What’s new in marine botany of the Eastern Mediterranean?

Acknowledgements We would like to acknowledge many years of funding support from the TOTAL Foundation (Paris) within the framework of the project “Brown algal biodiversity and ecology in the Eastern Mediterranean Sea” which has enabled and inspired much of the work covered in this editorial and this special issue. Special thanks go to Laure Fournier (TOTAL Foundation) for her support through inspiring discussions, mentoring and networking.Peer reviewedPublisher PD

Biogeography pattern of the marine angiosperm Cymodocea nodosa in the eastern Mediterranean Sea related to the quaternary climatic changes

Acknowledgments This research has been co-financed by the European Union (European Social Fund – ESF) and Greek national funds through the Operational Program "Education and Lifelong Learning" of the National Strategic Reference Framework (NSRF) - Research Funding Program: THALES. The authors would like to thank M. Malandrakis and A. Lolas for their contribution to sampling.Peer reviewedPublisher PD

Responses of the Mediterranean seagrass Cymodocea nodosa to combined temperature and salinity stress at the ionomic, transcriptomic, ultrastructural and photosynthetic levels

Acknowledgements We are particularly grateful to David E. Salt and John M.C. Danku (University of Aberdeen, now at the University of Nottingham) for providing facilities and guidance for the ionomics work within the framework of this study. This research was funded by the European Commission (European Social Fund – ESF; grant no. 375425) and Greek national funds through the Operational Program “Education and Lifelong Learning” of the National Strategic Reference Framework (NSRF) - Research Funding Program: THALES - Investing in knowledge society through the European Social Funds (Project Acronym: MANTOLES). We would also like to thank the TOTAL Foundation (Project “Diversity of brown algae in the Eastern Mediterranean”), the European Commission under its Horizon 2021 Research and Innovation Programme (grants ZEROBRINE, grant agreement No. 730390, and WATERMINING, grant agreement No. 869474) and the UK Natural Environment Research Council for their Supplort to FCK (program Oceans 2025 – WP 4.5 and grants NE/D521522/1 and NE/J023094/1). The MASTS pooling initiative (Marine Alliance for Science and Technology for Scotland, funded by the Scottish Funding Council and contributing institutions; grant reference HR09011) is gratefully acknowledged.Peer reviewedPostprin

“New Alien Mediterranean Biodiversity Records” (March 2021)

This article includes twenty (20) new records of alien and cryptogenic species in the Mediterranean Sea, belonging to six (6) Phyla (Rhodophyta, Tracheophyta, Mollusca, Arthropoda, Bryozoa, and Chordata) distributed from the Eastern Mediterranean to the Sea of Alboran. The records are reported from nine (9) countries and can be classified into two categories: new records for the Mediterranean Sea and new records of non-indigenous species expanding within the Mediterranean Sea. The first category includes the gastropod Turbo radiatus from Lebanon coasts, the portunid crab Charybdis (Charybdis) natator from Tunis southern lagoon, the mollusc Thuridilla mazda from South Spain, and the nudibranch Okenia picoensis from the Alboran coasts of Spain and from Malta. The second category includes the bivalve Nudiscintilla cf. glabra from the Aegean coast of Turkey, the rhodophyte Colaconema codicola from the North Aegean coasts of Greece, the naked band gaper Champsodon nudivittis from the Sea of Marmara, Turkey. Also, the brachyuran Gonioinfradens giardi from the Greek Ionian waters, the codlet Bregmaceros nectabanus from the Croatian coasts of the Adriatic Sea, and the bryozoan Arbopercula tenella and copepod Parvocalanus crassirostris both from the Gulf of Trieste, Slovenian and Italian coasts, respectively. New records were also reported for the ascidian Distaplia bermudensis from brackish the Gulf of Naples, Italy, the damselfish Abudefduf cf. saxatilis and the seagrass Halophila stipulacea from Sardinia, Tyrrhenian Sea, and for the fish Paranthias furcifer from the harbour of Almeria, Alboran Sea, Spain. Through these records, an understanding of the expanding mechanisms and processes and, if possible, the development of mitigation measures within the region will be further facilitated

Effects of Natural and Anthropogenic Stressors on Fucalean Brown Seaweeds Across Different Spatial Scales in the Mediterranean Sea

