Continued clearance of apoptotic cells critically depends on the phagocyte Ucp2 protein

Rapid and efficient removal of apoptotic cells by phagocytes is important during development, tissue homeostasis and in immune responses. Efficient clearance depends on the capacity of a single phagocyte to ingest multiple apoptotic cells successively, and to process the corpse-derived cellular material. However, the factors that influence continued clearance by phagocytes are not known. Here we show that the mitochondrial membrane potential of the phagocyte critically controls engulfment capacity, with lower potential enhancing engulfment and vice versa. The mitochondrial membrane protein Ucp2, which acts to lower the mitochondrial membrane potential, was upregulated in phagocytes engulfing apoptotic cells. Loss of Ucp2 reduced phagocytic capacity, whereas Ucp2 overexpression enhanced engulfment. Mutational and pharmacological studies indicated a direct role for Ucp2-mediated mitochondrial function in phagocytosis. Macrophages from Ucp2-deficient mice were impaired in phagocytosis in vitro, and Ucp2-deficient mice showed profound in vivo defects in clearing dying cells in the thymus and testes. Collectively, these data indicate that mitochondrial membrane potential and Ucp2 are key molecular determinants of apoptotic cell clearance. As Ucp2 is linked to metabolic diseases and atherosclerosis, this newly discovered role for Ucp2 in apoptotic cell clearance has implications for the complex aetiology and pathogenesis of these diseases.     

Central powering of the largest Lyman-α nebula is revealed by polarized radiation

High-redshift Lyman-α (Lyα) blobs are extended, luminous but rare structures that seem to be associated with the highest peaks in the matter density of the Universe. Their energy output and morphology are similar to those of powerful radio galaxies, but the source of the luminosity is unclear. Some blobs are associated with ultraviolet or infrared bright galaxies, suggesting an extreme starburst event or accretion onto a central black hole. Another possibility is gas that is shock-excited by supernovae. But not all blobs are associated with galaxies, and these ones may instead be heated by gas falling into a dark-matter halo. The polarization of the Lyα emission can in principle distinguish between these options, but a previous attempt to detect this signature returned a null detection. Here we report observations of polarized Lyα from the blob LAB1 (ref. 2). Although the central region shows no measurable polarization, the polarized fraction (P) increases to ～20 per cent at a radius of 45?kiloparsecs, forming an almost complete polarized ring. The detection of polarized radiation is inconsistent with the in situ production of Lyα photons, and we conclude that they must have been produced in the galaxies hosted within the nebula, and re-scattered by neutral hydrogen.     

New gene functions in megakaryopoiesis and platelet formation

Platelets are the second most abundant cell type in blood and are essential for maintaining haemostasis. Their count and volume are tightly controlled within narrow physiological ranges, but there is only limited understanding of the molecular processes controlling both traits. Here we carried out a high-powered meta-analysis of genome-wide association studies (GWAS) in up to 66,867 individuals of European ancestry, followed by extensive biological and functional assessment. We identified 68 genomic loci reliably associated with platelet count and volume mapping to established and putative novel regulators of megakaryopoiesis and platelet formation. These genes show megakaryocyte-specific gene expression patterns and extensive network connectivity. Using gene silencing in Danio rerio and Drosophila melanogaster, we identified 11 of the genes as novel regulators of blood cell formation. Taken together, our findings advance understanding of novel gene functions controlling fate-determining events during megakaryopoiesis and platelet formation, providing a new example of successful translation of GWAS to function.     

An Analytical Framework of Social Learning Facilitated by Participatory Methods

Social learning among different stakeholders is often a goal in problem solving contexts such as environmental management. Participatory methods (e.g., group model-building and role playing games) are frequently assumed to stimulate social learning. Yet understanding if and why this assumption is justified is quite limited. Difficulties arise from the complexity and context-dependence of processes influencing social learning. Furthermore, continuing discussion of the exact meaning and theoretical basis of social learning result in a limited capacity to assess and evaluate whether social learning has occurred. In this paper we introduce an analytical framework to develop an in depth understanding of essential processes underlying social learning facilitated by participatory methods. Concepts from different fields of science are discussed and integrated, including resource management, small group research and learning research. The individual and group perspectives are brought together via mental models and emergent roles. We added the direction of learning, being either convergent or divergent, to be able to explore if and when personal views on a problem converge into a shared understanding of a problem. The analysis of convergence and divergence of learning is facilitated through the use of the mental model concept. Methods for measurement of proposed indicators for social learning are also discussed. The framework developed provides a conceptual basis for the analysis of social learning facilitated by participatory methods and an operationalization for application in empirical research.     

Desiccation sensitivity and heat tolerance of Prunus ilicifolia seeds dispersed by American black bears ( Ursus americanus )

