Graded Relative Evidence

Relative Evidential Supports (RES) was developed and justified several years ago as a non-numeric apparatus that allows us to compare evidential supports for alternative conclusions when making a decision. An extension called Graded Relative Evidence (GRE) of the RES concept of pairwise balancing and trading-off of evidence is reported here which keeps its basic features of simplicity and perspicacity but enriches its modelling fidelity by permitting very modest and intuitive variations in degrees of outweighing (which the essentially binary RES does not). The formal justification is very simply based on linkages to RES and to the Dempster - Shafer theory of evidence. The use of the simple extension is illustrated and to a small degree further justified empirically by application to a topical scientific debate about what is called the Congo Crossover Conjecture here. This decision-making instance is chosen because of the wealth of evidence that has been accumulated on both sides of the debate and the range of evidence strengths manifested in it. The conjecture is that the advent of Aids was in the late 1950s in the Congo when a vaccine for polio was allegedly cultivated in the kidneys of chimpanzees which allowed the Aids infection to cross over to humans from primates. © 2005 Springer.

Authority dependence and judgments of utilitarian harm

Three studies tested the conditions under which people judge utilitarian harm to be authority dependent (i.e., whether its right or wrongness depends on the ruling of an authority). In Study 1, participants judged the right or wrongness of physical abuse when used as an interrogation method anticipated to yield useful information for preventing future terrorist attacks. The ruling of the military authority towards the harm was manipulated (prohibited vs. prescribed) and found to significantly influence judgments of the right or wrongness of inflicting harm. Study 2 established a boundary condition with regards to the influence of authority, which was eliminated when the utility of the harm was definitely obtained rather than forecasted. Finally, Study 3 replicated the findings of Studies 1-2 in a completely different context—an expert committee’s ruling about the harming of chimpanzees for biomedical research. These results are discussed as they inform ongoing debates regarding the role of authority in moderating judgments of complex and simple harm. 2013 Elsevier B.V. © All rights reserved.

