UNASSIGNED: The implementation genomic-based surveillance on emerging severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants in low-income countries, which have inadequate molecular and sequencing capabilities and limited vaccine storage, represents a challenge for public health. To date, there is little evidence on molecular investigations of SARS-CoV-2 variants in areas where they might emerge. We report the findings of an experimental SARS-CoV-2 molecular surveillance programme for migrants, refugees, and asylum seekers arriving to Europe via Italy through the Mediterranean Sea.
UNASSIGNED: We descriptively analysed data on migrants collected at entry points in Sicily from February 2021 to May 2022. These entry points are integrated with a network of laboratories fully equipped for molecular analyses, which performed next-generation sequencing and used Nextclade and the Pangolin coronavirus disease 2019 (COVID-19) tools for clade/lineage assignment.
UNASSIGNED: We obtained 472 full-length SARS-CoV-2 sequences and identified 12 unique clades belonging to 31 different lineages. The delta variant accounted for 43.6% of all genomes, followed by clades 21D (Eta) and 20A (25.4% and 11.4%, respectively). Notably, some of the identified lineages (A.23.1, A.27, and A.29) predicted their introduction into the migration area. The mutation analysis allowed us to identify 617 different amino acid substitutions, 156 amino acid deletions, 7 stop codons, and 6 amino acid insertions. Lastly, we highlighted the geographical distribution patterns of some mutational profiles occurring in the migrants\' countries of origin.
UNASSIGNED: Genome-based molecular surveillance dedicated to migrant populations from low-resource areas may be useful for forecasting new epidemiological scenarios related to SARS-CoV-2 variants or other emerging pathogens, as well as for informing the updating of vaccination strategies.

Oceanographic connectivity in an effective network of protected areas is crucial for restoring and stabilising marine populations. However, temporal variability in connectivity is rarely considered as a criterion in designing and evaluating marine conservation planning. In this study, indicators were defined to characterise the temporal variability in occurrence, flux, and frequency of connectivity in a northwestern Mediterranean Sea area. Indicators were tested on semi-theoretically-estimated connections provided by the runs of a passive particle transport model in a climatological year and in three years between 2006-2020, showing large deviation from the climatological year. The indicators allowed comparing the temporal variability in connectivity of four zones, highlighted differences in connectivity due to their locations and the mesoscale hydrodynamics, and identified areas that require further investigation. The three indicators also showed that the temporal variability in connectivity was influenced by the duration and depth of particle transport, although no consistent pattern was observed in the indicator variations of the compared zones. Provided that specific objectives will be given when parameterising transport models (i.e., selection of focus species and time period), indicators of temporal variability in connectivity have potential to support spatial conservation planning, prioritise the protection of marine resources, and measure the effectiveness of Marine Protected Areas, in line with a long-term vision of ocean management.

The loggerhead sea turtle Caretta caretta has been chosen as bioindicator to monitor the amount of litter ingested by marine animals within the European Marine Strategy Framework Directive and the Barcelona Regional Sea Convention. European Member States and Contracting Parties are committed to achieve the Good Environmental Status (GES), which is reached when the quantity of ingested litter does not adversely affect the health of the species concerned. Although the monitoring strategy has been outlined for more than a decade, to date no threshold values have been adopted to verify GES achievement. After five years of extensive monitoring along the Italian coasts, this study evaluates the suitability of five different GES scenarios and proposes a new threshold value (i.e., \"there should be less than 33% of sea turtles having more than 0.05 g of ingested plastic in the GI\") for its implementation in the European seas and the Mediterranean basin.

In this study, we estimate the niche overlap between native and invaded ranges of 36 Lessepsian fish, focusing on how this estimate might vary in relation to the temporal resolution of sea surface temperature and salinity, which are the main niche axes determining their distribution. Specifically, we wanted to address the following questions: (i) Does the choice of temporal averaging method of variables influence the estimation of niche overlap for individual variables? (ii) Does this temporal resolution effect persist when conducting bivariate niche estimations? Niches overlap was estimated by calculating two indices and these analyses were repeated at two temporal resolutions, matching observations to the classic \'multidecadal\' average of environmental conditions and to the corresponding annual average of records. Results are compared with verify whether differences can be detected in the magnitude of niche commonality measured at annual or multidecadal temporal resolution. The findings show that the temporal resolution of the data significantly influences estimates of overlap in the thermal niche. Specifically, our analysis indicates a considerable disparity between native and invasive niche regions for most species, particularly when evaluated over multidecadal periods compared with matching occurrence data to the annual mean values of years the occurrence was observed, that is matching occurrence data to a common average of \'present\' conditions or to the annual mean values of years of observation. In particular, the largest overlaps between native and invaded niches occur along the salinity axis, regardless of temporal resolution. When considering both temperature and salinity together, the results remain unaffected by the temporal resolution of the environmental data. Almost 30% of the species show a different niche in their introduced range, and for the other species, the overlap between native and invaded ranges was reduced with respect to the univariate analyses.

