that takes into account characteristics of both introduced species and receiving ecosystem.     

Folding of Cu, Zn superoxide dismutase and familial amyotrophic lateral sclerosis

Cu, Zn superoxide dismutase (SOD1) has been implicated in the familial form of the neurodegenerative disease amyotrophic lateral sclerosis (ALS). It has been suggested that mutant mediated SOD1 misfolding/aggregation is an integral part of the pathology of ALS. We study the folding thermodynamics and kinetics of SOD1 using a hybrid molecular dynamics approach. We reproduce the experimentally observed SOD1 folding thermodynamics and find that the residues which contribute the most to SOD1 thermal stability are also crucial for apparent two-state folding kinetics. Surprisingly, we find that these residues are located on the surface of the protein and not in the hydrophobic core. Mutations in some of the identified residues are found in patients with the disease. We argue that the identified residues may play an important role in aggregation. To further characterize the folding of SOD1, we study the role of cysteine residues in folding and find that non-native disulfide bond formation may significantly alter SOD1 folding dynamics and aggregation propensity.     

The evolution of function-valued traits for conditional cooperation

In this paper we study the evolution of function-valued traits for cooperation in environments that display varying degrees of population viscosity. Traits measure an individual's intrinsic propensity to cooperate in a standard bilateral Prisoner's dilemma and can be increasing, decreasing or constant functions of the probability to interact with individuals of ones own genotype. We first analyse adaptation to homogenous environments (with constant degree of viscosity). Comparing environments characterized by different degrees of viscosity, we find that the relation between viscosity and the equilibrium type distribution is not monotone. In fact, it is possible that in fluid populations (no viscosity) there is more cooperation in equilibrium than in populations with intermediate degrees of viscosity. In a second step we analyse heterogenous environments (with varying degrees of viscosity). We find that under very weak assumptions on the distribution of the viscosity parameter strictly increasing functions are always selected and under some parameter constellations they are uniquely so.     

Evolutionary analysis of amino acid repeats across the genomes of 12 Drosophila species

Repeated motifs of amino acids within proteins are an abundant feature of eukaryotic sequences and may catalyze the rapid production of genetic and even phenotypic variation among organisms. The completion of the genome sequencing projects of 12 distinct Drosophila species provides a unique dataset to study these intriguing sequence features on a phylogeny with a variety of timescales. We show that there is a higher percentage of proteins containing repeats within the Drosophila genus than most other eukaryotes, including non-Drosphila insects, which makes this collection of species particularly useful for the study of protein repeats. We also find that proteins containing repeats are overrepresented in functional categories involving developmental processes, signaling, and gene regulation. Using the set of 1-to-1 ortholog alignments for the 12 Drosophila species, we test the ability of repeats to act as reliable phylogenetic signals and find that they resolve the generally accepted phylogeny despite the noise caused by their accelerated rate of evolution. We also determine that in general the position of repeats within a protein sequence is non-random, with repeats more often being absent from the middle regions of sequences. Finally we find evidence to suggest that the presence of repeats is associated with an increase in evolutionary rate upon the entire sequence in which they are embedded. With additional evidence to suggest a corresponding elevation in positive selection we propose that some repeats may be inducing compensatory substitutions in their surrounding sequence.     

Cooperation driven by mutations in multi-person Prisoner's Dilemma

The n-person Prisoner's Dilemma is a widely used model for populations where individuals interact in groups. The evolutionary stability of populations has been analysed in the literature for the case where mutations in the population may be considered as isolated events. For this case, and assuming simple trigger strategies and many iterations per game, we analyse the rate of convergence to the evolutionarily stable populations. We find that for some values of the payoff parameters of the Prisoner's Dilemma this rate is so low that the assumption, that mutations in the population are infrequent on that time-scale, is unreasonable. Furthermore, the problem is compounded as the group size is increased. In order to address this issue, we derive a deterministic approximation of the evolutionary dynamics with explicit, stochastic mutation processes, valid when the population size is large. We then analyse how the evolutionary dynamics depends on the following factors: mutation rate, group size, the value of the payoff parameters, and the structure of the initial population. In order to carry out the simulations for groups of more than just a few individuals, we derive an efficient way of calculating the fitness values. We find that when the mutation rate per individual and generation is very low, the dynamics is characterized by populations which are evolutionarily stable. As the mutation rate is increased, other fixed points with a higher degree of cooperation become stable. For some values of the payoff parameters, the system is characterized by (apparently) stable limit cycles dominated by cooperative behaviour. The parameter regions corresponding to high degree of cooperation grow in size with the mutation rate, and in number with the group size. For some parameter values, we find more than one stable fixed point, corresponding to different structures of the initial population.     