Evolution and functional relevance of Ataxin-3 paralogues

O gene ataxin-3 (ATXN3; 14q32.1) codifica uma proteína expressa ubiquamente, envolvida na via ubiquitina-proteassoma e na repressão da transcrição. Grande relevância tem sido dada ao gene ATXN3 após a identificação de uma expansão (CAG)n na sua região codificante, responsável pela ataxia mais comum em todo o mundo, SCA3 ou doença de Machado-Joseph (DMJ). A DMJ é uma doença neurodegenerativa, autossómica dominante, de início tardio. O tamanho do alelo expandido explica apenas uma parte do pleomorfismo da doença, evidenciando a importância do estudo de outros modificadores. Em doenças de poliglutaminas (poliQ), a toxicidade é causada por um ganho de função da proteína expandida; no entanto, a proteína normal parece ser, também, um dos agentes modificadores da patogénese. O gene ATXN3 possui dois parálogos humanos gerados por retrotransposição: ataxin-3 like (ATXN3L) no cromossoma X, e LOC100132280, ainda não caracterizado, no cromossoma 8. Estudos in vitro evidenciaram a capacidade da ATXN3L para clivar cadeias de ubiquitina, sendo o seu domínio proteolítico mais eficiente do que o domínio da ATXN3 parental. O objetivo deste estudo foi explorar a origem e a evolução das retrocópias ATXN3L e LOC100132280 (aqui denominadas ATXN3L1 e ATXN3L2), assim como testar a relevância funcional de ambas através de abordagens evolutivas e funcionais. Deste modo, para estudar a divergência evolutiva dos páralogos do gene ATXN3: 1) analisaram-se as suas filogenias e estimou-se a data de origem dos eventos de retrotransposição; 2) avaliaram-se as pressões seletivas a que têm sido sujeitos os três parálogos, ao longo da evolução dos primatas; e 3) explorou-se a evolução das repetições CAG, localizadas em três contextos genómicos diferentes, provavelmente sujeitos a diferentes pressões seletivas. Finalmente, para o retrogene que conserva uma open reading frame (ORF) intacta, ATXN3L1, analisou-se, in silico, a conservação dos locais e domínios proteicos da putativa proteína. Ademais, para este retrogene, foi estudado o padrão de expressão de mRNA, através da realização de PCR de Transcriptase Reversa, em 16 tecidos humanos. Os resultados obtidos sugerem que dois eventos independentes de retrotransposição estiveram na origem dos retrogenes ATXN3L1 e ATXN3L2, tendo o primeiro ocorrido há cerca de 63 milhões de anos (Ma) e o segundo após a divisão Platirrínios-Catarrínios, há cerca de 35 Ma. Adicionalmente, outras retrocópias foram encontradas em primatas e outros mamíferos, correspondendo, no entanto, a eventos mais recentes e independentes de retrotransposição. A abordagem evolutiva mostrou a existência de algumas constrições selectivas associadas à evolução do gene ATXN3L1, à semelhança do que acontece com ATXN3. Por outro lado, ATXN3L2 adquiriu codões stop prematuros que, muito provavelmente, o tornaram num pseudogene processado. Os resultados da análise de expressão mostraram que o gene ATXN3L1 é transcrito, pelo menos, em testículo humano; no entanto, a optimização final da amplificação específica dos transcriptos ATXN3L1 permitirá confirmar se a expressão se estende a outros tecidos. Relativamente ao mecanismo de mutação inerente à repetição CAG, os dois parálogos mostraram diferentes padrões de evolução: a retrocópia ATXN3L1 é altamente interrompida e pouco polimórfica, enquanto a ATXN3L2 apresenta tratos puros de (CAG)n em algumas espécies e tratos hexanucleotídicos de CGGCAG no homem e no chimpanzé. A recente aquisição da repetição CGGCAG pode ter resultado de uma mutação inicial de CAG para CGG, seguida de instabilidade que proporcionou a expansão dos hexanucleótidos.Estudos futuros poderão ser realizados no sentido de confirmar o padrão de expressão do gene ATXN3L1 e de detetar proteína endógena in vivo. Adicionalmente, a caracterização da proteina ataxina-3 like 1 e dos seus interatores moleculares poderá povidenciar informação acerca da sua relevância no estado normal e patológico.

Conservation status of the endangered chimpanzee (Pan troglodytes verus) in Lagoas de Cufada Natural Park : (Republic of Guinea-Bissau)

Tese de doutoramento, Biologia (Ecologia), Universidade de Lisboa, Faculdade de Ciências, 2014

Chaînes opératoires and resource-exploitation strategies in chimpanzee (Pan troglodytes) nut cracking

Journal of Human Evolution, V. 55, pp. 148-163

Behavioural development in a matching-to-sample task and token use by an infant chimpanzee reared by his mother

Animal Cognition, V.6, pp. 259–267

Age and species related variation in the development of growth plates of the knee and implications for the locomotion of Australopithecus afarensis

Comprendre l'évolution de la bipédie est un élément essentiel à la recherche en paléoanthropologie, car ce comportement est le trait le plus important utilisé pour identifier les fossiles comme appartenant à la lignée des hominines. La topographie de la surface infradiaphysaire du fémur et du tibia pourrait donner un aperçu du comportement locomoteur des espèces fossiles, mais n'a pas été étudiée de façon approfondie. Ce trait reflète directement les différences dans la locomotion, puisque la surface change de topographie pour mieux résister aux charges encourues par les mouvements réguliers. Le plan infradiaphysaire du fémur chez les humain est relativement plat, tandis que la surface est plus irrégulière chez les grands singes. Dans ce projet, les métaphyses du genou ont été étudiées d’une manière quantifiée afin de percevoir les différences entre espèces et mieux comprendre le développement ontogénique de ces traits. Les angles formés par les protrusions et les creux de ces surfaces ont été mesurés à partir de points de repère enregistrés en trois-dimensions sur les métaphyses du genou chez les humains, chimpanzés, gorilles, et orangs-outans, et chez trois fossiles Australopithecus afarensis, afin d’observer de l’effet de facteurs tel le stade de croissance et l’appartenance à une espèce sur la topographie des plaques de croissance du genou. Les angles d’obliquité du fémur et du tibia ont aussi été mesurés et analysés. Les résultats ont révélé que le stade développemental et l’appartenance à une espèce et, par association, le mode de locomotion, ont un effet significatif sur les métaphyses du genou. Il a également été constaté que les mesures d'Australopithecus afarensis chevauchent les valeurs trouvées chez les humains et chez les grands singes, ce qui suggère que cette espèce avait possiblement conservé une composante arboricole dans son comportement locomoteur habituel.

