Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture

Approaches exploiting trait distribution extremes may be used to identify loci associated with common traits, but it is unknown whether these loci are generalizable to the broader population. In a genome-wide search for loci associated with the upper versus the lower 5th percentiles of body mass index, height and waist-to-hip ratio, as well as clinical classes of obesity, including up to 263,407 individuals of European ancestry, we identified 4 new loci (IGFBP4, H6PD, RSRC1 and PPP2R2A) influencing height detected in the distribution tails and 7 new loci (HNF4G, RPTOR, GNAT2, MRPS33P4, ADCY9, HS6ST3 and ZZZ3) for clinical classes of obesity. Further, we find a large overlap in genetic structure and the distribution of variants between traits based on extremes and the general population and little etiological heterogeneity between obesity subgroups.

Defining the role of common variation in the genomic and biological architecture of adult human height

Using genome-wide data from 253,288 individuals, we identified 697 variants at genome-wide significance that together explained one-fifth of the heritability for adult height. By testing different numbers of variants in independent studies, we show that the most strongly associated 1/42,000, 1/43,700 and 1/49,500 SNPs explained 1/421%, 1/424% and 1/429% of phenotypic variance. Furthermore, all common variants together captured 60% of heritability. The 697 variants clustered in 423 loci were enriched for genes, pathways and tissue types known to be involved in growth and together implicated genes and pathways not highlighted in earlier efforts, such as signaling by fibroblast growth factors, WNT/I 2-catenin and chondroitin sulfate-related genes. We identified several genes and pathways not previously connected with human skeletal growth, including mTOR, osteoglycin and binding of hyaluronic acid. Our results indicate a genetic architecture for human height that is characterized by a very large but finite number (thousands) of causal variants.

Genetic studies of body mass index yield new insights for obesity biology

Obesity is heritable and predisposes to many diseases. To understand the genetic basis of obesity better, here we conduct a genome-wide association study and Metabochip meta-analysis of body mass index (BMI), a measure commonly used to define obesity and assess adiposity, in up to 339,224 individuals. This analysis identifies 97 BMI-associated loci (P < 5 × 10(-8)), 56 of which are novel. Five loci demonstrate clear evidence of several independent association signals, and many loci have significant effects on other metabolic phenotypes. The 97 loci account for ∼2.7% of BMI variation, and genome-wide estimates suggest that common variation accounts for >20% of BMI variation. Pathway analyses provide strong support for a role of the central nervous system in obesity susceptibility and implicate new genes and pathways, including those related to synaptic function, glutamate signalling, insulin secretion/action, energy metabolism, lipid biology and adipogenesis.

HES6 drives a critical AR transcriptional programme to induce castration-resistant prostate cancer through activation of an E2F1-mediated cell cycle network

Castrate-resistant prostate cancer (CRPC) is poorly characterized and heterogeneous and while the androgen receptor (AR) is of singular importance, other factors such as c-Myc and the E2F family also play a role in later stage disease. HES6 is a transcription co-factor associated with stem cell characteristics in neural tissue. Here we show that HES6 is up-regulated in aggressive human prostate cancer and drives castration-resistant tumour growth in the absence of ligand binding by enhancing the transcriptional activity of the AR, which is preferentially directed to a regulatory network enriched for transcription factors such as E2F1. In the clinical setting, we have uncovered a HES6-associated signature that predicts poor outcome in prostate cancer, which can be pharmacologically targeted by inhibition of PLK1 with restoration of sensitivity to castration. We have therefore shown for the first time the critical role of HES6 in the development of CRPC and identified its potential in patient-specific therapeutic strategies.