Power Law Distributions of Patents as Indicators of Innovation

The total number of patents produced by a country (or the number of patents produced per capita) is often used as an indicator for innovation. Here we present evidence that the distribution of patents amongst applicants within many countries is well-described by power laws with exponents that vary between 1.66 (Japan) and 2.37 (Poland). We suggest that this exponent is a useful new metric for studying innovation. Using simulations based on simple preferential attachment-type rules that generate power laws, we find we can explain some of the variation in exponents between countries, with countries that have larger numbers of patents per applicant generally exhibiting smaller exponents in both the simulated and actual data. Similarly we find that the exponents for most countries are inversely correlated with other indicators of innovation, such as research and development intensity or the ubiquity of export baskets. This suggests that in more advanced economies, which tend to have smaller values of the exponent, a greater proportion of the total number of patents are filed by large companies than in less advanced countries.     

Domain-domain interactions underlying herpesvirus-human protein-protein interaction networks

Protein-domains play an important role in mediating protein-protein interactions. Furthermore, the same domain-pairs mediate different interactions in different contexts and in various organisms, and therefore domain-pairs are considered as the building blocks of interactome networks. Here we extend these principles to the host-virus interface and find the domain-pairs that potentially mediate human-herpesvirus interactions. Notably, we find that the same domain-pairs used by other organisms for mediating their interactions underlie statistically significant fractions of human-virus protein inter-interaction networks. Our analysis shows that viral domains tend to interact with human domains that are hubs in the human domain-domain interaction network. This may enable the virus to easily interfere with a variety of mechanisms and processes involving various and different human proteins carrying the relevant hub domain. Comparative genomics analysis provides hints at a molecular mechanism by which the virus acquired some of its interacting domains from its human host.     

The Effect of Life History on Retroviral Genome Invasions

Endogenous retroviruses (ERV), or the remnants of past retroviral infections that are no longer active, are found in the genomes of most vertebrates, typically constituting approximately 10% of the genome. In some vertebrates, particularly in shorter-lived species like rodents, it is not unusual to find active endogenous retroviruses. In longer-lived species, including humans where substantial effort has been invested in searching for active ERVs, it is unusual to find them; to date none have been found in humans. Presumably the chance of detecting an active ERV infection is a function of the length of an ERV epidemic. Intuitively, given that ERVs or signatures of past ERV infections are passed from parents to offspring, we might expect to detect more active ERVs in species with longer generation times, as it should take more years for an infection to run its course in longer than in shorter lived species. This means the observation of more active ERV infections in shorter compared to longer-lived species is paradoxical. We explore this paradox using a modeling approach to investigate factors that influence ERV epidemic length. Our simple epidemiological model may explain why we find evidence of active ERV infections in shorter rather than longer-lived species.     

Modeling plasma virus concentration during primary HIV infection

During primary HIV infection the viral load in plasma increases, reaches a peak, and then declines. Phillips has suggested that the decline is due to a limitation in the number of cells susceptible to HIV infection, while other authors have suggested that the decline in viremia is due to an immune response. Here we address this issue by developing models of primary HIV-1 infection, and by comparing predictions from these models with data from ten anti-retroviral, drug-naive, infected patients. Applying nonlinear least-squares estimation, we find that relatively small variations in parameters are capable of mimicking the highly diverse patterns found in patient viral load data. This approach yields an estimate of 2.5 days for the average lifespan of productively infected cells during primary infection, a value that is consistent with results obtained by drug perturbation experiments. We find that the data from all ten patients are consistent with a target-cell-limited model from the time of initial infection until shortly after the peak in viremia. However, the kinetics of the subsequent fall and recovery in virus concentration in some patients are not consistent with the predictions of the target-cell-limited model. We illustrate that two possible immune response mechanisms, cytotoxic T lymphocyte destruction of infected target cells and cytokine suppression of viral replication, could account for declines in viral load data not predicted by the original target-cell-limited model. We conclude that some additional process, perhaps mediated by CD8+ T cells, is important in at least some patients.     

星形胶质细胞引起神经元超激发的作用机制分析

实验发现,星形胶质细胞表面膜上有多种神经递质受体,能积极参与脑内的信号传导,并与多种神经性疾病相关.在锥体神经元和星形胶质细胞的耦合网络中,星形胶质细胞能接受外部刺激.本文研究了在神经元和胶质细胞耦合系统中,将谷氨酸刺激加载在星形胶质细胞上的情况,发现神经元出现超激发现象,而神经元超激发是癫痫疾病的一个重要特征之一;并...     