Working memory and working attention: What could possibly evolve?

The concept of “working” memory is traceable back to nineteenth century theorists (Baldwin, 1894; James 1890) but the term itself was not used until the mid-twentieth century (Miller, Galanter & Pribram, 1960). A variety of different explanatory constructs have since evolved which all make use of the working memory label (Miyake & Shah, 1999). This history is briefly reviewed and alternative formulations of working memory (as language-processor, executive attention, and global workspace) are considered as potential mechanisms for cognitive change within and between individuals and between species. A means, derived from the literature on human problem-solving (Newell & Simon, 1972), of tracing memory and computational demands across a single task is described and applied to two specific examples of tool-use by chimpanzees and early hominids. The examples show how specific proposals for necessary and/or sufficient computational and memory requirements can be more rigorously assessed on a task by task basis. General difficulties in connecting cognitive theories (arising from the observed capabilities of individuals deprived of material support) with archaeological data (primarily remnants of material culture) are discussed.

Evolutionary relationships of "candidatus riesia spp.," endosymbiotic enterobacteriaceae living within hematophagous primate lice

The primary endosymbiotic bacteria from three species of parasitic primate lice were characterized molecularly. We have confirmed the characterization of the primary endosymbiont (P-endosymbiont) of the human head/body louse Pediculus humanus and provide new characterizations of the P-endosymbionts from Pediculus schaeffi from chimpanzees and Pthirus pubis, the pubic louse of humans. The endosymbionts show an average percent sequence divergence of 11 to 15% from the most closely related known bacterium "Candidatus Arsenophonus insecticola." We propose that two additional species be added to the genus "Candidatus Riesia." The new species proposed within "Candidatus Riesia" have sequence divergences of 3.4% and 10 to 12% based on uncorrected pairwise differences. Our Bayesian analysis shows that the branching pattern for the primary endosymbionts was the same as that for their louse hosts, suggesting a long coevolutionary history between primate lice and their primary endosymbionts. We used a calibration of 5.6 million years to date the divergence between endosymbionts from human and chimpanzee lice and estimated an evolutionary rate of nucleotide substitution of 0.67% per million years, which is 15 to 30 times faster than previous estimates calculated for Buchnera, the primary endosymbiont in aphids. Given the evidence for cospeciation with primate lice and the evidence for fast evolutionary rates, this lineage of endosymbiotic bacteria can be evaluated as a fast-evolving marker of both louse and primate evolutionary histories.

Distribution of potential suitable hammers and transport of hammer tools and nuts by wild capuchin monkeys

Selection and transport of objects to use as tools at a distant site are considered to reflect planning. Ancestral humans transported tools and tool-making materials as well as food items. Wild chimpanzees also transport selected hammer tools and nuts to anvil sites. To date, we had no other examples of selection and transport of stone tools among wild nonhuman primates. Wild bearded capuchins (Cebus libidinosus) in Boa Vista (Piaui, Brazil) routinely crack open palm nuts and other physically well-protected foods on level surfaces (anvils) using stones (hammers) as percussive tools. Here we present indirect evidence, obtained by a transect census, that stones suitable for use as hammers are rare (study 1) and behavioral evidence of hammer transport by twelve capuchins (study 2). To crack palm nuts, adults transported heavier and harder stones than to crack other less resistant food items. These findings show that wild capuchin monkeys selectively transport stones of appropriate size and hardness to use as hammers, thus exhibiting, like chimpanzees and humans, planning in tool-use activities.