Modulation of intracellular calcium homeostasis blocks autophagosome formation

Cellular stress responses often involve elevation of cytosolic calcium levels, and this has been suggested to stimulate autophagy. Here, however, we demonstrated that agents that alter intracellular calcium ion homeostasis and induce ER stress-the calcium ionophore A23187 and the sarco/endoplasmic reticulum Ca (2+)-ATPase inhibitor thapsigargin (TG)-potently inhibit autophagy. This anti-autophagic effect occurred under both nutrient-rich and amino acid starvation conditions, and was reflected by a strong reduction in autophagic degradation of long-lived proteins. Furthermore, we found that the calcium-modulating agents inhibited autophagosome biogenesis at a step after the acquisition of WIPI1, but prior to the closure of the autophagosome. The latter was evident from the virtually complete inability of A23187- or TG-treated cells to sequester cytosolic lactate dehydrogenase. Moreover, we observed a decrease in both the number and size of starvation-induced EGFP-LC3 puncta as well as reduced numbers of mRFP-LC3 puncta in a tandem fluorescent mRFP-EGFP-LC3 cell line. The anti-autophagic effect of A23187 and TG was independent of ER stress, as chemical or siRNA-mediated inhibition of the unfolded protein response did not alter the ability of the calcium modulators to block autophagy. Finally, and remarkably, we found that the anti-autophagic activity of the calcium modulators did not require sustained or bulk changes in cytosolic calcium levels. In conclusion, we propose that local perturbations in intracellular calcium levels can exert inhibitory effects on autophagy at the stage of autophagosome expansion and closure.

Pro-neural transcription factors as cancer markers

BACKGROUND: The aberrant transcription in cancer of genes normally associated with embryonic tissue differentiation at various organ sites may be a hallmark of tumour progression. For example, neuroendocrine differentiation is found more commonly in cancers destined to progress, including prostate and lung. We sought to identify proteins which are involved in neuroendocrine differentiation and differentially expressed in aggressive/metastatic tumours.

RESULTS: Expression arrays were used to identify up-regulated transcripts in a neuroendocrine (NE) transgenic mouse model of prostate cancer. Amongst these were several genes normally expressed in neural tissues, including the pro-neural transcription factors Ascl1 and Hes6. Using quantitative RT-PCR and immuno-histochemistry we showed that these same genes were highly expressed in castrate resistant, metastatic LNCaP cell-lines. Finally we performed a meta-analysis on expression array datasets from human clinical material. The expression of these pro-neural transcripts effectively segregates metastatic from localised prostate cancer and benign tissue as well as sub-clustering a variety of other human cancers.

CONCLUSION: By focussing on transcription factors known to drive normal tissue development and comparing expression signatures for normal and malignant mouse tissues we have identified two transcription factors, Ascl1 and Hes6, which appear effective markers for an aggressive phenotype in all prostate models and tissues examined. We suggest that the aberrant initiation of differentiation programs may confer a selective advantage on cells in all contexts and this approach to identify biomarkers therefore has the potential to uncover proteins equally applicable to pre-clinical and clinical cancer biology.

"Je ne sais plus du tout qui je suis": The Phenomenology of Cancer in Anne Cuneo’s 'Une cuillerée de bleu'

Taking as its case study Anne Cuneo’s autopathography, Une cuillerée de bleu (1979), and supported by a phenomenological reading of the subjective realities of illness, including feelings of alienation, fragmentation, and passivity, this article considers how the experience of cancer affects the patient’s perception of her body, self, and world.

Quantification of the smoking-associated cancer risk with rate advancement periods: meta-analysis of individual participant data from cohorts of the CHANCES consortium

BACKGROUND: Smoking is the most important individual risk factor for many cancer sites but its association with breast and prostate cancer is not entirely clear. Rate advancement periods (RAPs) may enhance communication of smoking related risk to the general population. Thus, we estimated RAPs for the association of smoking exposure (smoking status, time since smoking cessation, smoking intensity, and duration) with total and site-specific (lung, breast, colorectal, prostate, gastric, head and neck, and pancreatic) cancer incidence and mortality.

METHODS: This is a meta-analysis of 19 population-based prospective cohort studies with individual participant data for 897,021 European and American adults. For each cohort we calculated hazard ratios (HRs) for the association of smoking exposure with cancer outcomes using Cox regression adjusted for a common set of the most important potential confounding variables. RAPs (in years) were calculated as the ratio of the logarithms of the HRs for a given smoking exposure variable and age. Meta-analyses were employed to summarize cohort-specific HRs and RAPs.

RESULTS: Overall, 140,205 subjects had a first incident cancer, and 53,164 died from cancer, during an average follow-up of 12 years. Current smoking advanced the overall risk of developing and dying from cancer by eight and ten years, respectively, compared with never smokers. The greatest advancements in cancer risk and mortality were seen for lung cancer and the least for breast cancer. Smoking cessation was statistically significantly associated with delays in the risk of cancer development and mortality compared with continued smoking.

