Publications

Antarctic marine invertebrates are sensitive to temperature fluctuations, and therefore vulnerable to ongoing ocean warming. To investigate molecular responses to heat stress, the benthic isopod Spinoserolis beddardi and the asteroid Diplasterias sp., both adapted to ~0 °C conditions, were used. Organisms were exposed to short-term thermal increments of +3 °C and +7 °C in controlled aquarium experiments. After one week, transcriptomes were sequenced, generating a total of 245 Gb (26 libraries) for Diplasterias sp. and 312 Gb (29 libraries) for S. beddardi . sp. De novo assemblies yielded 392,214 and 438,423 protein-coding transcripts, of which 75,983 and 65,497, respectively, had significant matches to metazoan proteins. S. beddardi showed a faster but limited response, with high transcriptional activation at +3 °C (1,140 up- and 733 down-regulated transcripts) but reduced differential expression at +7 ºC, a temperature that induced mortality and phenotypic stress. Contrarily, Diplasterias sp. displayed broader transcriptional changes increasing with temperature, with 1,175 up- and 1,128 down-regulated transcripts at +7 °C and significant differences between treatments. GO and KEGG enrichment analyses indicated that cellular structure, metabolic pathways, protein folding, and reproductive processes underpin thermal stress responses of both species. This study provides the first comparative transcriptomic insight into the heat stress responses in these two Antarctic benthic invertebrates, offering a framework to assess their resilience under projected ocean warming scenarios.

ABSTRACT Pelagic particle‐associated bacterioplankton play crucial roles in marine ecosystems, influencing biogeochemical cycling and ecosystem functioning. However, their diversity, composition, and dynamics remain poorly understood, particularly in unique environments such as the Red Sea. In this study, we employed eDNA metabarcoding to comprehensively characterise bacterioplankton communities associated with pelagic particles in a three‐dimensional assessment spanning depths from the surface to a depth of 2300 m along the full length of the eastern Red Sea within the exclusive economic zone of the Kingdom of Saudi Arabia. Our results reveal a diverse assemblage of taxa, with Pseudomonadota, Cyanobacteriota, and Planctomycetota being the dominant phyla. We identified pronounced spatial variability in community composition among five major Red Sea geographical regions, with a third of all amplicon sequence variants being unique to the Southern Red Sea in contrast to a relatively homogenous distribution along the water column depth gradient. Our findings contribute to a deeper understanding of microbial ecology in the Red Sea and provide valuable insights into the factors governing pelagic particle‐associated bacterioplankton communities in this basin.

Seagrass sediments accumulate high amounts of organic carbon, but they are threatened by human activities and their global extent continues to shrink. Simultaneously, there is interest in including seagrass carbon accumulation in countries' Nationally Determined Contributions (NDCs). We used the InVEST Coastal Blue Carbon Model to estimate sediment organic carbon (SOC) accumulation over 100 years in seagrass of the Bahama Banks, the world's largest seagrass meadow. Using seagrass maps and sediment core measurements, we modeled SOC accumulation in two scenarios: (1) 1% seagrass area loss per year, the Business As Usual scenario (BAU); (2) restoration of seagrass extent to that of 30 years prior by 2120, meeting the goals of the Kunming-Montreal global biodiversity framework. With a conservative initial seagrass extent, by 2120, the SOC accumulation was 90.6 Mt CO2 eq (24.0 autochthonous Mt CO2 eq) in the BAU and 703.7 Mt CO2 eq (186.5 autochthonous Mt CO2 eq) in the restoration scenario, and average additional SOC accumulation was 611.0 Mt CO2 eq (161.9 autochthonous Mt CO2 eq). Using a high estimate of initial seagrass extent, by 2120, the net SOC accumulation was 155.4 Mt CO2 eq (41.2 autochthonous Mt CO2 eq) in the BAU and 1058.2 Mt CO2 eq (280.4 autochthonous Mt CO2 eq) in the restoration scenario, and additional SOC accumulation was 902.8 Mt CO2 eq (239.2 autochthonous Mt CO2 eq). The potential for either SOC accumulation or losses to occur if seagrass extent continues to decline highlights uncertainty around whether Bahamian seagrass meadows will remain a net carbon sink. The additional accumulation of autochthonous carbon if seagrasses were restored was comparable in scale to the annual greenhouse gas emissions of The Bahamas, suggesting potential for seagrass restoration to contribute to the country's NDCs and broader climate mitigation strategies.

