A haplotype-resolved draft genome of the European sardine (Sardina pilchardus)

The European sardine (Sardina pilchardus Walbaum, 1792) is culturally and economically important throughout its distribution. Monitoring studies of sardine populations report an alarming decrease in stocks due to overfishing and environmental change, which has resulted in historically low captures along the Iberian Atlantic coast. Important biological and ecological features such as population diversity, structure, and migratory patterns can be addressed with the development and use of genomics resources.Agência financiadora Portuguese national funds from FCT-Foundation for Science and Technology: UID/Multi/04326/2016; European Regional Development Fund (FEDER): 22153-01/SAICT/2016; ALG-01-0145-FEDER-022121; ALG-01-0145-FEDER-022231; MAR2020 operational programme of the European Maritime and Fisheries Fund (project SARDI-NOMICS): MAR-01.04.02-FEAMP-0024; European Union's Horizon 2020 research and innovation programme: 654008info:eu-repo/semantics/publishedVersio

Knowledge Transfer in the Mirror: Reflections on the Determinants of Research Groups and Companies Collaborative Patterns within Andalusia's Regional Innovation System

Knowledge transfer is a crucial aspect for the new paradigm of science-industry cooperation. The new role of universities and the relevance of external knowledge to firm's competitiveness brought a huge attention to this process both in analytical and decision-making terms. Commonly, formal mechanisms as intellectual property rights licensing, research contracts and spinning-off are the focus of the policy interventions and studies but the role of informality is being underlined by several recent research results. This article explores the crucial factors that induce science and industry collaborations in Andalusia, a catching-up region in Spanish and European context. The study uses limited dependent and count data regression analysis based in a survey applied in parallel to research groups and firms. The estimated regressions create a mirror image between these two institutional spheres stressing aspects that are more relevant in each reality to stimulate the existence, number, diversity and informality of knowledge transfer. The results give relevant insights for policies to stimulate knowledge transfer in technology moderate intensive South European regions.

Global patterns in students’ views of science and interest in science

This is the author accepted manuscript. The final version is available from the publisher via the DOI in this record.International studies have shown that interest in science and technology among primary and secondary school students in Western European countries is low and seems to be decreasing. In many countries outside Europe, and especially in developing countries, interest in science and technology remains strong. As part of the large-scale European Union funded ‘Science Education for Diversity’ project, a questionnaire probing potential reasons for this difference was completed by students in the UK, Netherlands, Turkey, Lebanon, India and Malaysia. This questionnaire sought information about favourite courses, extracurricular activities and views on the nature of science. Over 9,000 students aged mainly between 10 and 14 years completed the questionnaire. Results revealed that students in countries outside Western Europe showed a greater interest in school science, in careers related to science and in extracurricular activities related to science than didWestern European students. Non-European studentswere also more likely to hold an empiricist viewof the nature of science and to believe that science can solve many problems faced by the world. Multilevel analysis revealed a strong correlation between interest in science and having such a view of the Nature of Science.This publication received funding from the European Union Science in Society Framework 7 Programme (FP7/2007/2013) under grant agreement 244717. We would like to thank the following people for collecting data and contributing to this research project: Roel Janssen, Huseyin Bag, Lindsay Hetherington, Alun Morgan, Keith Postlethwaite, Rupert Wegerif, Ng Swee Chin, Choy Siew Chee, Oo Pou San, Chin Fui Chung, Teh Lee Wah, Sugra Chunawala, Chitra Natarajan and Beena Chok

Experimental data from flesh quality assessment and shelf life monitoring of high pressure processed European sea bass (Dicentrarchus labrax) fillets

Fresh fish are highly perishable food products and their short shelf-life limits their commercial exploitation and leads to waste, which has a negative impact on aquaculture sustainability. New non-thermal food processing methods, such as high pressure (HP) processing, prolong shelf-life while assuring high food quality. The effect of HP processing (600MPa, 25 °C, 5min) on European sea bass (Dicentrarchus labrax) fillet quality and shelf life was investigated. The data presented comprises microbiome and proteome profiles of control and HP-processed sea bass fillets from 1 to 67 days of isothermal storage at 2 °C. Bacterial diversity was analysed by Illumina high-throughput sequencing of the 16S rRNA gene in pooled DNAs from control or HP-processed fillets after 1, 11 or 67 days and the raw reads were deposited in the NCBI-SRA database with accession number PRJNA517618. Yeast and fungi diversity were analysed by high-throughput sequencing of the internal transcribed spacer (ITS) region for control and HP-processed fillets at the end of storage (11 or 67 days, respectively) and have the SRA accession number PRJNA517779. Quantitative label-free proteomics profiles were analysed by SWATH-MS (Sequential Windowed data independent Acquisition of the Total High-resolution-Mass Spectra) in myofibrillar or sarcoplasmic enriched protein extracts pooled for control or HP-processed fillets after 1, 11 and 67 days of storage. Proteome data was deposited in the ProteomeXchange Consortium via the PRIDE partner repository with the dataset identifiers PXD012737. These data support the findings reported in the associated manuscript "High pressure processing of European sea bass (Dicentrarchus labrax) fillets and tools for flesh quality and shelf life monitoring", Tsironi et al., 2019, JFE 262:83-91, doi.org/10.1016/j.jfoodeng.2019.05.010.FCT (Foundation of Science and Technology) COFASP/0002/2015; Portuguese Foundation for Science and Technology UID/Multi/04326/2019 POCI-01-0145-FEDER007440 UID/NEU/04539/2019info:eu-repo/semantics/publishedVersio

