Getting rid of interventions

According to James Woodward’s influential interventionist account of causation, X is a cause of Y iff, roughly, there is a possible intervention on X that changes Y. Woodward requires that interventions be merely logically possible. I will argue for two claims against this modal character of interventions: First, merely logically possible interventions are dispensable for the semantic project of providing an account of the meaning of causal statements. If interventions are indeed dispensable, the interventionist theory collapses into (some sort of) a counterfactual theory of causation. Thus, the interventionist theory is not tenable as a theory of causation in its own right. Second, if one maintains that merely logically possible interventions are indispensable, then interventions with this modal character lead to the fatal result that interventionist counterfactuals are evaluated inadequately. Consequently, interventionists offer an inadequate theory of causation. I suggest that if we are concerned with explicating causal concepts and stating the truth-conditions of causal claims we best get rid of Woodwardian interventions.     

Natural regeneration as a tool for large‐scale forest restoration in the tropics: prospects and challenges

A major global effort to enable cost‐effective natural regeneration is needed to achieve ambitious forest and landscape restoration goals. Natural forest regeneration can potentially play a major role in large‐scale landscape restoration in tropical regions. Here, we focus on the conditions that favor natural regeneration within tropical forest landscapes. We illustrate cases where large‐scale natural regeneration followed forest clearing and non‐forest land use, and describe the social and ecological factors that drove these local forest transitions. The self‐organizing processes that create naturally regenerating forests and natural regeneration in planted forests promote local genetic adaptation, foster native species with known traditional uses, create spatial and temporal heterogeneity, and sustain local biodiversity and biotic interactions. These features confer greater ecosystem resilience in the face of future shocks and disturbances. We discuss economic, social, and legal issues that challenge natural regeneration in tropical landscapes. We conclude by suggesting ways to enable natural regeneration to become an effective tool for implementing large‐scale forest and landscape restoration. Major research and policy priorities include: identifying and modeling the ecological and economic conditions where natural regeneration is a viable and favorable land‐use option, developing monitoring protocols for natural regeneration that can be carried out by local communities, and developing enabling incentives, governance structures, and regulatory conditions that promote the stewardship of naturally regenerating forests. Aligning restoration goals and practices with natural regeneration can achieve the best possible outcome for achieving multiple social and environmental benefits at minimal cost.     

Tracking Protests Using Geotagged Flickr Photographs

Recent years have witnessed waves of protests sweeping across countries and continents, in some cases resulting in political and governmental change. Much media attention has been focused on the increasing usage of social media to coordinate and provide instantly available reports on these protests. Here, we investigate whether it is possible to identify protest outbreaks through quantitative analysis of activity on the photo sharing site Flickr. We analyse 25 million photos uploaded to Flickr in 2013 across 244 countries and regions, and determine for each week in each country and region what proportion of the photographs are tagged with the word “protest” in 34 different languages. We find that higher proportions of “protest”-tagged photographs in a given country and region in a given week correspond to greater numbers of reports of protests in that country and region and week in the newspaper The Guardian. Our findings underline the potential value of photographs uploaded to the Internet as a source of global, cheap and rapidly available measurements of human behaviour in the real world.     

Type I Interferon Induction Is Detrimental during Infection with the Whipple's Disease Bacterium,Tropheryma whipplei

Macrophages are the first line of defense against pathogens. Upon infection macrophages usually produce high levels of proinflammatory mediators. However, macrophages can undergo an alternate polarization leading to a permissive state. In assessing global macrophage responses to the bacterial agent of Whipple''s disease, Tropheryma whipplei, we found that T. whipplei induced M2 macrophage polarization which was compatible with bacterial replication. Surprisingly, this M2 polarization of infected macrophages was associated with apoptosis induction and a functional type I interferon (IFN) response, through IRF3 activation and STAT1 phosphorylation. Using macrophages from mice deficient for the type I IFN receptor, we found that this type I IFN response was required for T. whipplei-induced macrophage apoptosis in a JNK-dependent manner and was associated with the intracellular replication of T. whipplei independently of JNK. This study underscores the role of macrophage polarization in host responses and highlights the detrimental role of type I IFN during T. whipplei infection.     

