Vector bundles trivialized by proper morphisms and the fundamental group scheme

Let X be a smooth projective variety defined over an algebraically closed field k. Nori constructed a category of vector bundles on X, called essentially finite vector bundles, which is reminiscent of the category of representations of the fundamental group (in characteristic zero). In fact, this category is equivalent to the category of representations of a pro--finite group scheme which controls all finite torsors. We show that essentially finite vector bundles coincide with those which become trivial after being pulled back by some proper and surjective morphism to X.Comment: Final versio

Lifting DD-modules from positive to zero characteristic

We study liftings or deformations of D-modules (D is the ring of differential operators from EGA IV) from positive characteristic to characteristic zero using ideas of Matzat and Berthelot’s theory of arithmetic D-modules. We pay special attention to the growth of the differential Galois group of the liftings. We also apply formal deformation theory (following Schlessinger and Mazur) to analyze the space of all liftings of a given D-module in positive characteristic. At the end we compare the problems of deforming a D-module with the problem of deforming a representation of a naturally associated group scheme

Macroecology of parental care in arthropods: higher mortality risk leads to higher benefits of offspring protection in tropical climates

The intensity of biotic interactions varies around the world, in such a way that mortality risk imposed by natural enemies is usually higher in the tropics. A major role of offspring attendance is protection against natural enemies, so the benefits of this behaviour should be higher in tropical regions. We tested this macroecological prediction with a meta-regression of field experiments in which the mortality of guarded and unguarded broods was compared in arthropods. Mortality of unguarded broods was higher, and parental care was more beneficial, in warmer, less seasonal environments. Moreover, in these same environments, additional lines of defence further reduced offspring mortality, implying that offspring attendance alone is not enough to deter natural enemies in tropical regions. These results help to explain the high frequency of parental care among tropical species and how biotic interactions influence the occurrence of parental care over large geographic scales. Finally, our findings reveal that additional lines of defences – an oftentimes neglected component of parental care – have an important effect on the covariation between the benefits of parental care and the climate-mediated mortality risk imposed by natural enemies

An integrated omic approach towards the metabolic engineering of myrcene pathway of pseudomonas sp. M1

Best Poster AwardPseudomonas sp. M1 is able to utilize a large variety of toxic and/or recalcitrant compounds as sole carbon and energy sources, including phenols, benzene and monoterpenes like myrcene [1-3]. Therefore, M1 strain holds great potential as a source of novel biomolecules and cell factories for various biotechnological applications namely in biocatalysis, biosensors, bioremediation and biomedicine. However, the full exploitation of its enzymatic repertoire requires detailed and integrated information about the biomolecular catalog of M1 strain, including genes, proteins and metabolites. In this context, the genome of Pseudomonas sp. M1 was sequenced by NGS technologies, using Illumina GA IIx and Roche 454 FLX. The resulting raw data was assembled and annotated using different pipelines. The current genome draft of Pseudomonas sp. M1 has an estimated GC content of 67%, a size of about 7.1 Mbps and includes 6276 CDS. Importantly, in silico genome analysis predicted a number of metabolic pathways involved in utilization/biotransformation of several unusual carbons sources (e.g. biphenyls, halophenols and different monoterpenes). Proteomic and transcriptomic approaches have been setup envisaging the elucidation of the myrcene stimulon. In 2009, a set of myrcene-dependent proteins has been described using subproteome analysis of the cytoplasmic fraction [3]. In this work, a RNA-seq transcriptome analysis led to the identification of a 28kb genomic island of key importance in the catabolism of myrcene. This island includes genes involved in: i) myrcene oxidation and bioconversion of myrcene derivatives via a beta-oxidation like pathway; ii) regulation of myrcene pathway; iii) myrcene sensing. In addition several other gene clusters spread in the genome of Pseudomonas sp. M1 have been found to be myrcene-dependently expressed and are under investigation. Integration of genomic, transcriptomic, proteomic and metabolic data will deliver a very solid and detailed description of the myrcene catabolism (and other monoterpenes), and on the associated molecular mechanisms of adaptation, providing the adequate support for the application of M1 as a biocatalyst in whole-cell biotransformations of plantderived volatiles.Fundação para a Ciência e a Tecnologia (FCT

Towards the metabolic engineering of myrcene pathway of pseudomonas sp. M1 using an integrated omic approach