Physical properties of palm fruits processed with tools by wild bearded capuchins (Cebus libidinosus)

Habitually, capuchin monkeys access encased hard foods by using their canines and premolars and/or by pounding the food on hard surfaces. Instead, the wild bearded capuchins (Cebus libidinosus) of Boa Vista (Brazil) routinely crack palm fruits with tools. We measured size, weight, structure, and peak-force-at-failure of the four palm fruit species most frequently processed with tools by wild capuchin monkeys living in Boa Vista. Moreover, for each nut species we identify whether peak-force-at-failure was consistently associated with greater weight/volume, endocarp, thickness, and structural complexity. The goals of this study were (a) to investigate whether these palm fruits are difficult, or impossible, to access other than with tools and (b) to collect data on the physical properties of palm fruits that are comparable to those available for the nuts cracked open with tools by wild chimpanzees. Results showed that the four nut species differ in terms of peak-force-at-failure and that peak-force-at-failure is positively associated with greater weight (and consequently volume) and apparently with structural complexity (i.e. more kernels and thus more partitions); finally for three out of four nut species shell thickness is also positively associated with greater volume. The finding that the nuts exploited by capuchins with tools have very high resistance values support the idea that tool use is indeed mandatory to crack them open. Finally, the peak-force-at-failure of the piassava nuts is similar to that reported for the very tough panda nuts cracked open by wild chimpanzees; this highlights the ecological importance of tool use for exploiting high resistance foods in this capuchin species.

Dimorfismo sexual em espécies de macacos-aranha, gênero Ateles É. Geoffroy, 1806 (Atelidae), com distribuição amazônica

O estudo das diferenças sexuais secundárias em macacos-aranha (gênero Ateles É. Geoffroy, 1806) tem apresentado resultados controversos, principalmente em relação ao peso do corpo. Os resultados vão desde positivamente dimórficos, onde os machos são maiores que as fêmeas, até negativamente dimórficos, com fêmeas maiores que os machos. No entanto, sabe-se que o grupo apresenta o menor grau de dimorfismo entre os Atelídeos. Considerando que diferenças sexuais em relação à massa do corpo influenciam diretamente nas medidas cranianas do indivíduo, foram realizadas comparações de 25 medidas cranianas e três medidas corpóreas de três espécies de primatas do gênero Ateles com distribuição amazônica, A. paniscus, A. marginatus e A. chamek. Foram utilizadas amostras de exemplares adultos depositados em três museus brasileiros. Não havia amostras suficientes da espécie A. belzebuth para a realização da análise. Além das análises morfométricas, foi realizada uma comparação etária para o tamanho da faixa de pêlos brancos da face dos exemplares de A. marginatus. As medidas cranianas foram comparadas entre os sexos através de análises multivariadas, (análise de componentes principais-ACP e análise discriminante-AD), enquanto que as medidas do corpo e da mancha frontal foram comparadas através da ANOVA. A espécie A. marginatus não apresentou diferenças sexuais no padrão de distribuição dos pêlos brancos da face, porém o mesmo parece sofrer influência da idade. Para as medidas relacionadas ao corpo, somente as espécies A. paniscus e A. marginatus apresentaram amostras suficientes para a realização das análises estatísticas. Para ambas espécies não foram observadas diferenças entre os sexos, salvo para a do comprimento da cauda de A. paniscus, que se apresentou como negativamente dimórfica. No entanto, esse resultado pode ser reflexo de erros na mensuração dos exemplares no momento da coleta. Para as medidas cranianas e mandibulares, todas as espécies apresentaram poucas variáveis dimórficas, mas em relação ao tamanho do dente canino, as diferenças entre machos e fêmeas foram altamente significativas. Outras medidas que se apresentaram como dimórficas foram aquelas relacionadas ao aparato mastigatório. Considerando que essas estruturas participam diretamente das relações de competição e hierarquia, o baixo grau de dimorfismo sexual associado ao gênero Ateles pode ser resultado do seu sistema social do tipo fissão-fusão. Uma comparação foi realizada com dados de literatura dos chimpanzés que possuem o mesmo sistema de organização social, porém apresentam-se mais dimórficos. Foi verificado que diferenças no modo de forrageamento, organização e utilização do habitat pelas fêmeas podem determinar um crescimento diferenciado em relação aos machos e, consequentemente, ter influência no grau de dimorfismo apresentado por essas espécies. Apesar de ter sido considerado, no presente estudo, como um grupo monomórfico, as diferenças sexuais em Ateles parecem ser mais evidentes na idade subadulta. Portanto, faz-se necessário um estudo ontogenético que realize um melhor refinamento da classe adulta a fim de determinar, aproximadamente, em que período do ciclo de vida desses primatas ocorre essa diferenciação, e quais fatores ecológicos ou comportamentais podem ser associados a essa característica.