CD200 Receptor Controls Sex-Specific TLR7 Responses to Viral Infection

Immunological checkpoints, such as the inhibitory CD200 receptor (CD200R), play a dual role in balancing the immune system during microbial infection. On the one hand these inhibitory signals prevent excessive immune mediated pathology but on the other hand they may impair clearance of the pathogen. We studied the influence of the inhibitory CD200-CD200R axis on clearance and pathology in two different virus infection models. We find that lack of CD200R signaling strongly enhances type I interferon (IFN) production and viral clearance and improves the outcome of mouse hepatitis corona virus (MHV) infection, particularly in female mice. MHV clearance is known to be dependent on Toll like receptor 7 (TLR7)-mediated type I IFN production and sex differences in TLR7 responses previously have been reported for humans. We therefore hypothesize that CD200R ligation suppresses TLR7 responses and that release of this inhibition enlarges sex differences in TLR7 signaling. This hypothesis is supported by our findings that in vivo administration of synthetic TLR7 ligand leads to enhanced type I IFN production, particularly in female Cd200^−/− mice and that CD200R ligation inhibits TLR7 signaling in vitro. In influenza A virus infection we show that viral clearance is determined by sex but not by CD200R signaling. However, absence of CD200R in influenza A virus infection results in enhanced lung neutrophil influx and pathology in females. Thus, CD200-CD200R and sex are host factors that together determine the outcome of viral infection. Our data predict a sex bias in both beneficial and pathological immune responses to virus infection upon therapeutic targeting of CD200-CD200R.     

Biological control and the Nagoya Protocol on access and benefit sharing – a case of effective due diligence

ABSTRACT

Biological control agents must be collected and utilised in compliance with the Nagoya Protocol on Access and Benefit Sharing (ABS) which is being implemented independently by each country that is signatory to the Protocol. By March 2018, 50 countries had legislation in place with an additional 54 designing their Legislative, Administrative or Policy Measures having become Party to the Protocol. Apart from the problem of dealing with the many different mechanisms countries are putting in place, it is often difficult to find relevant information on the ABS Clearing House and to access and receive appropriate responses from the National Focal Points or Competent National Authorities. We feel that a lot of time is lost on both sides (National authorities and scientists seeking information), and the process would benefit from streamlining. Also, open questions remain, such as how to deal with the generation digital sequence information and what specific activities are considered utilisation, especially for biological control. CABI has pro-actively developed an ABS policy and best practices for its staff to try and comply with the Nagoya Protocol. In addition, CABI has started negotiations with several provider countries, beginning with its member countries, to have its ABS policy and best practices recognised, considering the non-monetary benefits typically associated with biological control. The Nagoya Protocol was born out of the necessity to guarantee the fair and equitable sharing of benefits arising from the utilisation of genetic resources. However, it should not hinder the development of best practice solutions to protect exactly these genetic resources from threats like invasive species. It is important that research and development that addresses global societal challenges are not impeded and that science and its output are recognised as a way to preserve and use genetic resources in an equitable way.     

Climate variability and child height in rural Mexico

We examine the impacts of weather shocks, defined as rainfall or growing degree days, a cumulative measure of temperature, more than a standard deviation from their respective long run mean, on the stature of children between 12 and 47 months of age in Mexico. We find that after a positive rainfall shock children are shorter regardless of their region or altitude. Negative temperature shocks have a negative impact on height in the central and southern parts of the country as well as in higher altitudes. Although on average there are no statistically significant impacts from positive temperature shocks, certain sub-populations - namely boys, children between 12 and 23 months at the time of measurement, and children of less educated mothers - in some of the regions are negatively impacted. The results also suggest that potentially both agricultural income and communicable disease prevalence contribute to the effects.     

Serologic markers in relation to parasite exposure history help to estimate transmission dynamics of Plasmodium vivax

Plasmodium vivax infection has been gaining attention because of its re-emergence in several parts of the world. Southeastern Turkey is one of the places in which persistent focal malaria caused exclusively by P. vivax parasites occurs. Although control and elimination studies have been underway for many years, no detailed study has been conducted to understand the mechanisms underlying the ineffective control of malaria in this region. Here, for the first time, using serologic markers we try to extract as much information as possible in this region to get a glimpse of P. vivax transmission. We conducted a sero-immunological study, evaluating antibody responses of individuals living in Sanliurfa to four different P. vivax antigens; three blood-stage antigens (PvMSP1₁₉, PvAMA1-ecto, and PvSERA4) and one pre-erythrocytic stage antigen (PvCSP). The results suggest that a prior history of malaria infection and age can be determining factors for the levels and sustainability of naturally acquired antibodies. Significantly higher antibody responses to all the studied antigens were observed in blood smear-negative individuals with a prior history of malaria infection. Moreover, these individuals were significantly older than blood smear-negative individuals with no prior history of infection. These data from an area of sole P. vivax-endemic region may have important implications for the global malaria control/elimination programs and vaccine design.     

