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1.
Chemosphere ; 361: 142486, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38823423

ABSTRACT

The dynamics of hydrographic and biogeochemical properties in a Northwestern coastal area of the Adriatic Sea were investigated. The time series data from continuous observation (2007-2022) allowed the investigation of annual trends and seasonal cycles along a coastal transect influenced by local river discharge. Various statistical models were used to investigate water temperature, salinity, chlorophyll a, dissolved organic, inorganic and particulate nutrients, precipitation and river discharge. It was found that the local river discharge regime played an essential role in interannual, and seasonal biogeochemical dynamics associated with global climate change in the Mediterranean region. A significant trend towards oligotrophic conditions was detected, as evidenced by the downward trend in the river mouth and on the sea of chlorophyll a (-0.2 µg L-1 in the sea), dissolved organic and inorganic nitrogen and phosphorus (i.e., -0.43 µM yr-1 of DON in the sea and -6.67 of DIN µM yr-1 in the river mouth or -0.07 µM yr-1 of DOP and -0.02 µM yr-1 of DIP in the river mouth) and silicate (-2.47 µM yr-1 in the river mouth) concentrations. Salinity showed a long-term increase in the sea (0.08 yr-1), corresponding to a significant decrease in water discharge from the local river (-0.27 m3 s-1 yr-1) and precipitation (-0.06 mm yr-1). The dissolved organic and inorganic nutrients highlighted a different seasonal accumulation under the river runoff regime. The nutrient enrichment was predominantly driven by river contribution. Data analysis showed that the coastal biogeochemical properties dynamics were mostly influenced by river discharge and precipitation regimes, which in turn are driven by climate change variability in the North-western Adriatic Sea.


Subject(s)
Climate Change , Environmental Monitoring , Rivers , Salinity , Seasons , Seawater , Rivers/chemistry , Seawater/chemistry , Phosphorus/analysis , Nitrogen/analysis , Chlorophyll A/analysis , Chlorophyll/analysis , Temperature , Water Pollutants, Chemical/analysis
2.
Sci Rep ; 13(1): 20164, 2023 11 17.
Article in English | MEDLINE | ID: mdl-37978238

ABSTRACT

Environmental DNA metabarcoding is increasingly implemented in biodiversity monitoring, including phytoplankton studies. Using 21 mock communities composed of seven unicellular diatom and dinoflagellate algae, assembled with different composition and abundance by controlling the number of cells, we tested the accuracy of an eDNA metabarcoding protocol in reconstructing patterns of alpha and beta diversity. This approach allowed us to directly evaluate both qualitative and quantitative metabarcoding estimates. Our results showed non-negligible rates (17-25%) of false negatives (i.e., failure to detect a taxon in a community where it was included), for three taxa. This led to a statistically significant underestimation of metabarcoding-derived alpha diversity (Wilcoxon p = 0.02), with the detected species richness being lower than expected (based on cell numbers) in 8/21 mock communities. Considering beta diversity, the correlation between metabarcoding-derived and expected community dissimilarities was significant but not strong (R2 = 0.41), indicating suboptimal accuracy of metabarcoding results. Average biovolume and rDNA gene copy number were estimated for the seven taxa, highlighting a potential, though not exhaustive, role of the latter in explaining the recorded biases. Our findings highlight the importance of mock communities for assessing the reliability of phytoplankton eDNA metabarcoding studies and identifying their limitations.


Subject(s)
DNA Barcoding, Taxonomic , DNA, Environmental , DNA Barcoding, Taxonomic/methods , Phytoplankton/genetics , Reproducibility of Results , Biodiversity , DNA, Environmental/genetics , Environmental Monitoring/methods
3.
Environ Pollut ; 338: 122700, 2023 Dec 01.
Article in English | MEDLINE | ID: mdl-37804906

ABSTRACT

This study is based on assessing fecal indicator bacteria contamination along meteorological, hydrological and physical-chemical variables after high rainy events during the summer period. The study focused on four different coastal sites in the western and eastern Adriatic coast characterized by various geomorphological and hydrological features, levels of urbanization and anthropogenic pressures, with the aim of finding appropriate and effective solutions to ensure the safety and sustainability of tourism and public health. Detailed in-situ survey revealed a wide range of fecal indicator bacterial (FIB) across the different river mouths with concentrations of E. coli ranging from 165 to 6700 CFU 100 mL-1. It was found that nitrogen compounds track microbial load and acted as tracers for fecal contaminants. Further, a modelling tool was also used to analyze the spatial and temporal distribution of fecal pollution at these coastal sites. The integrated monitoring through high frequent survey in river waters and modeling framework allowed for the estimation of fecal indicator bacterial load at the river mouth and examination of fecal pollutant dispersion in recreational waters, considering different scenarios of fecal dispersion along the coast. This study formed the basis of a robust decision support system aimed at improving the management of recreational areas and ensuring the protection of water bodies through efficient management of bathing areas.


