Transcriptome analysis of the acoelomate human parasite Schistosoma mansoni

Schistosoma mansoni is the primary causative agent of schistosomiasis, which affects 200 million individuals in 74 countries. We generated 163,000 expressed-sequence tags (ESTs) from normalized cDNA libraries from six selected developmental stages of the parasite, resulting in 31,000 assembled sequences and 92% sampling of an estimated 14,000 gene complement. By analyzing automated Gene Ontology assignments, we provide a detailed view of important S. mansoni biological systems, including characterization of metazoa-specific and eukarya-conserved genes. Phylogenetic analysis suggests an early divergence from other metazoa. The data set provides insights into the molecular mechanisms of tissue organization, development, signaling, sexual dimorphism, host interactions and immune evasion and identifies novel proteins to be investigated as vaccine candidates and potential drug targets.     

The biological impact of mass-spectrometry-based proteomics

In the past decade, there have been remarkable advances in proteomic technologies. Mass spectrometry has emerged as the preferred method for in-depth characterization of the protein components of biological systems. Using mass spectrometry, key insights into the composition, regulation and function of molecular complexes and pathways have been gained. From these studies, it is clear that mass-spectrometry-based proteomics is now a powerful 'hypothesis-generating engine' that, when combined with complementary molecular, cellular and pharmacological techniques, provides a framework for translating large data sets into an understanding of complex biological processes.     

RNA cytosine methyltransferase Nsun3 regulates embryonic stem cell differentiation by promoting mitochondrial activity

Chemical modifications of RNA have been attracting increasing interest because of their impact on RNA fate and function. Therefore, the characterization of enzymes catalyzing such modifications is of great importance. The RNA cytosine methyltransferase NSUN3 was recently shown to generate 5-methylcytosine in the anticodon loop of mitochondrial tRNA^Met. Further oxidation of this position is required for normal mitochondrial translation and function in human somatic cells. Because embryonic stem cells (ESCs) are less dependent on oxidative phosphorylation than somatic cells, we examined the effects of catalytic inactivation of Nsun3 on self-renewal and differentiation potential of murine ESCs. We demonstrate that Nsun3-mutant cells show strongly reduced mt-tRNA^Met methylation and formylation as well as reduced mitochondrial translation and respiration. Despite the lower dependence of ESCs on mitochondrial activity, proliferation of mutant cells was reduced, while pluripotency marker gene expression was not affected. By contrast, ESC differentiation was skewed towards the meso- and endoderm lineages at the expense of neuroectoderm. Wnt3 was overexpressed in early differentiating mutant embryoid bodies and in ESCs, suggesting that impaired mitochondrial function disturbs normal differentiation programs by interfering with cellular signalling pathways. Interestingly, basal levels of reactive oxygen species (ROS) were not altered in ESCs, but Nsun3 inactivation attenuated induction of mitochondrial ROS upon stress, which may affect gene expression programs upon differentiation. Our findings not only characterize Nsun3 as an important regulator of stem cell fate but also provide a model system to study the still incompletely understood interplay of mitochondrial function with stem cell pluripotency and differentiation.     

Reproductive biology of the endangered wattled curassow (Crax globulosa; Galliformes: Cracidae) in the Juruá River Basin,Western Brazilian Amazonia

The reproductive biology of Crax globulosa is virtually unknown, this knowledge comprised of only a few anecdotal notes. We found nine nests of Crax globulosa in the middle section of the Juruá River, western Brazilian Amazon, during the dry season. Nests averaged 22.5 m from water and 13.3 m above the ground. We observed two nest types: five made of twigs, leaves and vines, and four within a bromeliad. All nests contained two eggs, but six (67%) were subsequently predated. A female tagged with a transmitter nested twice during the same breeding season. A chick was monitored together with its parents for > 10 months. In addition to hunting and habitat loss, nest predation could be another threat to this endangered species.     

Revision of the carpenter bee subgenus Xylocopa (Dasyxylocopa) (Hymenoptera: Apidae)

The subgenus Xylocopa (Dasyxylocopa) Hurd and Moure is revised, with recognition of three valid species, one of them newly described from the highlands of eastern Brazil. In addition to X. fortuita sp. nov. and the type species X. bimaculata Friese, the subgenus includes X. piligera Maidl n. stat., having X. leucopus Friese as its junior synonym, both names here removed from synonymy under X. bimaculata and for which lectotypes are presently designated. Notes are provided on the nesting habits of X. piligera.

http:/zoobank.org/lsid:zoobank.org:pub:339CE18B-37F2-47F5-881D-A8C9C22E42F5     

Quantile Double AR Time Series Models for Financial Returns

We develop a novel quantile double autoregressive model for modelling financial time series. This is done by specifying a generalized lambda distribution to the quantile function of the location‐scale double autoregressive model developed by Ling (2004, 2007). Parameter estimation uses Markov chain Monte Carlo Bayesian methods. A simulation technique is introduced for forecasting the conditional distribution of financial returns m periods ahead, and hence any for predictive quantities of interest. The application to forecasting value‐at‐risk at different time horizons and coverage probabilities for Dow Jones Industrial Average shows that our method works very well in practice. Copyright © 2013 John Wiley & Sons, Ltd.     

New models of collaboration in genome-wide association studies: the Genetic Association Information Network

The Genetic Association Information Network (GAIN) is a public-private partnership established to investigate the genetic basis of common diseases through a series of collaborative genome-wide association studies. GAIN has used new approaches for project selection, data deposition and distribution, collaborative analysis, publication and protection from premature intellectual property claims. These demonstrate a new commitment to shared scientific knowledge that should facilitate rapid advances in understanding the genetics of complex diseases.     

Sharply increased mass loss from glaciers and ice caps in the Canadian Arctic Archipelago

Mountain glaciers and ice caps are contributing significantly to present rates of sea level rise and will continue to do so over the next century and beyond. The Canadian Arctic Archipelago, located off the northwestern shore of Greenland, contains one-third of the global volume of land ice outside the ice sheets, but its contribution to sea-level change remains largely unknown. Here we show that the Canadian Arctic Archipelago has recently lost 61?±?7?gigatonnes per year (Gt?yr(-1)) of ice, contributing 0.17?±?0.02 mm?yr(-1) to sea-level rise. Our estimates are of regional mass changes for the ice caps and glaciers of the Canadian Arctic Archipelago referring to the years 2004 to 2009 and are based on three independent approaches: surface mass-budget modelling plus an estimate of ice discharge (SMB+D), repeat satellite laser altimetry (ICESat) and repeat satellite gravimetry (GRACE). All three approaches show consistent and large mass-loss estimates. Between the periods 2004-2006 and 2007-2009, the rate of mass loss sharply increased from 31?±?8?Gt?yr(-1) to 92?±?12?Gt?yr(-1) in direct response to warmer summer temperatures, to which rates of ice loss are highly sensitive (64?±?14?Gt?yr(-1) per 1?K increase). The duration of the study is too short to establish a long-term trend, but for 2007-2009, the increase in the rate of mass loss makes the Canadian Arctic Archipelago the single largest contributor to eustatic sea-level rise outside Greenland and Antarctica.     

Compositional asynchronous membrane systems

This paper presents an algorithmic way of building complex membrane systems by coupling elementary membranes. Its application seems particularly valuable in the case of asynchronous membrane systems, since the resulting membrane system remains asynchronous. The composition method is based on a handshake mechanism implemented by using antiport rules and promoters.