Effect of remained stem height on yield,quality of Inula helenium I. and on soil water content

To explore the reason causing low yield, poor quality of Inula helenium I., this paper investigated the influence of different remained stem heights on the yield, quality and water consumption of Inula helenium I. in Gannan plateau area using field single factor randomized block method. Research results showed that Inula helenium I. which was cut before blooming period in the last ten-day of July with remained stem height of 25?cm had the lowest water consumption, the best underground root traits (including main root length, root diameter, and root dry weight per plant), and the highest yield which was higher that control group by 18.73% (P?<?.01) Moreover, Inula helenium I. with remained stem height of 25?cm had the lowest ash content while the highest alantolactone content, therefore its quality was the best. The water use efficiency (WUE) of Inula helenium I. with remained stem height of 35?cm at September was the highest (1.12?kg?h?m^?2?mm^?1). However, in terms of biological yield WUE and economic yield WUE, Inula helenium I. with remained stem height of 15?cm was the highest. Therefore, it can be concluded that remained stem height from 15 to 25?cm is an ideal solution, which can not only save water, but also improve yield and quality of Inula helenium I.     

Identifying like-minded audiences for global warming public engagement campaigns: an audience segmentation analysis and tool development

Background

Achieving national reductions in greenhouse gas emissions will require public support for climate and energy policies and changes in population behaviors. Audience segmentation – a process of identifying coherent groups within a population – can be used to improve the effectiveness of public engagement campaigns.

Methodology/Principal Findings

In Fall 2008, we conducted a nationally representative survey of American adults (n = 2,164) to identify audience segments for global warming public engagement campaigns. By subjecting multiple measures of global warming beliefs, behaviors, policy preferences, and issue engagement to latent class analysis, we identified six distinct segments ranging in size from 7 to 33% of the population. These six segments formed a continuum, from a segment of people who were highly worried, involved and supportive of policy responses (18%), to a segment of people who were completely unconcerned and strongly opposed to policy responses (7%). Three of the segments (totaling 70%) were to varying degrees concerned about global warming and supportive of policy responses, two (totaling 18%) were unsupportive, and one was largely disengaged (12%), having paid little attention to the issue. Certain behaviors and policy preferences varied greatly across these audiences, while others did not. Using discriminant analysis, we subsequently developed 36-item and 15-item instruments that can be used to categorize respondents with 91% and 84% accuracy, respectively.

Conclusions/Significance

In late 2008, Americans supported a broad range of policies and personal actions to reduce global warming, although there was wide variation among the six identified audiences. To enhance the impact of campaigns, government agencies, non-profit organizations, and businesses seeking to engage the public can selectively target one or more of these audiences rather than address an undifferentiated general population. Our screening instruments are available to assist in that process.     

Demographic effects of warming,elevated soil nitrogen and thinning on the colonization of a perennial plant

Global change is causing significant modifications to native plant communities. These effects can be direct through changes in productivity, or indirect through the spread of invading species. Identifying vital traits important for individual species’ response to environmental variation could be useful for making predictions about how entire communities may respond to global change. I studied the effects of factors associated with global change on the demography of an experimentally introduced species, Pityopsis aspera. In a Florida old-field, I investigated how warming, increased soil nitrogen and thinning of the extant plant community affected survival, growth and reproduction of P. aspera using a life table response experiment. The estimated population growth rate (λ) of P. aspera was reduced by nitrogen addition, as a result of decreased fecundity. However, λ increased in response to the warming treatment, as a result of increased fecundity. In the presence of thinning, both warming and nitrogen served to increase λ as a result of an increase in the growth of young individuals. This experiment illustrates how different vital rates contribute to the population level responses of an experimentally introduced plant to warming, and nitrogen deposition. Results also show how these demographic responses may occur via indirect effects through established species. This work highlights the importance of studying interactions among temperature, soil nitrogen and demography across the entire life cycle in order to capture the complex and, often, non-additive relationships mediating global change effects.     