Diverse and productive source of biopolymer inspiration: marine collagens

Marine biodiversity is expressed through the huge variety of vertebrate and invertebrate species inhabiting intertidal to deep-sea environments. The extraordinary variety of â forms and functionsâ  exhibited by marine animals suggests they are a promising source of bioactive molecules and provides potential inspiration for different biomimetic approaches. This diversity is familiar to biologists and has led to intensive investigation of metabolites, polysaccharides, and other compounds. However, marine collagens are less well-known. This review will provide detailed insight into the diversity of collagens present in marine species in terms of their genetics, structure, properties, and physiology. In the last part of the review the focus will be on the most common marine collagen sources and on the latest advances in the development of innovative materials exploiting, or inspired by, marine collagens.The authors are grateful for the financial support from European Union, under the scope of European Regional Development Fund((ERDF) through the POCTEP project 0687_NOVOMAR_1_P and Structured Project NORTE-01- 0145-FEDER-000021 and from the Portuguese Foundation for Science and Technology (FCT), under the scope of the BiogenInk project (M-ERA-NET2/0022/2016) and from the European Cooperation in Science & Technology program (EU COST). Grant title: “Stem cells of marine/aquatic inverte brates: from basic research to innovative applications” (MARISTEM). MSR acknowledges FCT for the Ph.D. scholarship (PD/BD/143091/2018)

Genetic diversity increases with depth in red gorgonian populations of the Mediterranean Sea and the Atlantic Ocean

In the ocean, the variability of environmental conditions found along depth gradients exposes populations to contrasting levels of perturbation, which can be reflected in the overall patterns of species genetic diversity. At shallow sites, resource availability may structure large, persistent and well-connected populations with higher levels of diversity. In contrast, the more extreme conditions, such as thermal stress during heat waves, can lead to population bottlenecks and genetic erosion, inverting the natural expectation. Here we examine how genetic diversity varies along depth for a long-lived, important ecosystem-structuring species, the red gorgonian, Paramuricea clavata.Agência financiadora CESAM UID/AMB/50017/2019 Portuguese Foundation for Science and Technology FEDER, within the PT2020 Partnership Agreement FEDER, within the Compete 2020 Pew Marine Fellowship (USA) National Geographic Channel through project Deep Reefs, a National Geographic/Waitt grant W153-11 InAqua Conservation Fund (Oceanario de Lisboa) European Regional Development Fund (COMPETE program) Portuguese Foundation for Science and Technology SFRH/BPD/111003/2015 CCMAR/Multi/04326/2013 UID/MAR/04292/2013 PTDC/BIA-BIC/114526/2009 MARES Grant Joint Doctorate programme under Erasmus Mundus by Ghent University FPA 2011-0016info:eu-repo/semantics/publishedVersio

Knowledge and the diversity of innovation systems: a comparative analysis of European regions

The main goal of this paper is to shed some light on European regional diversity in terms of knowledge accumulation and socio-economic performances. Dynamic links between knowledge, innovation and performance are complex to address because they take place in different contexts, involving heterogeneous agents interacting through different institutions. Studies on national systems of innovation (Edquist, 1997) stressed the role of the institutional context in these dynamics and identify various configurations associated with these national systems. This conceptual framework, used at the regional level, leads to the identification of regional systems of innovation (Cooke, 2001) and thus underlines the limits of a regional scoreboard only based on high-tech indicators as it is usually proposed. This paper constitutes a first attempt to propose a more exhaustive effort in characterizing the diversity of "regional knowledge an innovation systems" within Europe. The study is performed through data analysis using the conceptual framework of "social systems of innovation and production" (SSIP) proposed by Amable, Barré and Boyer (1997). A Social System of Innovation and Production can be defined as a coherent combination of different components referring to Science-technology-industry (STI) configurations articulated with financial system, labour relations, education and training and economic performances. This framework can be adapted at the regional level by identifying specific arrangements of each part of the system even if the concept of system is questionable at this level. The analysis is performed combining data from three sources (Eurostat, the Cambridge Econometrics database and OST (Observatoire des Sciences et des Techniques)) over a sample of NUTS-II european regions and using multivariate data analysis (principal component analysis, hierarchical anova). Putting together the SSIP and local economic performances allows defining different regional configurations in order to identify regional trajectories and patterns of articulation between knowledge dynamics and performance. Our hypothesis is that regional growth in not a problem of best practice but of coherent knowledge combination: institutional differences may lead similar (or different) STI structures to different (respectively same) performances.NARegional Innovation systems, Knowledge economy, Institutional diversity, European regions, Regional economic performances