Este artículo contiene 14 páginas, 8 figuras, 3 tablas.Algal habitat-forming forests composed of fucalean brown seaweeds (Cystoseira, Ericaria, and Gongolaria) have severely declined along the Mediterranean coasts, endangering the maintenance of essential ecosystem services. Numerous factors determine the loss of these assemblages and operate at different spatial scales, which must be identified to plan conservation and restoration actions. To explore the critical stressors (natural and anthropogenic) that may cause habitat degradation, we investigated (a) the patterns of variability of fucalean forests in percentage cover (abundance) at three spatial scales (location, forest, transect) by visual estimates and or photographic sampling to identify relevant spatial scales of variation, (b) the correlation between semi-quantitative anthropogenic stressors, individually or cumulatively (MA-LUSI index), including natural stressors (confinement, sea urchin grazing), and percentage cover of functional groups (perennial, semi-perennial) at forest spatial scale. The results showed that impacts from mariculture and urbanization seem to be the main stressors affecting habitat-forming species. In particular, while mariculture, urbanization, and cumulative anthropogenic stress negatively correlated with the percentage cover of perennial fucalean species, the same stressors were positively correlated with the percentage cover of the semi-perennial Cystoseira compressa and C. compressa subsp. pustulata. Our results indicate that human impacts can determine spatial patterns in these fragmented and heterogeneous marine habitats, thus stressing the need of carefully considering scale-dependent ecological processes to support conservation and restoration.This study was supported by the European Union’s EASME (Executive Agency for Small and Medium Enterprise) and EMFF (European Maritime and Fisheries fund) as part of the project AFRIMED, “Algal Forest Restoration in the Mediterranean Sea” (under grant agreement no. 789059), http:// afrimed-project.eu/.Peer reviewe

A decision-support framework for the restoration of Cystoseira sensu lato forests

Macroalgal forests characterised by species of the genus Cystoseira sensu lato form important shallow coastal rocky habitats in the Mediterranean Sea. These forests support a high biodiversity and provide important ecosystem services and societal benefits. Currently these habitats are often in a poor condition in many areas, due to loss and degradation from both anthropogenic and climate stressors. Restoration has recently moved to the forefront of the United Nations and European Union agendas to reverse this trend, particularly in the last decade with the implementation of various international policies. However, this has been in the form of generic targets (e.g., restoration of 30% of degraded habitats by 2030) and has not been linked to specifically what habitat or species to restore, where and how. Initial targets have been missed, new targets are expected through the proposed EU Nature Restoration Law, but overall guidance is still lacking. There are few specific guides to marine habitat restoration limited to mostly seagrass, corals and shellfish. As a priority action for the recovery of coastal marine ecosystems a decision-support framework has been developed for the restoration of Mediterranean macroalgal forests, comprising a stepwise decision tree with additional descriptions of key elements to be considered for a restoration action. The decision tree includes steps concerning current and historical forest presence, site local condition assessment and choice of actions. Key considerations include restoration implementation (competence, society and support, finance and governance), success evaluation (at the target species and the ecosystem level) and long-term management. The framework builds on existing work on Cystoseira s.l. restoration, the work carried out in the EU AFRIMED project, but also on principles and guidelines in place for both generic and specific marine habitats. The work reported here has involved the expertise of scientists and information from stakeholders. Gaps were identified and recommendations were made, dealing with stressors, coordinating and networking stakeholders, integrating top down policy and bottom up initiatives, funding of restoration actions, establishing synergies between restoration, conservation and marine spatial planning and finally communication and publicity

The challenge of setting restoration targets for macroalgal forests under climate changes

Este artículo contiene 10 páginas, 5 figuras, 1 tabla.The process of site selection and spatial planning has received scarce attention in the scientific literature dealing with marine restoration, suggesting the need to better address how spatial planning tools could guide restoration interventions. In this study, for the first time, the consequences of adopting different restoration targets and criteria on spatial restoration prioritization have been assessed at a regional scale, including the consideration of climate changes. We applied the decision-support tool Marxan, widely used in systematic conservation planning on Mediterranean macroalgal forests. The loss of this habitat has been largely documented, with limited evidences of natural recovery. Spatial priorities were identified under six planning scenarios, considering three main restoration targets to reflect the objectives of the EU Biodiversity Strategy for 2030. Results show that the number of suitable sites for restoration is very limited at basin scale, and targets are only achieved when the recovery of 10% of regressing and extinct macroalgal forests is planned. Increasing targets translates into including unsuitable areas for restoration in Marxan solutions, amplifying the risk of ineffective interventions. Our analysis supports macroalgal forests restoration and provides guiding principles and criteria to strengthen the effectiveness of restoration actions across habitats. The constraints in finding suitable areas for restoration are discussed, and recommendations to guide planning to support future restoration interventions are also included.This study was funded by the EASME–EMFF (Sustainable Blue Economy) Project AFRIMED (http://afrimed-project.eu/, grant agreement N. 789059), supported by the European Community.Peer reviewe