Review of Harvest for Hope: A Guide to Mindful Eating by Jane Goodall with Gary McAvoy and Gail Hudson

One of the world's preeminent experts on primate behavior, author Jane Goodall now invests her boundless energy traveling and speaking about conservation. After years of studying chimpanzees in the Gombe National Park in Tanzania, Goodall found their very existence threatened by poachers, by encroachment of farming into their habitat, and by global forces far from their wild environment. She is now on a mission to inform the public about what is wrong with our society and its impact on the planet. Harvest for Hope catalogs the problems and provides practical solutions.

How wild bearded capuchin monkeys select stones and nuts to minimize the number of strikes per nut cracked

Wild bearded capuchin monkeys, Cebus libidinosus, use stone tools to crack palm nuts to obtain the kernel. In five experiments, we gave 10 monkeys from one wild group of bearded capuchins a choice of two nuts differing in resistance and size and/or two manufactured stones of the same shape, volume and composition but different mass. Monkeys consistently selected the nut that was easier to crack and the heavier stone. When choosing between two stones differing in mass by a ratio of 1.3:1, monkeys frequently touched the stones or tapped them with their fingers or with a nut. They showed these behaviours more frequently before making their first selection of a stone than afterward. These results suggest that capuchins discriminate between nuts and between stones, selecting materials that allow them to crack nuts with fewer strikes, and generate exploratory behaviours to discriminate stones of varying mass. In the final experiment, humans effectively discriminated the mass of stones using the same tapping and handling behaviours as capuchins. Capuchins explore objects in ways that allow them to perceive invariant properties (e.g. mass) of objects, enabling selection of objects for specific uses. We predict that species that use tools will generate behaviours that reveal invariant properties of objects such as mass; species that do not use tools are less likely to explore objects in this way. The precision with which individuals can judge invariant properties may differ considerably, and this also should predict prevalence of tool use across species. (C) 2010 The Association for the Study of Animal Behaviour. Published by Elsevier Ltd. All rights reserved.

Bearded capuchin monkeys` and a human`s efficiency at cracking palm nuts with stone tools: field experiments

Wild bearded capuchins, Cebus libidinosus, in Fazenda Boa Vista, Brazil crack tough palm nuts using hammer stones. We analysed the contribution of intrinsic factors (body weight, behaviour), size of the nuts and the anvil surface (flat or pit) to the efficiency of cracking. We provided capuchins with local palm nuts and a single hammer stone at an anvil. From video we scored the capuchins` position and actions with the nut prior to each strike, and outcomes of each strike. The most efficient capuchin opened 15 nuts per 100 strikes (6.6 strikes per nut). The least efficient capuchin that succeeded in opening a nut opened 1.32 nuts per 100 strikes (more than 75 strikes per nut). Body weight and diameter of the nut best predicted whether a capuchin would crack a nut on a given strike. All the capuchins consistently placed nuts into pits. To provide an independent analysis of the effect of placing the nut into a pit, we filmed an adult human cracking nuts on the same anvil using the same stone. The human displaced the nut on proportionally fewer strikes when he placed it into a pit rather than on a flat surface. Thus the capuchins placed the nut in a more effective location on the anvil to crack it. Nut cracking as practised by bearded capuchins is a striking example of a plastic behaviour where costs and benefits vary enormously across individuals, and where efficiency requires years to attain. (C) 2009 The Association for the Study of Animal Behaviour. Published by Elsevier Ltd. All rights reserved.