Identification procedure in a model of single fibre action potential – Part II: Global approach and experimental results

The present paper describes a global procedure for estimating all the synthesis parameters that generate a single fibre action potential (SFAP) in the Dimitrov–Dimitrova (D–D) convolutional model. We call this inverse problem Identification Procedure, and it is presented in two parts, this paper being the second. The procedure incorporates the candidate pair (CP) method developed in Part I, which provides the values of radial distance r and fibre diameter d of the simulated SFAP that best matches a potential under study. The CP-method required prior knowledge of all the excitation parameters. However, since the Identification Procedure makes no assumption about the excitation, multiple combinations of the synthesis parameters result in very similar SFAPs whose shape is close the signal under study. Analysis of the possible combinations reveals that r and d can be modelled as two jointly Gaussian random variables. The interest of the Identification Procedure is that, for a certain SFAP, it provides estimates of r and d, along with estimates of different parameters that determine the IAP waveform. Moreover, the procedure is able to determine the degree of error that accompanies the estimation of r and d.     

Testing for imitative and nonimitative social learning in the budgerigar using a two-object/two-action test

Male and female juvenile budgerigars, Melopsittacus undulatus, were allowed to observe a conspecific demonstrator using its beak to remove one of two distinctively coloured objects (i.e. a blue and a black stopper) from a hole in the lid of a box and eating seed from within. Both objects could be removed by either pulling up or pushing down. When subsequently allowed access to both stoppers, and rewarded with food for all removal responses, regardless of the object to which they were made and their direction, observer birds removed both stoppers in the same direction as their demonstrator. This effect was present on the first occasion when observers removed a stopper, and persisted over at least 24 trials. Female observers made more removal responses than males, but conspecific observation had equivalent effects on direction of responding in males and females. All observers tended to approach the same object as their demonstrator when the objects were discriminable using both spatial and colour cues, but not when they differed in colour alone. Contrary to previous findings, these results suggest that robust behavioural matching effects can be obtained in budgerigars, and that these birds are capable of motor imitation or emulation. Copyright 2002 The Association for the Study of Animal Behaviour. Published by Elsevier Science Ltd. All rights reserved.      

Mass-culling of a threatened island flying fox species failed to increase fruit growers’ profits and revealed gaps to be addressed for effective conservation

Human-wildlife conflicts (HWC) pose a growing threat to biodiversity worldwide and solutions can be as sound as the understanding of the HWC itself. Conservation biologists therefore must carefully examine their local situations to inform on which approach and strategies may be best. In this context, Mauritius implemented what may be the first mass-culls of an already threatened native species when it culled the flying fox (Pteropus niger) in 2015 and 2016 to try increase fruit producers’ profits. Although the Red List category of the species consequently worsened to ‘Endangered’ and fruit production dropped substantially, a third mass-cull was decided in 2018. A critical analysis is important to draw lessons that may help to prevent recurrences particularly that HWC involving Pteropus spp. are common and set to worsen. We synthesized the best literature available locally and also elsewhere in relevant situations, to critically appraise the setting, nature, timeline of events and outcome of both completed mass-culling campaigns to explore why and how they happened so as to help towards devising better approaches to such conflicts. The idea to cull P. niger originated around 2002 and a small cull was done in 2006. The first mass-cull started immediately after Mauritius’ biodiversity protection law was weakened in 2015 primarily to legalize culls of threatened native species, but still breached the law in place then. The 2016 mass-cull was recommended in line with the law, but was not evidence-based and consequently did not result in improved profits of fruit producers. Appeals supported by best scientific evidence from local and international organizations and conservationists to the effect that culls will not increase fruit production, but instead further endanger the species, were ignored. To forestall recurrences here and elsewhere, it matters to recognize their precursor signs and the conditions that favoured them including why the mass-culls were not stopped. The events provide a rare opportunity to explore the strategy that was used by conservationists and open the way to propose impactful alternatives or additional actions instead. The situation also exemplifies an eroding commitment towards biodiversity conservation, eased by withdrawal from evidence-based policy that suit short term goals of election cycles at the expense of longer term environmental interests.     

Design-driven, multi-use research agendas to enable applied synthetic biology for global health

Many of the synthetic biological devices, pathways and systems that can be engineered are multi-use, in the sense that they could be used both for commercially-important applications and to help meet global health needs. The on-going development of models and simulation tools for assembling component parts into functionally-complex devices and systems will enable successful engineering with much less trial-and-error experimentation and laboratory infrastructure. As illustrations, I draw upon recent examples from my own work and the broader Keasling research group at the University of California Berkeley and the Joint BioEnergy Institute, of which I was formerly a part. By combining multi-use synthetic biology research agendas with advanced computer-aided design tool creation, it may be possible to more rapidly engineer safe and effective synthetic biology technologies that help address a wide range of global health problems.     