Subject(s)
Environmental Monitoring , Escherichia coli , Bacteria , Drug Contamination , Public Health , Feces/microbiology , Water Microbiology
4.
Environ Pollut ; 290: 118101, 2021 Dec 01.
Article in English | MEDLINE | ID: mdl-34523510

ABSTRACT

Plastic pollution is a global issue posing a threat to marine biota with ecological implications on ecosystem functioning. Micro and nanoplastic impact on phytoplankton autotrophic species (e.g., cell growth inhibition, decrease in chlorophyll a and photosynthetic efficiency and hetero-aggregates formation) have been largely documented. However, the heterogeneity of data makes rather difficult a comparison based on size (i.e. micro vs nano). In addition, knowledge gaps on the ecological impact on phytoplankton assemblage structure and functioning are evident. A new virtual meta-analysis on cause-effect relationships of micro and nanoplastics on phytoplankton species revealed the significant effect posed by polymer type on reducing cell density for tested PVC, PS and PE plastics. Linked with autotrophic phytoplankton role in atmospheric CO2 fixation, a potential impact of plastics on marine carbon pump is discussed. The understanding of the effects of microplastics and nanoplastics on the phytoplankton functioning is fundamental to raise awareness on the overall impact on the first level of marine food web. Interactions between micro and nanoplastics and phytoplankton assemblages have been quite documented by in vitro examinations; but, further studies considering natural plankton assemblages and/or large mesocosm experiments should be performed to evaluate and try predicting ecological impacts on primary producers.


Subject(s)
Plastics , Water Pollutants, Chemical , Chlorophyll A , Ecosystem , Phytoplankton , Plastics/toxicity , Water Pollutants, Chemical/analysis , Water Pollutants, Chemical/toxicity
5.
J Environ Manage ; 295: 113099, 2021 Oct 01.
Article in English | MEDLINE | ID: mdl-34175506

ABSTRACT

In the Adriatic Sea, massive rainfall events are causing flooding of rivers and streams, with severe consequences on the environment. The consequent bacterial contamination of bathing water poses public health risks besides damaging tourism and the economy. This study was conducted in the framework of WATERCARE, an EU Interreg Italy-Croatia Project, which aims at reducing the impact of microbial contamination on Adriatic bathing water due to heavy rainfall events drained in the local sewage network and; enhancing the quality of local waters; and providing support for the decision-making processes regarding the management of bathing water in line with EU regulations. The study involved the development of an innovative water quality integrated system that helps meet these objectives. It consists of four components: a real time hydro-meteorological monitoring system; an autosampler to collect freshwater samples during and after significant rainfall events; a forecast system to simulate the dispersion of pollutants in seawater; and a real-time alert system that can predict the potential ecological risk from the microbial contamination of seawater. The system was developed and tested at a pilot site (Fano, Italy). These preliminary results will be used to develop guidelines for urban wastewater and coastal system quality assessments to contribute to develop policy actions and final governance decisions.


Subject(s)
Water Microbiology , Water Quality , Bathing Beaches , Croatia , Environmental Monitoring , Italy , Seawater , Water Supply
6.
Environ Pollut ; 262: 114268, 2020 Jul.
Article in English | MEDLINE | ID: mdl-32120257

ABSTRACT

Marine diatoms have been identified among the most abundant taxa of microorganisms associated with plastic waste collected at sea. However, the impact of nano-sized plastic fragments (nanoplastics) at single cell and population level is almost unknown. We exposed the marine diatom Skeletonema marinoi to model polystyrene nanoparticles with carboxylic acid groups (PS-COOH NPs, 90 nm) for 15 days (1, 10, 50 µg/mL). Growth, reactive oxygen species (ROS) production, and nano-bio-interactions were investigated. No effect on diatom growth was observed, however Dynamic light scattering (DLS) demonstrated the formation of large PS aggregates which were localized at the diatoms' fultoportula process (FPP), as shown by TEM images. Increase production of ROS and reduction in chain length were also observed upon PS NPs exposure (p < 0.005). The observed PS-diatom interaction could have serious consequences on diatoms ecological role on the biogeochemical cycle of carbon, by impairing the formation of fast-sinking aggregates responsible for atmospheric carbon fixation and sequestration in the ocean sea floor. S. marinoi exposure to PS NPs caused an increase of intracellular and extracellular oxidative stress, the reduction of diatom's chain length and the adhesion of PS NPs onto the algal surface.