Carnivore consumption of fruit is a principle means by which many fleshy-fruited plant species achieve long-distance seed dispersal. We examined carnivore dispersal of hollyleaf cherry ( Prunus ilicifolia ) seeds, specifically assessing the survival, desiccation sensitivity, and germination of seeds found in bear scats. Studies were conducted both in the laboratory and in 2 burn areas in Los Padres National Forest, California. Bear scats containing P. ilicifolia seeds were collected in burned and unburned chaparral. We counted seeds in each scat and noted whether endocarps had tooth punctures or rattled audibly when shaken. For comparative germination trials, we also collected fruits and seeds directly from mature shrubs. In the laboratory, following a cold-moist stratification period, seeds were assessed for germinability. In the field, we compared desiccation rates and germinability of seeds from bear scats and freshly collected seeds. We compared rates of moisture loss and germination for seeds subjected to several different conditions, including 25 °C (room temperature), 30 °C and 65 °C (in the lab), and placement on exposed soil in a burn area (in the field), where midday temperatures were approximately 45 °C but likely much higher by late afternoon. Prunus ilicifolia seeds collected from bear scats were largely undamaged; the vast majority of these seeds germinated. In some cases, germination rate was higher for seeds from scats than for seeds from intact fruits. Several results indicate that desiccation is an important cause of reduced germinability. First, seeds that rattled audibly germinated poorly; and the louder the rattle, the lower the germination percentage. Second, seeds (both fresh and those from bear scats) placed in the field under protective screens had greatly reduced levels of germination (an 84% decline) after only 7 days. Third, seeds dried in the lab, even at relatively moderate temperatures, showed a decline in germination with seed moisture loss. The addition of high temperatures accelerated this decline in germination. We discuss the relevance of heat and desiccation sensitivity of seeds dispersed by bears to successful seed germination in burned and late-seral mesic and xeric chaparral. El consumo de fruta por carnívoros es uno de los principales medios por los que muchas especies de plantas de frutos carnosos logran dispersar sus semillas a través largas distancias. Examinamos la dispersión por carnívoros de las semillas del islay ( Prunus ilicifolia ), un arbusto del chaparral, evaluando concretamente la supervivencia, la sensibilidad a la desecación y la germinación de semillas encontradas en las heces de oso. Estos estudios se llevaron a cabo tanto en el laboratorio como en dos áreas quemadas en Los Padres National Forest, California. Se colectaron heces de oso que contenían semillas de P. ilicifolia en el chaparral quemado y en el no quemado. Contamos las semillas en cada bola fecal y notamos si los endocarpios tenían marcas de dientes y si vibraban audiblemente al agitarse. Para llevar a cabo pruebas comparativas de germinación, también colectamos frutos y semillas directamente de los arbustos maduros. En el laboratorio, después de un período de estratificación fría-húmeda, evaluamos la capacidad de germinación de las semillas. En el campo, comparamos las tasas de desecación y de germinación de semillas de las heces de oso con aquellas de semillas colectadas directamente de los arbustos. Se compararon las tasas de pérdida de humedad y germinación de las semillas sujetas a diversas condiciones, entre ellas 25 °C (temperatura ambiente), 30 °C y 65 °C en el laboratorio, y en el campo sobre suelo expuesto en un área quemada, donde la temperatura al mediodía era ~45 °C pero probablemente mucho más alta por la tarde. En general, las semillas de P. ilicifolia colectadas en las heces de oso no estaban dañadas; la gran mayoría de estas semillas germinaron; en algunos casos la tasa de germinación fue más alta que la de frutos intactos. Varios resultados indicaron que la desecación es una causa importante de la reducción en la capacidad de germinación. Primero, las semillas que vibraban audiblemente germinaron poco, y cuanto más fuerte el sonido, menor la germinación. Segundo, las semillas (tanto las frescas como las colectadas de heces de oso) colocadas en el campo bajo una malla protectora exhibieron niveles de germinación muy reducidos (una disminución del 84%) después de sólo siete días. Tercero, la germinación de las semillas desecadas en el laboratorio, incluso a temperaturas relativamente moderadas, disminuyó con la pérdida de humedad de las semillas. Temperaturas más altas aceleraron esta disminución en la germinación. Discutimos la importancia de la sensibilidad al calor y a la desecación en las semillas dispersadas por los osos para la germinación exitosa en el chaparral mésico y árido, tanto en el chaparral recién quemado como en el que está en las etapas finales de sucesión.     

Modelling conservation in the Amazon basin

Expansion of the cattle and soy industries in the Amazon basin has increased deforestation rates and will soon push all-weather highways into the region's core. In the face of this growing pressure, a comprehensive conservation strategy for the Amazon basin should protect its watersheds, the full range of species and ecosystem diversity, and the stability of regional climates. Here we report that protected areas in the Amazon basin--the central feature of prevailing conservation approaches--are an important but insufficient component of this strategy, based on policy-sensitive simulations of future deforestation. By 2050, current trends in agricultural expansion will eliminate a total of 40% of Amazon forests, including at least two-thirds of the forest cover of six major watersheds and 12 ecoregions, releasing 32 +/- 8 Pg of carbon to the atmosphere. One-quarter of the 382 mammalian species examined will lose more than 40% of the forest within their Amazon ranges. Although an expanded and enforced network of protected areas could avoid as much as one-third of this projected forest loss, conservation on private lands is also essential. Expanding market pressures for sound land management and prevention of forest clearing on lands unsuitable for agriculture are critical ingredients of a strategy for comprehensive conservation.     

Symbiosis insights through metagenomic analysis of a microbial consortium

Symbioses between bacteria and eukaryotes are ubiquitous, yet our understanding of the interactions driving these associations is hampered by our inability to cultivate most host-associated microbes. Here we use a metagenomic approach to describe four co-occurring symbionts from the marine oligochaete Olavius algarvensis, a worm lacking a mouth, gut and nephridia. Shotgun sequencing and metabolic pathway reconstruction revealed that the symbionts are sulphur-oxidizing and sulphate-reducing bacteria, all of which are capable of carbon fixation, thus providing the host with multiple sources of nutrition. Molecular evidence for the uptake and recycling of worm waste products by the symbionts suggests how the worm could eliminate its excretory system, an adaptation unique among annelid worms. We propose a model that describes how the versatile metabolism within this symbiotic consortium provides the host with an optimal energy supply as it shuttles between the upper oxic and lower anoxic coastal sediments that it inhabits.