Learning biophysically-motivated parameters for alpha helix prediction

<p>Abstract</p> <p>Background</p> <p>Our goal is to develop a state-of-the-art protein secondary structure predictor, with an intuitive and biophysically-motivated energy model. We treat structure prediction as an optimization problem, using parameterizable cost functions representing biological "pseudo-energies". Machine learning methods are applied to estimate the values of the parameters to correctly predict known protein structures.</p> <p>Results</p> <p>Focusing on the prediction of alpha helices in proteins, we show that a model with 302 parameters can achieve a Q_{<it>α </it>}value of 77.6% and an SOV_{<it>α </it>}value of 73.4%. Such performance numbers are among the best for techniques that do not rely on external databases (such as multiple sequence alignments). Further, it is easier to extract biological significance from a model with so few parameters.</p> <p>Conclusion</p> <p>The method presented shows promise for the prediction of protein secondary structure. Biophysically-motivated elementary free-energies can be learned using SVM techniques to construct an energy cost function whose predictive performance rivals state-of-the-art. This method is general and can be extended beyond the all-alpha case described here.</p

New Alien Mediterranean Biodiversity Records (March 2021)

This article includes twenty (20) new records of alien and cryptogenic species in the Mediterranean Sea, belonging to six (6) Phyla (Rhodophyta, Tracheophyta, Mollusca, Arthropoda, Bryozoa, and Chordata) distributed from the Eastern Mediterranean to the Sea of Alboran. The records are reported from nine (9) countries and can be classified into two categories: new records for the Mediterranean Sea and new records of non-indigenous species expanding within the Mediterranean Sea. The first category includes the gastropod Turbo radiatus from Lebanon coasts, the portunid crab Charybdis (Charybdis) natator from Tunis southern lagoon, the mollusc Thuridilla mazda from South Spain, and the nudibranch Okenia picoensis from the Alboran coasts of Spain and from Malta. The second category includes the bivalve Nudiscintilla cf. glabra from the Aegean coast of Turkey, the rhodophyte Colaconema codicola from the North Aegean coasts of Greece, the naked band gaper Champsodon nudivittis from the Sea of Marmara, Turkey. Also, the brachyuran Gonioinfradens giardi from the Greek Ionian waters, the codlet Bregmaceros nectabanus from the Croatian coasts of the Adriatic Sea, and the bryozoan Arbopercula tenella and copepod Parvocalanus crassirostris both from the Gulf of Trieste, Slovenian and Italian coasts, respectively. New records were also reported for the ascidian Distaplia bermudensis from brackish the Gulf of Naples, Italy, the damselfish Abudefduf cf. saxatilis and the seagrass Halophila stipulacea from Sardinia, Tyrrhenian Sea, and for the fish Paranthias furcifer from the harbour of Almeria, Alboran Sea, Spain. Through these records, an understanding of the expanding mechanisms and processes and, if possible, the development of mitigation measures within the region will be further facilitated

Unpublished Mediterranean records of marine alien and cryptogenic species

Good datasets of geo-referenced records of alien species are a prerequisite for assessing the spatio-temporal dynamics of biological invasions, their invasive potential, and the magnitude of their impacts. However, with the exception of first records on a country level or wider regions, observations of species presence tend to remain unpublished, buried in scattered repositories or in the personal databases of experts. Through an initiative to collect, harmonize and make such unpublished data for marine alien and cryptogenic species in the Mediterranean Sea available, a large dataset comprising 5376 records was created. It includes records of 239 alien or cryptogenic taxa (192 Animalia, 24 Plantae, 23 Chromista) from 19 countries surrounding the Mediterranean Sea. In terms of records, the most reported Phyla in descending order were Chordata, Mollusca, Chlorophyta, Arthropoda, and Rhodophyta. The most recorded species was Caulerpa cylindracea, followed by Siganus luridus, Magallana sp. (cf. gigas or angulata) and Pterois miles. The dataset includes records from 1972 to 2020, with the highest number of records observed in 2018. Among the records of the dataset, Dictyota acutiloba is a first record for the Mediterranean Sea. Nine first country records are also included: the alga Caulerpa taxifolia var. distichophylla, the cube boxfish Ostracion cubicus, and the cleaner shrimp Urocaridella pulchella from Israel; the sponge Paraleucilla magna from Libya and Slovenia; the lumpfish Cyclopterus lumpus from Cyprus; the bryozoan Celleporaria vermiformis and the polychaetes Prionospio depauperata and Notomastus aberans from Malta