Subject(s)
Diatoms , Nanoparticles , Ecosystem , Plastics , Polystyrenes
7.
Chemosphere ; 238: 124560, 2020 Jan.
Article in English | MEDLINE | ID: mdl-31437632

ABSTRACT

Plastics are the most abundant marine debris globally dispersed in the oceans and its production is rising with documented negative impacts in marine ecosystems. However, the chemical-physical and biological interactions occurring between plastic and planktonic communities of different types of microorganisms are poorly understood. In these respects, it is of paramount importance to understand, on a molecular level on the surface, what happens to plastic fragments when dispersed in the ocean and directly interacting with phytoplankton assemblages. This study presents a computer-aided analysis of electron paramagnetic resonance (EPR) spectra of selected spin probes able to enter the phyoplanktonic cell interface and interact with the plastic surface. Two different marine phytoplankton species were analyzed, such as the diatom Skeletonema marinoi and dinoflagellate Lingulodinium polyedrum, in absence and presence of polyethylene terephthalate (PET) fragments in synthetic seawater (ASPM), in order to in-situ characterize the interactions occurring between the microalgal cells and plastic surfaces. The analysis was performed at increasing incubation times. The cellular growth and adhesion rates of microalgae in batch culture medium and on the plastic fragments were also evaluated. The data agreed with the EPR results, which showed a significant difference in terms of surface properties between the diatom and dinoflagellate species. Low-polar interactions of lipid aggregates with the plastic surface sites were mainly responsible for the cell-plastic adhesion by S. marinoi, which is exponentially growing on the plastic surface over the incubation time.


Subject(s)
Diatoms/metabolism , Dinoflagellida/metabolism , Microalgae/growth & development , Phytoplankton/metabolism , Plastics/metabolism , Polyethylene Terephthalates/metabolism , Ecosystem , Electron Spin Resonance Spectroscopy , Microalgae/metabolism , Oceans and Seas , Seawater/chemistry , Waste Products/analysis
8.
Toxins (Basel) ; 11(5)2019 05 25.
Article in English | MEDLINE | ID: mdl-31130661

ABSTRACT

In September 2015, a massive occurrence of the Ostreopsis species was recorded in central Adriatic Kastela Bay. In order to taxonomically identify the Ostreopsis species responsible for this event and determine their toxin profile, cells collected in seawater and from benthic macroalgae were analyzed. Conservative taxonomic methods (light microscopy and SEM) and molecular methods (PCR-based assay) allowed the identification of the species Ostreopsis cf. ovata associated with Coolia monotis. The abundance of O. cf. ovata reached 2.9 × 104 cells L-1 in seawater, while on macroalgae, it was estimated to be up to 2.67 × 106 cells g-1 of macroalgae fresh weight and 14.4 × 106 cells g-1 of macroalgae dry weight. An indirect sandwich immunoenzymatic assay (ELISA) and liquid chromatography-high-resolution mass spectrometry (LC-HRMS) were used to determine the toxin profile. The ELISA assay revealed the presence of 5.6 pg palytoxin (PLTX) equivalents per O. cf. ovata cell. LC-HRMS was used for further characterization of the toxin profile, which showed that there were 6.3 pg of the sum of ovatoxins (OVTXs) and isobaric PLTX per O. cf. ovata cell, with a prevalence of OVTXs (6.2 pg cell-1), while the isobaric PLTX concentration was very low (0.1 pg cell-1). Among OVTXs, the highest concentration was recorded for OVTX-a (3.6 pg cell-1), followed by OVTX-b (1.3 pg cell-1), OVTX-d (1.1 pg cell-1), and OVTX-c (0.2 pg cell-1).