A stochastic model for the economic management of a renewable animal resource

An optimal economic harvesting policy, which maximizes the present value of an animal population, capable of renewing itself, is discussed. It is assumed that, unhindered, the successive population levels, X_n, form a Markov chain, with transitions

$\text{X}{}_{\mathrm{n+1}}\text{=?(X}{}_{\mathrm{n}}\text{) + ?}{}_{\mathrm{n}}\text{?(X}{}_{\mathrm{n}}\text{)}$

, where f is the recruitment function, and {?_n} is an iid sequence of random shocks. When a positive set-up cost is present an optimal policy is of the (S,s) type. The optimal population level is compared with that of an equivalent deterministic model. Bioeconomic conditions, which imply the optimality of conservation, or extinction are investigated.     

A comparative study on the song and morphology of Isophya stysi and Isophya modestior (Orthoptera, Tettigoniidae)

We studied the song and morphology of Isophya stysi ?ejchan, 1958, and Isophya modestior Brunner von Wattenwyl, 1882, two closely related bush-cricket species, treated as endangered in Hungary. Our main goals were to find song and morphometric characters that can be used reliably for the identification of specimens and to present comparative results that help us to see the relationship of the two taxa more clearly. We have found that the syllables of Isophya stysi always begin with 1-5 slowly repeated, distinct pulses, while in I. modestior, pulse-repetition rate was evenly high throughout the whole main pulse series of the syllable. Discriminant analysis showed that on the basis of their morphology, all the examined male specimens can be classified correctly to their song-based identification; furthermore, the arrangement pattern of stridulatory pegs also differed for the two species. Our results confirm that the two taxa are best treated as specifically distinct as they are distinguishable and the observed song differences may well be able to maintain reproductive isolation between them. We provide classification functions (based on four morphometric characters) that can be used confidently for the identification of males; however, we could not find any reliable method for identifying females from their morphology. Our results suggest that within I. stysi the population of the central-Transylvanian mountain range differs from the others by producing a higher number of pulses per syllable and having more stridulatory pegs and less elongated left elytron.     

Psychophysiological Responses to Salsa Dance

Speculation exists whether dance provides physiological stimuli adequate to promote health and fitness benefits. Unfortunately, research to date has not addressed the affective and exertional responses to dance. These responses are of interest as positive affective and exertional responses experienced during physical activity may play an important role in predicting adherence. The present study aims to examine the psychophysiological responses of different Salsa dance styles. Ten pairs of dancers performed two different structured lessons of Salsa dance, including Typical Salsa and Rueda de Casino lessons, and a non-structured Salsa dance at a night club. Physiological responses (i.e., percent of heart rate reserve; %HRR) were continuously assessed and perceived exertion and affective valence were rated every 15 min throughout the trials. %HRR responses differed between the Salsa dance styles (%HRR from 41.3 to 51.9%), and participants were dancing at intensities near their ventilatory threshold. Specifically, Typical Salsa lesson elicited lower %HRR responses than Rueda de Casino lesson (p < 0.05), but similar %HRR responses to Salsa dance at a night club condition (p > 0.05). Surprisingly, exertional (from 8 to 11) and affective (from +3 to +5) responses were unaffected by Salsa dance styles (p > 0.05). These data support that different Salsa dance styles provide physiological stimuli adequate to promote health and fitness benefits, and perhaps more importantly, produce pleasurable experiences, which in turn might lead to an increase in adherence to Salsa dancing which likely provides exercise-like health benefits.     

Thematic Minireview Series: Complexities of Cellular Signaling Revealed by Simple Model Organisms*

All cells discriminate environmental signals and generate appropriate intracellular responses. Our understanding of these signal transduction mechanisms has benefitted from studies across the kingdoms of life, from fungi and fish to mice and men. This thematic minireview series examines lessons learned from three of the simplest (and best understood) eukaryotic model organisms. The first article focuses on the mating pheromone pathway in budding yeast Saccharomyces cerevisiae. The second describes stress-mediated signaling in the roundworm Caenorhabditis elegans. The third outlines some of the signaling pathways that dictate growth and development in the fruit fly Drosophila melanogaster. Each system has provided unique insights into hormone and neurotransmitter signaling mechanisms, in particular those mediated by the MAPKs. The advances described in these articles will continue to improve our understanding of human physiology and pharmacology.