CONCLUSIONS: This investigation shows that smoking, even among older adults, considerably advances, and cessation delays, the risk of developing and dying from cancer. These findings may be helpful in more effectively communicating the harmful effects of smoking and the beneficial effect of smoking cessation.

O potencial de produção e comercialização de uvas "D. Maria" em Portugal

A produção de uva de mesa “Dona Maria”, casta 100% nacional criada e obtida nos anos 50 na antiga Estação Agronómica Nacional, em Oeiras, pelo engenheiro-agrónomo Leão Ferreira de Almeida, vem decrescendo ano após ano como resultado do desinteresse e abandono por parte dos agricultores. É uma uva muito doce, com bagos grandes e apreciada pelos portugueses que sentem cada vez mais dificuldades em encontrá-la no mercado. Este estudo de caso tem como objetivos verificar o porquê de tão pouca produção desta uva por parte dos agricultores e sugerir através de ferramentas e estratégias de marketing formas de fazer com que a uva seja mais conhecida e consumida pelo mercado português. No intuito de valorizar e consumir o que é nacional, a uva “Dona Maria” é uma excelente opção para o consumo em fresco ou na forma de passa, em cantinas de escolas e universidades. Os investimentos em novas tecnologias de produção e investigação por parte dos produtores também são uma boa opção para rentabilizar a casta e fazer com que ela não desapareça do mercado, o que seria desastroso na perspectiva cultural e económica; ### Abstract: The production of the table grape “Dona Maria”, a 100% national Portuguese grape variety, created and produced in the 1950s in the former National Agricultural Station (EAN) in Oeiras, Portugal, by Leão Ferreira de Almeida, has been decreasing year after year as a result of lack of interest and abandonment on behalf of producers. It is a very sweet grape with big berries and is highly appreciated by the Portuguese, who find it ever more difficult to find it in the marketplace. This case study´s objectives were to investigate the shortage of production by growers, and to suggest through marketing strategies and tools, ways to make this grape better known and more consumed by the Portuguese market. Within the scope of highlighting and promoting this national product, “Dona Maria” grape is an excellent option either as a fresh consumable or raisin in school and university restaurants. Investment in new production technologies and research are also a good choice and direction to promote the variety and avoid its disappearance from the market, which would be disastrous both culturally and economically.