Syllis prolifera (Syllidae, Syllinae) is an abundant species of marine annelids commonly found in warm to temperate waters worldwide. Although morphological variability occurs among populations, S. prolifera has long been considered a cosmopolitan species, widely distributed in coastal environments, including acidified and polluted areas. However, the increasing number of cases of cryptic and pseudocryptic speciation in several polychaete families in recent years has led us to question whether S. prolifera represents a single globally distributed taxon or is a species complex. To address this question, we conducted an integrative study, combining morphological, ecological and molecular data of 52 S. prolifera specimens collected in different localities across the western Mediterranean Sea and the Gulf of Cadiz. Our phylogenetic and species delimitation analyses that included two mitochondrial DNA markers (COI and 16S rRNA ) were congruent in not considering S. prolifera a unique entity. Five distinct lineages that can also be recognised by certain morphological and ecological traits were identified from these analyses instead. Overall, our study does not support the homogeneity of S. prolifera across the Mediterranean Sea, providing a new example of pseudocrypticism in marine invertebrates.

Chlorophyll-a (Chl-a) is a crucial pigment in algae and macrophytes, which makes the concentration of total Chl-a in the water column (total Chl-a) an essential indicator for estimating the primary productivity and carbon cycle of the ocean. Integrating the Chl-a concentration at different depths (Chl-a profile) is an important way to obtain the total Chl-a. However, due to limited cost and technology, it is difficult to measure Chl-a profiles directly in a spatially continuous and high-resolution way. In this study, we proposed an integrated strategy model that combines three different machine learning methods (PSO-BP, random forest and gradient boosting) to predict the Chl-a profile in the Mediterranean by using several sea surface variables (photosynthetically active radiation, spectral irradiance, sea surface temperature, wind speed, euphotic depth and KD490) and subsurface variables (mixed layer depth) observed by or estimated from satellite and BGC-Argo float observations. After accuracy estimation, the integrated model was utilized to generate the time series total Chl-a in the Mediterranean from 2003 to 2021. By analysing the time series results, it was found that seasonal fluctuation contributed the most to the variation in total Chl-a. In addition, there was an overall decreasing trend in the Mediterranean phytoplankton biomass, with the total Chl- decreasing at a rate of 0.048 mg/m2 per year, which was inferred to be related to global warming and precipitation reduction based on comprehensive analysis with sea surface temperature and precipitation data.

The dinoflagellate Gymnodinium catenatum is considered the primary cause of recurrent paralytic shellfish toxins (PSTs) in shellfish on the Moroccan Mediterranean coasts. The impacts of key environmental factors on the growth, cell yield, cell size and PST content of G. catenatum were determined. Results indicated that increasing salinity from 32 to 39 and nitrate concentrations from 441 μM to 1764 μM did not significantly (ANOVA, P-value >0.63) modify the growth rate of the studied species. Gymnodinium catenatum exhibited the highest growth rate at 24 °C. Cells arrested their division at 15 °C and at ammonium concentration above 441 μM, suggesting that this nitrogen form is toxic for G. catenatum. Furthermore, G. catenatum was unable to assimilate urea as a nitrogen source. In G. catenatum cells, eight analogues of saxitoxin were detected, belonging to the N-sulfocarbamoyl (C1-4, B1 and B2) and decarbamoyl (dc-GTX2/3) toxins. C-toxins contributed 92 % to 98 % of the molar composition of the PSTs. During the exponential growth, C2 tended to dominate, while C3 prevailed during the stationary phase. Toxin content per cell (ranging from 5.5 pg STXeq.cell-1 to 22.4 pg STXeq.cell-1) increased during the stationary growth phase. Cell toxin content increased with the concentrations of nitrate, ranging from 12.1 pg STXeq.cell-1 at 441 μM to 22.4 pg STXeq.cell-1 at 1764 μM during the stationary growth phase. The toxin content of G. catenatum showed the highest values measured at the highest tested temperatures, especially during the stationary phase, where toxicity reached 17.8 pg STXeq.cell-1 and 16.4 pg STXeq.cell-1 at 24 °C and 29 °C, respectively. The results can help understand the fluctuations in the growth and PST content of G. catenatum in its habitat in response to changing environmental variables in the Mediterranean Sea when exposed to increases in warming pressure and eutrophication.