Pseudomonas sp. M1, isolated from the Rhine River, is able to utilize a large variety of toxic and/or recalcitrant compounds as sole carbon and energy sources, including phenols, benzene and monoterpenes like myrcene [1-3]. Therefore, M1 strain holds great potential as a source of novel biomolecules and cell factories for various biotechnological applications namely in biocatalysis, biosensors, bioremediation and biomedicine. However, the full exploitation of its enzymatic repertoire requires detailed and integrated information about the biomolecular catalog of M1 strain, including genes, proteins and metabolites. In this context, the genome of Pseudomonas sp. M1 was sequenced by NGS technologies, using Illumina Genome Analyser IIx and Roche 454 FLX. The resulting raw data was assembled into 41 contigs and annotated using different pipelines. The current genome draft of Pseudomonas sp. M1 has an estimated GC content of 67%, a size of about 6.9 Mbps and includes 6214 CDS. Importantly, in silico genome analysis predicted a number of metabolic pathways involved in utilization/biotransformation of several unusual carbons sources (e.g. biphenyls, halophenols and different monoterpenes). Proteomic and transcriptomic approaches have been setup envisaging the elucidation of the myrcene stimulon. In 2009, a set of myrcene-dependent proteins has been described using subproteome analysis of the cytoplasmic fraction [3]. More recently, a RNA-seq transcriptome analysis led to the identification of a 28kb genomic island of key importance in the catabolism of myrcene. This island includes genes involved in: i) myrcene oxidation and bioconversion of myrcene derivatives via a beta-oxidation like pathway; ii) regulation of myrcene pathway; iii) myrcene sensing. In addition several other gene clusters spread in the genome of Pseudomonas sp. M1 have been found to be myrcene-dependently expressed and are currently being characterized. Integration of genomic, transcriptomic, proteomic and metabolic data (which is currently being setup) will deliver a very solid and detailed description of the myrcene catabolism (and other monoterpenes), and on the associated molecular mechanisms of adaptation, providing the adequate support for the application of M1 as a biocatalyst in whole-cell biotransformations of plant-derived volatiles.Fundação para a Ciência e a Tecnologia (FCT

An integrated approach for assessing flood risk in historic city centres

Historic city centres near watercourses are a specific type of urban area that are particularly vulnerable to flooding. In this study, we present a new methodology of flood risk assessment that crosses hazard and physical vulnerability information. We have selected the Historic City Centre of Guimarães (Portugal), a UNESCO Heritage Site, for developing and testing the defined methodology. The flood hazard scenario was obtained through the hydrologic–hydraulic modelling of peak flows with a 100-year return period, which provided flood extent, depths, and velocities. A decomposition of the momentum equation, using depth and velocity, allowed reaching a final hazard score. Flood vulnerability was assessed through combining an exposure component and a sensitivity component, from field-collected data regarding wall orientation, heritage status, age, number of storeys, condition, and material of buildings. By combining the results of the hazard and vulnerability modules in a risk-matrix, three qualitative levels of flood risk were defined. The individual and crossed analysis of results proved to be complementary. On one hand, it allows the identification of the more relevant risk factors—from the hazard or vulnerability modules. On the other hand, the risk-matrix identified other buildings with a high risk that otherwise would remain unnoticed to risk managers.Tiago M. Ferreira is funded by the Portuguese Foundation for Science and Technology (FCT) through the postdoctoral grant SFRH/BPD/122598/2016 and Pedro P. Santos is funded through the project with the reference CEEIND/00268/2017

Effects of different slipping methods on the mortality of sardine, Sardina pilchardus, after purse-seine capture off the Portuguese Southern coast (Algarve)

The effects of two different slipping methods on the survival, physical and physiological response of sardines, Sardina pilchardus, captured in a purse-seine fishery were investigated in southern Portugal. Sardines were collected and transferred into holding tanks onboard a commercial fishing vessel after being captured, crowded and deliberately released using two slipping procedures: standard and modified. The standard slipping procedure aggregated fish at high densities and made them "roll over" the floatline, while the modified procedure aggregated the fish at moderate densities and enabled them to escape through an opening created by adding weights to the floatline. Both slipping methods were compared with minimally harmed non-slipped sardines (sardines collected from the loose pocket of the purse seine). Survival rates were monitored in captivity over 28 days using three replicates for each treatment. The estimated survival of sardines was 43.6% for the non-slipped fish, 44.7% for the modified slipping and 11.7% for the standard slipping treatments. Scale loss indicated the level of physical impact experienced, with dead fish from the non-slipped and modified slipping technique showing significantly lower scale loss than those fish from the standard slipping treatment within the same period. Of the physiological indicators of stress measured, cortisol, glucose, lactate and osmolality attained peak values during slipping and up to the first hours after introduction to captivity. This work indicates that although delayed mortality after release may be substantial, appropriately modified slipping techniques significantly enhance survival of slipped sardines.FCT [SFRH/BPD/116307/2016]; European Commission's Horizon 2020 Research and Innovation Programme [634495