DNA barcode reference library for the West Sahara-Sahel reptiles

DNA barcode reference libraries are now continuously produced for the tree of life, which are essential pillars for the study of biological diversity. Yet, our knowledge about global diversity is largely limited in undersampled regions such as the largest warm desert, the Sahara-Sahel. This dataset provides a DNA barcode reference library for the reptiles of the Western Sahara-Sahel (WSS) and neighbouring countries across this region. It includes 760 barcodes from 133 reptile taxa, distributed in 23 families, and covering the intraspecific diversity of some species. A total of 84 species were collected in the WSS (83% of the total reptile species richness) over 18 overland field expeditions conducted since 2003. DNA barcodes resulted in a high success rate (95%) of species identification and barcoding gap analysis highlighted the effectiveness of the COI fragment as a barcode marker for the WSS reptiles. This dataset represents a comprehensive and reliable DNA reference library for the WSS, filling an important biodiversity gap across a remote and hard-to-sample region.National Geographic Society CRE-7629-04 CRE-8412-08 GEFNE-53-12Mohammed bin Zayed Species Conservation Fund 11052709 11052707 13257467Rufford Foundation SG-15399-1 SG-17893-1Portuguese Foundation for Science and Technology European Commission FCT: PTDC/BIA-BEC/099934/2008 PTDC/BIA-BIC/2903/2012FEDER through COMPETE-Operational Programme for Competitiveness Factors FCOMP-01-0124-FEDER-008917 FCOMP-01-0124-FEDER-028276Norte Portugal Regional Operational Programme (NORTE2020), under the PORTUGAL 2020 Partnership Agreement, through the European Regional Development Fund (ERDF) AGRIGEN-NORTE-01-0145-FEDER-000007Portuguese Foundation for Science and Technology European Commission UIDB/50027/2020 CEECINST/00014/2018/CP1512/CT0001 DL57/2016/CP1440/CT0010 CEECIND/00937/2018 IF/01425/2014 SFRH/BD/140348/2018Spanish GovernmentEuropean Commission RYC-2019-026959-I/AEI/10.13039/50110001103

Pine Pitch Canker and Insects: Relationships and Implications for Disease Spread in Europe

Producción CientíficaThe fungal pathogen Fusarium circinatum (Nirenberg and O’ Donnell) is the causal agent of pine pitch canker (PPC) disease, which seriously affects conifer species in forests and nurseries worldwide. In Europe, PPC is only established in the Iberian Peninsula; however, it is presumed that its range could expand through the continent in the near future. Infection caused by this fungus requires open wounds on the tree, including physical damage caused by insects. Therefore, a relationship probably occurs between PPC and a wide variety of insects. The aim of this review is to outline the taxonomic and ecological diversity of insect species with high potential association with F. circinatum in Europe and elsewhere. The insects were classified as vectors, carriers and wounding agents according to the association level with the PPC disease. In addition, we discuss the insect-mediated spreading of PPC disease in relation to the different phases of forest stand development, from seeds and seedlings in nurseries to mature stands. Lastly, to improve our predictive capacities and to design appropriate intervention measures and strategies for controlling disease dissemination by insects, variables such as geographic location, time of the year and host species should be considered,European Cooperation in Science and Technology (COST Action FP1406 PINESTRENGTH)Ministerio de Economía, Industria y Competitividad - Fondo Europeo de Desarrollo Regional (project AGL2015-69370-R)Centro de Estudios do Ambiente e do Mar (CESAM) (project UID/AMB/50017/2019)Portuguese Foundation for Science and Technology (projects PTDC/AGR-FOR/2768/2014 , POCI-01-0145-FEDER-016785 , SFRH/BPD/122928/2016)Russian Foundation for Basic Research (grant 17-04-01486)Saint Petersburg State Polytechnical University (project 2019-0420