Subject(s)
Dinoflagellida , Marine Toxins/analysis , Seawater/microbiology , Dinoflagellida/chemistry , Dinoflagellida/genetics , Environmental Monitoring , Oceans and Seas
9.
Sci Rep ; 9(1): 4166, 2019 03 12.
Article in English | MEDLINE | ID: mdl-30862824

ABSTRACT

Increased anthropic pressure on the coastal zones of the Mediterranean Sea caused an enrichment in nutrients, promoting microalgal proliferation. Among those organisms, some species, such as the dinoflagellate Alexandrium minutum, can produce neurotoxins. Toxic blooms can cause serious impacts to human health, marine environment and economic maritime activities at coastal sites. A mathematical model predicting the presence of A. minutum in coastal waters of the NW Adriatic Sea was developed using a Random Forest (RF), which is a Machine Learning technique, trained with molecular data of A. minutum occurrence obtained by molecular PCR assay. The model is able to correctly predict more than 80% of the instances in the test data set. Our results showed that predictive models may play a useful role in the study of Harmful Algal Blooms (HAB).


Subject(s)
Dinoflagellida/physiology , Models, Theoretical , Oceans and Seas , Seawater/parasitology , Shellfish Poisoning/parasitology , Algorithms
10.
Chemosphere ; 215: 881-892, 2019 Jan.
Article in English | MEDLINE | ID: mdl-30408884

ABSTRACT

Paralytic shellfish toxins (PST) and tetrodotoxin (TTX) are naturally-occurring toxins that may contaminate the food chain, inducing similar neurological symptoms in humans. They are co-extracted under the same conditions and thus their combined detection is desirable. Whilst PST are regulated and officially monitored in Europe, more data on TTX occurrence in bivalves and gastropods are needed before meaningful regulations can be established. In this study, we used three separate analytical methods - pre-column oxidation with liquid chromatography and fluorescence detection, ultrahigh performance hydrophilic interaction liquid chromatography (HILIC) tandem mass spectrometry (MS/MS) and HILIC high resolution (HR) MS/MS - to investigate the presence of PST and TTX in seawater and shellfish (mussels, clams) collected in spring summer 2015 to 2017 in the Mediterranean Sea. Samples were collected at 10 sites in the Syracuse Bay (Sicily, Italy) in concomitance with a mixed bloom of Alexandrium minutum and A. pacificum. A very high PST contamination in mussels emerged, unprecedentedly found in Italy, with maximum total concentration of 10851 µg saxitoxin equivalents per kg of shellfish tissue measured in 2016. In addition, for the first time TTX was detected in Italy in most of the analysed samples in the range 0.8-6.4 µg TTX eq/kg. The recurring blooms of PST-producing species over the 3-year period, the high PST levels and the first finding of TTX in mussels from the Syracuse bay, suggest that monitoring programmes of PST and TTX in seafood should be activated in this geographical area.


Subject(s)
Chromatography, High Pressure Liquid/methods , Shellfish Poisoning/diagnosis , Shellfish/adverse effects , Tandem Mass Spectrometry/methods , Tetrodotoxin/metabolism , Animals , Fishes , Humans , Italy , Sicily
11.
Environ Pollut ; 244: 617-626, 2019 Jan.
Article in English | MEDLINE | ID: mdl-30384067

ABSTRACT

Plastic debris carry fouling a variety of class-size organisms, among them harmful microorganisms that potentially play a role in the dispersal of allochthonous species and toxic compounds with ecological impacts on the marine environment and human health. We analyzed samples of marine plastics floating at the sea surface using a molecular qPCR assay to quantify the attached microalgal taxa, in particular, harmful species. Diatoms were the most abundant group of plastic colonizers with maximum abundance of 8.2 × 104 cells cm-2 of plastics, the maximum abundance of dinoflagellates amounted to 1.1 × 103 cells cm-2 of plastics. The most abundant harmful microalgal taxon was the diatom Pseudo-nitzschia spp., including at least 12 toxic species, and the dinoflagellate Ostreopsis cf. ovata with 6606 and 259 cells cm-2, respectively. The abundance of other harmful microalgal species including the toxic allochthonous dinoflagellate Alexandrium pacificum ranged from 1 to 73 cells cm-2. In the present study, a direct relationship between the abundance of harmful algal species colonizing the plastic substrates and their toxin production was found. The levels of potential toxins on plastic samples ranged from 101 to 102 ng cm-2, considering the various toxin families produced by the colonized harmful microalgal species. We also measured the rate of adhesion by several target microalgal species. It ranged from 1.8 to 0.3 day-1 demonstrating the capacity of plastic substrate colonizing rapidly by microalgae. The present study reports the first estimates of molecular quantification of microorganisms including toxin producing species that can colonize plastics. Such findings provide important insights for improving the monitoring practice of plastics and illustrate how the epi-plastic community can exacerbate the harmful effects of plastics by dispersal, acting as an alien and toxic species carrier and potentially being ingested through the marine trophic web.