This study provides new insights onto spatial and temporal trends of seafloor macro-litter in the abyssal seafloor of Sardinian channel, in central western Mediterranean (Italy). Trawl surveys were conducted at depths between 884 and 1528 m, thus focusing on one of the least investigated marine environments. None of the considered sites was litter free, with plastics being numerically dominant (57% of items), followed by metal (11%) and glass (16%). Recorded densities and weight ranged between 49.9 and 499 items km-2 and 1.4 and 1052 kg km-2. In the most contaminated sites, the weight of the litter collected in nets represented up to nine times the biomass of benthic megafauna, and, overall, in 60% of hauls macro-litter mass outweighed the biomass collected. Moreover, we report that megafauna was observed to be more abundant in sites where macro-litter presence was more severe. More studies are needed to elucidate the nature of this correlation, with biota being more abundant in hotspots of accumulation of seafloor macro-litter.

The blue shark, Prionace glauca, is the most abundant pelagic shark in the open ocean but its vulnerability remains poorly understood while being one of the most fecund sharks. In the Mediterranean Sea, the blue shark is listed as Critically Endangered (CR) by the International Union for Conservation of Nature. The species is facing a strong decline due to fishing, and scientific data regarding its genetic structure and vulnerability are still lacking. Here, we investigated the genetic diversity, demographic history, and population structure of the blue shark within the Mediterranean Sea, from samples of the Gulf of Lion and Malta, using sequences of the mtDNA control region and 22 microsatellite markers. We also compared our mitochondrial data to previous studies to examine the Atlantic-Mediterranean population structure. We assessed the blue shark\'s genetic vulnerability in the Mediterranean basin by modelling its effective population size. Our results showed a genetic differentiation between the Atlantic and the Mediterranean basins, with limited gene flow between the two areas, and distinct demographic histories making the Mediterranean population an independent management unit. Within the Mediterranean Sea, no sign of population structure was detected, suggesting a single population across the Western and Central parts of the sea. The estimated effective population size was low and highlighted the high vulnerability of the Mediterranean blue shark population, as the estimated size we calculated might not be sufficient to ensure the long-term persistence of the population. Our data also provide additional evidence that the Gulf of Lion area acts as a nursery for P. glauca, where protection is essential for the conservation strategy of the species in the Mediterranean.

Species of the genus Hysterothylacium are aquatic roundworms (nematodes) belonging to the family Raphidascarididae. Some species in this family are known to be associated with zoonotic diseases in humans after they consume their parasitic larvae in raw or undercooked fish. The aim of this research was to report the prevalence, morphology, and molecular characteristics of Hysterothylacium species in Pagellus erythrinus. A total of Two hundred fish were purchased from the fish market in Damanhour, Beheira Province, between December 2021 and November 2022 and subjected to examination. For molecular characterization, the internal transcribed spacer (ITS) region of nuclear ribosomal DNA and the mitochondrial cytochrome oxidase subunit 2 (COX-2) gene were used. Hysterothylacium species were morphologically described and identified from the intestine of Pagellus erythrinus in Beheira Province, Egypt. The PCR amplified 1087 bp and 629 bp of the target sequences of the ITS region and COX-2 gene, respectively. Sequence analysis revealed the Hysterothylacium thalassini species. The identified species provided novel biological data for the Hysterothylacium nematode in Pagellus erythrinus. The prevalence of Hysterothylacium species recovered from the intestine was 55%. The highest prevalence of 72% has been reported in summer compared to the lowest prevalence of 38% in the winter. Females had a higher prevalence of 61.8% than males, with 44.2%. The first detection, prevalence, and molecular characterization of H. thalassini in Pagellus erythrinus from Beheira Province, Egypt, was presented in this study.