Colaboração na formação inicial e abordagem didática da ortografia

Considerando que, na sociedade atual, o conhecimento flui incessantemente, renovando-se a cada momento, o cidadão do séc. XXI confronta-se com novos desafios que exigem o desenvolvimento de novas competências. Os recursos da web social – como os fóruns de discussão online –, gratuitos e fáceis de utilizar, permitem que os indivíduos acedam à informação, construam conhecimento, partilhem interesses e desenvolvam múltiplas competências em colaboração. Face a esta realidade, as instituições de Ensino Superior têm vindo a reconhecer que os estudantes já não se sentem confortáveis com abordagens de ensino tradicionais, em que impera a transmissão de informação, preferindo envolver-se em experiências de aprendizagem em que possam interagir com a tecnologia, pelas potencialidades que já lhe reconhecem. Procurando ir ao encontro das exigências da sociedade e do mundo do trabalho atuais, o Processo de Bolonha veio renovar os cursos de Ensino Superior, centrando-os no estudante e no desenvolvimento da autonomia e da colaboração, entre outras competências. Esta tendência vai ao encontro da reconhecida valorização da colaboração com vista à melhoria do desempenho de um grupo profissional. Também no contexto educacional se reconhece o seu contributo para o desenvolvimento profissional do professor e a operacionalização de um ensino por competências. Compete à formação de professores lançar as bases deste movimento.A formação inicial de professores do 1º Ciclo do Ensino Básico tem, entre outras preocupações, a de levar o futuro professor a refletir sobre princípios didáticos que informem a conceção, implementação e avaliação de estratégias e atividades que contribuam para o desenvolvimento de competências nos alunos. Entre as competências a desenvolver nas crianças a frequentar este nível de escolaridade, no que concerne à aprendizagem da língua materna, figura a competência ortográfica, indispensável a uma boa comunicação escrita. Quanto mais cedo for automatizada, mais possibilidades o aluno terá de se ocupar prioritariamente de outros aspetos mais complexos e exigentes do processo de escrita. Tendo em vista estas preocupações, desenvolvemos um estudo, com futuros professores do 1º Ciclo do Ensino Básico a frequentar um mestrado profissionalizante da Universidade de Aveiro, cujos objetivos de investigação eram os seguintes: i) descrever as suas representações sobre colaboração; ii) compreender a influência dessas representações na adoção de práticas colaborativas num fórum de discussão online; iii) compreender o contributo da colaboração adotada num fórum de discussão online para a construção de conhecimento didático sobre a abordagem da ortografia; iv) compreender o contributo desse conhecimento para a conceção de instrumentos didáticos sobre a abordagem da ortografia. Numa primeira fase, o estudo desenvolveu-se com dois grupos de alunos, que nele participaram em dois anos letivos distintos (2009/2010 e 2010/2011), no contexto da unidade curricular de Didática da Língua Portuguesa (inserida no plano de estudos do 1º semestre do 1º ano do Mestrado em Educação Pré- Escolar e Ensino no 1º Ciclo do Ensino Básico da Universidade de Aveiro). Numa segunda fase (entre o 2º semestre do ano letivo de 2011/2012 e 1º semestre do ano letivo de 2012/2013), recolheu-se o resultado de uma intervenção didática desenvolvida por uma professora estagiária (participante na primeira fase do estudo), no âmbito da Prática Pedagógica Supervisionada, apoiada pelo Seminário de Investigação Educacional. Tratando-se de um estudo de caso, a investigação envolveu a recolha de dados através de inquérito por questionário disponibilizado online, uma reflexão individual apresentada por escrito, posts e documentos publicados num fórum de discussão online e instrumentos didáticos (planificação de aulas e relatório de estágio) elaborados pelos estudantes. Procedeu-se a uma análise de conteúdo fundamentada nos quadros teóricos e no estudo empírico.Os resultados vêm aprofundar a discussão em torno da utilização de ferramentas da web social no Ensino Superior, nomeadamente na formação inicial de professores, para desenvolver a colaboração, visando a construção de conhecimento didático, particularmente sobre a abordagem da ortografia. Por um lado, apontam para a influência de representações sobre colaboração na adoção dessa modalidade de trabalho num fórum de discussão online. Por outro, revelam a influência dessa modalidade no conhecimento didático coconstruído e apontam para uma valorização do mesmo por parte dos participantes no estudo, no momento de conceber, implementar e avaliar instrumentos didáticos. Daqui emergiram algumas sugestões pedagógico-didáticas com vista à promoção de práticas inovadoras no Ensino Superior, com recurso a ferramentas da web social, centradas na aprendizagem dos estudantes e no desenvolvimento da colaboração, particularmente na formação inicial de professores.

Contribution d'experts, à l'aide de l'Internet, au développement des compétences discursives d'élèves de 6e année

Ce projet de recherche de type quasi-expérimental visait à favoriser le développement de compétences discursives chez des élèves de 6e année par l'application d'une démarche d'écriture associée à l'échange entre pairs et avec des experts. Les éléments discursifs d'un texte font référence à la capacité de juger la qualité d'un texte à partir de critères de cohérence, de structure et d'organisation des idées ainsi qu'à partir de composantes liées au respect du lecteur et de l'intention d'écriture. Trente-neuf élèves provenant d'un milieu socio-économique moyen ont participé à l'expérimentation alors que quarante-trois élèves composaient le groupe témoin. Tous les groupes d'élèves présentaient un niveau académique faible à moyen en français écrit. Dans le cadre de cette expérimentation, trois situations d'écriture ont été réalisées au cours d'une même année scolaire. Pour chacune de ces situations d'écriture, les élèves du groupe expérimental devaient écrire un texte et utiliser les questions-guides de la démarche proposée pour diriger leur attention sur les aspects discursifs du texte. Au cours de la démarche, les élèves participaient à des échanges de commentaires avec leurs pairs quant à la qualité de leur texte. Douze experts provenant des domaines du journalisme, de l'enseignement et de la littérature fournissaient des rétroactions aux élèves quant à la qualité de leur texte sur le plan discursif.