A framework for the standardisation of tropical tuna purse seine CPUE: application to the yellowfin tuna in the Indian Ocean

We revised the existing framework for tuna CPUE standardisation in light of the increasing literature that advocates the use of mixed effects models to account for the characteristics of logbook data. We apply the framework on yellowfin tuna (YFT) from the Indian Ocean, caught by the purse seine EU fleet (Spain and France) from 1984 to 2015. We used a comprehensive list of candidate covariates, including non- conventional covariates, and run exploratory models to assess the contribution of each covariate. Due to the large number of covariates, the lasso – least absolute shrinkage and selection operator- method was applied for data mining and model selection purposes. The results are two standardised YFT CPUE time series for the period 1984-2015, one for large fish caught in free-school related sets, and one for mainly juveniles caught in floating object related sets. Issues on the usefulness of highly aggregated data (low resolution: annual and fleet wide) is discussed along with the need for more detailed information on the use of dFADs, preferably at the level of a fishing trip.Preprin

On the triplet structure of binary liquids

An approach to calculate the triplet structure of a simple liquid, that was proposed some years ago by Barrat, Hansen, and Pastore ͓Phys. Rev. Lett. 58, 2075 ͑1987͔͒ has been tested in the binary case. This approach is based on a factorization ansatz for the triplet direct correlation function c (3) ; the unknown factor function is determined via the sum rule relating c (3) and the pair direct correlation function which is the only input information of the system that is required in this formalism. We present an efficient and stable numerical algorithm which solves the six ͑partly coupled͒ integral equations for the unknown factor functions. Results are given for the case of a binary hard-sphere mixture and complemented by computer simulation data

On the triplet structure of binary liquids

An approach to calculate the triplet structure of a simple liquid, that was proposed some years ago by Barrat, Hansen, and Pastore ͓Phys. Rev. Lett. 58, 2075 ͑1987͔͒ has been tested in the binary case. This approach is based on a factorization ansatz for the triplet direct correlation function c (3) ; the unknown factor function is determined via the sum rule relating c (3) and the pair direct correlation function which is the only input information of the system that is required in this formalism. We present an efficient and stable numerical algorithm which solves the six ͑partly coupled͒ integral equations for the unknown factor functions. Results are given for the case of a binary hard-sphere mixture and complemented by computer simulation data

CentrosomeDB: a human centrosomal proteins database

Active research on the biology of the centrosome during the past decades has allowed the identification and characterization of many centrosomal proteins. Unfortunately, the accumulated data is still dispersed among heterogeneous sources of information. Here we present centrosome:db, which intends to compile and integrate relevant information related to the human centrosome. We have compiled a set of 383 likely human centrosomal genes and recorded the associated supporting evidences. Centrosome:db offers several perspectives to study the human centrosome including evolution, function and structure. The database contains information on the orthology relationships with other species, including fungi, nematodes, arthropods, urochordates and vertebrates. Predictions of the domain organization of centrosome:db proteins are graphically represented at different sections of the database, including sets of alternative protein isoforms, interacting proteins, groups of orthologs and the homologs identified with blast. Centrosome:db also contains information related to function, gene–disease associations, SNPs and the 3D structure of proteins. Apart from important differences in the coverage of the set of centrosomal genes, our database differentiates from other similar initiatives in the way information is treated and analyzed. Centrosome:db is publicly available at http://centrosome.dacya.ucm.es

Migrations and habitat use of the smooth hammerhead shark (Sphyrna zygaena) in the Atlantic Ocean

The smooth hammerhead shark, Sphyrna zygaena, is a cosmopolitan semipelagic shark captured as bycatch in pelagic oceanic fisheries, especially pelagic longlines targeting swordfish and/or tunas. From 2012 to 2016, eight smooth hammerheads were tagged with Pop-up Satellite Archival Tags in the inter-tropical region of the Northeast Atlantic Ocean, with successful transmissions received from seven tags (total of 319 tracking days). Results confirmed the smooth hammerhead is a highly mobile species, as the longest migration ever documented for this species (> 6600 km) was recorded. An absence of a diel vertical movement behavior was noted, with the sharks spending most of their time at surface waters (0-50 m) above 23 degrees C. The operating depth of the pelagic long-line gear was measured with Minilog Temperature and Depth Recorders, and the overlap with the species vertical distribution was calculated. The overlap is taking place mainly during the night and is higher for juveniles (similar to 40% of overlap time). The novel information presented can now be used to contribute to the provision of sustainable management tools and serve as input for Ecological Risk Assessments for smooth hammerheads caught in Atlantic pelagic longline fisheries.Oceanario de Lisboa through Project "SHARK-TAG: Migrations and habitat use of the smooth hammerhead shark in the Atlantic Ocean"; Investigador-FCT from the Portuguese Foundation for Science and Technology (FCT, Fundacao para a Ciencia e Tecnologia) [Ref: IF/00253/2014]; EU European Social Fund; Programa Operacional Potencial Human