Health as intra-systemic integrity: rethinking the foundations of systems biology and nanomedicine

In current research on systems biology and nanomedicine, we often find an ideal of a new science-based preventive medicine. I consider how disease, cause, explanation, diagnosis, and treatment are understood within this ideal, with special attention to the role of nanoscience and technology in elucidating the "circuit diagram" of a healthy system. I argue that the developmental systems theory that informed George Engel's biopsychosocial model addresses some deficiencies in the current systems ideal, but it needs to be integrated with an ethical analysis that is more attentive to the socioeconomic, cultural, and institutional factors that condition how we understand and manage disease. We also need a richer account of top-down causal paths if we are to appropriately understand diseases as disruptions of inter- and intra-systemic integrity.     

A Solution to the Challenge of Optimization on 'Golf-Course'-Like Fitness Landscapes

Genetic algorithms (GAs) have been used to find efficient solutions to numerous fundamental and applied problems. While GAs are a robust and flexible approach to solve complex problems, there are some situations under which they perform poorly. Here, we introduce a genetic algorithm approach that is able to solve complex tasks plagued by so-called ''''golf-course''''-like fitness landscapes. Our approach, which we denote variable environment genetic algorithms (VEGAs), is able to find highly efficient solutions by inducing environmental changes that require more complex solutions and thus creating an evolutionary drive. Using the density classification task, a paradigmatic computer science problem, as a case study, we show that more complex rules that preserve information about the solution to simpler tasks can adapt to more challenging environments. Interestingly, we find that conservative strategies, which have a bias toward the current state, evolve naturally as a highly efficient solution to the density classification task under noisy conditions.     

四川马边大风顶自然保护区周边社区对当地自然保护的影响

采用参与式评估和KAP研究等方法,对马边县境内大风顶自然保护区周边社区的社会经济及居民生态保护意识和行为进行调查。结果表明,社区经济落后、人口增长、教育水平偏低的现状构成对保护区影响的主要因素,另外当地的传统观念及生活习惯也对保护区动植物存在一定影响。通过分析,结合当地情况,为社区及保护区将来的发展提出参考建议。     

High-resolution description of antibody heavy-chain repertoires in humans

Antibodies' protective, pathological, and therapeutic properties result from their considerable diversity. This diversity is almost limitless in potential, but actual diversity is still poorly understood. Here we use deep sequencing to characterize the diversity of the heavy-chain CDR3 region, the most important contributor to antibody binding specificity, and the constituent V, D, and J segments that comprise it. We find that, during the stepwise D-J and then V-DJ recombination events, the choice of D and J segments exert some bias on each other; however, we find the choice of the V segment is essentially independent of both. V, D, and J segments are utilized with different frequencies, resulting in a highly skewed representation of VDJ combinations in the repertoire. Nevertheless, the pattern of segment usage was almost identical between two different individuals. The pattern of V, D, and J segment usage and recombination was insufficient to explain overlap that was observed between the two individuals' CDR3 repertoires. Finally, we find that while there are a near-infinite number of heavy-chain CDR3s in principle, there are about 3-9 million in the blood of an adult human being.     

Kinematic Responses to Changes in Walking Orientation and Gravitational Load in Drosophila melanogaster

Walking behavior is context-dependent, resulting from the integration of internal and external influences by specialized motor and pre-motor centers. Neuronal programs must be sufficiently flexible to the locomotive challenges inherent in different environments. Although insect studies have contributed substantially to the identification of the components and rules that determine locomotion, we still lack an understanding of how multi-jointed walking insects respond to changes in walking orientation and direction and strength of the gravitational force. In order to answer these questions we measured with high temporal and spatial resolution the kinematic properties of untethered Drosophila during inverted and vertical walking. In addition, we also examined the kinematic responses to increases in gravitational load. We find that animals are capable of shifting their step, spatial and inter-leg parameters in order to cope with more challenging walking conditions. For example, flies walking in an inverted orientation decreased the duration of their swing phase leading to increased contact with the substrate and, as a result, greater stability. We also find that when flies carry additional weight, thereby increasing their gravitational load, some changes in step parameters vary over time, providing evidence for adaptation. However, above a threshold that is between 1 and 2 times their body weight flies display locomotion parameters that suggest they are no longer capable of walking in a coordinated manner. Finally, we find that functional chordotonal organs are required for flies to cope with additional weight, as animals deficient in these proprioceptors display increased sensitivity to load bearing as well as other locomotive defects.