Coral reefs, vital ecosystems supporting diverse marine life, are primarily shaped by the clonal expansion of coral colonies. Although the principles of coral clonal growth, involving polyp division for spatial extension, are well-understood, numerical modelling efforts are notably scarce in the literature. In this article, we present a parsimonious numerical model based on the cloning of polyps, using five key parameters to simulate a range of coral shapes. The model is agent-based, where each polyp represents an individual. The colony’s surface expansion is dictated by the growth mode parameter ( s ), guiding the preferred growth direction. Varying s facilitates the emulation of diverse coral shapes, including massive, branching, cauliflower, columnar and tabular colonies. Additionally, we introduce a novel approach for self-regulatory branching, inspired by the intricate mesh-like canal system and internode regularity observed in Acropora species. Through a comprehensive sensitivity analysis, we demonstrate the robustness of our model, paving the way for future applications that incorporate environmental factors, such as light and water flow. Coral colonies are known for their high plasticity, and understanding how individual polyps interact with each other and their surroundings to create the reef structure has been a longstanding question in the field. This model offers a powerful framework for studying these interactions, enabling a future implementation of environmental factors and the possibility of identifying the key mechanisms influencing coral colonies’ morphogenesis.

1 Instituto de Educação da Universidade de Lisboa (PORTUGAL)2 Faculdade de Ciências da Universidade de Lisboa (PORTUGAL)3 Escola Superior de Educação João de Deus, Centro de Investigação e Estudos João de Deus; MARE – Marine and Environmental Sciences Centre (PORTUGAL)

Summary In coastal and estuarine systems, foundation species like seagrasses, mangroves, saltmarshes or corals provide important ecosystem services. Seagrasses are globally declining and their reintroduction has been shown to restore ecosystem functions. However, seagrass restoration is often challenging, given the dynamic and stressful environment that seagrasses often grow in. From our world‐wide meta‐analysis of seagrass restoration trials (1786 trials), we describe general features and best practice for seagrass restoration. We confirm that removal of threats is important prior to replanting. Reduced water quality (mainly eutrophication), and construction activities led to poorer restoration success than, for instance, dredging, local direct impact and natural causes. Proximity to and recovery of donor beds were positively correlated with trial performance. Planting techniques can influence restoration success. The meta‐analysis shows that both trial survival and seagrass population growth rate in trials that survived are positively affected by the number of plants or seeds initially transplanted. This relationship between restoration scale and restoration success was not related to trial characteristics of the initial restoration. The majority of the seagrass restoration trials have been very small, which may explain the low overall trial survival rate (i.e. estimated 37%). Successful regrowth of the foundation seagrass species appears to require crossing a minimum threshold of reintroduced individuals. Our study provides the first global field evidence for the requirement of a critical mass for recovery, which may also hold for other foundation species showing strong positive feedback to a dynamic environment. Synthesis and applications . For effective restoration of seagrass foundation species in its typically dynamic, stressful environment, introduction of large numbers is seen to be beneficial and probably serves two purposes. First, a large‐scale planting increases trial survival – large numbers ensure the spread of risks, which is needed to overcome high natural variability. Secondly, a large‐scale trial increases population growth rate by enhancing self‐sustaining feedback, which is generally found in foundation species in stressful environments such as seagrass beds. Thus, by careful site selection and applying appropriate techniques, spreading of risks and enhancing self‐sustaining feedback in concert increase success of seagrass restoration.

Abstract The deep sea, the largest ocean’s compartment, drives planetary-scale biogeochemical cycling. Yet, the functional exploration of its microbial communities lags far behind other environments. Here we analyze 58 metagenomes from tropical and subtropical deep oceans to generate the Malaspina Gene Database. Free-living or particle-attached lifestyles drive functional differences in bathypelagic prokaryotic communities, regardless of their biogeography. Ammonia and CO oxidation pathways are enriched in the free-living microbial communities and dissimilatory nitrate reduction to ammonium and H 2 oxidation pathways in the particle-attached, while the Calvin Benson-Bassham cycle is the most prevalent inorganic carbon fixation pathway in both size fractions. Reconstruction of the Malaspina Deep Metagenome-Assembled Genomes reveals unique non-cyanobacterial diazotrophic bacteria and chemolithoautotrophic prokaryotes. The widespread potential to grow both autotrophically and heterotrophically suggests that mixotrophy is an ecologically relevant trait in the deep ocean. These results expand our understanding of the functional microbial structure and metabolic capabilities of the largest Earth aquatic ecosystem.