Subject(s)
Diatoms/growth & development , Dinoflagellida/growth & development , Environmental Monitoring , Marine Toxins/analysis , Microalgae/growth & development , Plastics/chemistry , Diatoms/isolation & purification , Dinoflagellida/isolation & purification , Humans , Microalgae/isolation & purification , Waste Products/analysis
12.
Colloids Surf B Biointerfaces ; 161: 620-627, 2018 Jan 01.
Article in English | MEDLINE | ID: mdl-29156339

ABSTRACT

The silicon transport and use inside cells are key processes for understanding how diatoms metabolize this element in the silica biogenic cycle in the ocean. A spin-probe electron paramagnetic resonance (EPR) study over time helped to investigate the interacting properties and the internalization mechanisms of silicic acid from different silicon sources into the cells. Diatom cells were grown in media containing biogenic amorphous substrates, such as diatomaceous earth and sponge spicules, and crystalline sodium metasilicate. It was found that the amorphous biogenic silicon slowed down the internalization process probably due to formation of colloidal particles at the cell surface after silicic acid condensation. Weaker interactions occurred with sponge spicules silicon source if compared to the other sources. The EPR results were explained by analyzing transcript level changes of silicon transporters (SITs) and silaffins (SILs) in synchronized Thalassiosira pseudonana cultures over time. The results indicated that the transport role of SITs is minor for silicic acid from both biogenic and crystalline substrates, and the role of SIT3 is linked to the transport of silicon inside the cells, mainly in the presence of sponge spicules. SIL3 transcripts were expressed in the presence of all silicon sources, while SIL1 transcripts only with sponge spicules. The data suggest that the transport of silicic acid from various silicon sources in diatoms is based on different physico-chemical interactions with the cell surface.


Subject(s)
Colloids/chemistry , Diatoms/chemistry , Silicic Acid/chemistry , Silicon Dioxide/chemistry , Silicon/chemistry , Algal Proteins/genetics , Algal Proteins/metabolism , Colloids/metabolism , Diatoms/genetics , Diatoms/metabolism , Electron Spin Resonance Spectroscopy , Gene Expression , Membrane Transport Proteins/genetics , Membrane Transport Proteins/metabolism , Peptides/genetics , Peptides/metabolism , Silicic Acid/metabolism , Silicon/metabolism , Silicon Dioxide/metabolism , Surface Properties
13.
Environ Sci Technol ; 51(23): 13920-13928, 2017 Dec 05.
Article in English | MEDLINE | ID: mdl-29131595

ABSTRACT

Fifty-five strains of Ostreopsis were collected in the Mediterranean Sea and analyzed to characterize their toxin profiles. All the strains were grown in culture under the same experimental conditions and identified by molecular PCR assay based on the ITS-5.8S rDNA. A liquid chromatography-high resolution multiple stage mass spectrometry (LC-HRMSn) approach was used to analyze toxin profiles and to structurally characterize the detected toxins. Despite morphological and molecular characterization being consistent within the species O. cf. ovata, a certain degree of toxin variability was observed. All the strains produced ovatoxins (OVTXs), with the exception of only one strain. Toxin profiles were quite different from both qualitative and quantitative standpoints: 67% of the strains contained OVTX-a to -e, OVTX-g, and isobaric PLTX, in 25% of them only OVTX-a, -d, -e and isobaric PLTX were present, while 4% produced only OVTX-b and -c. None of the strains showed a previously identified profile, featuring OVTX-f as dominant toxin, whereas OVTX-f was a minor component of very few strains. Toxin content was mostly in the range 4-70 pg/cell with higher levels (up to 238 pg/cell) being found in strains from the Ligurian and South Adriatic Sea. Structural insights into OVTX-b, -c, -d, and -e were gained, and the new OVTX-l was detected in 36 strains.


Subject(s)
Dinoflagellida , Marine Toxins , Chromatography, Liquid , Mediterranean Sea , Tandem Mass Spectrometry
14.
Mar Genomics ; 36: 49-55, 2017 Dec.
Article in English | MEDLINE | ID: mdl-28625778

ABSTRACT

Studying taxonomic and ecological diversity of phytoplankton assemblages is often difficult because morphological analysis cannot provide a complete description of their composition. Therefore, more robust and feasible approaches have to be chosen to elucidate the interactions between environmental and human pressures and phytoplankton assemblages. The Ocean Sampling Day (OSD) allowed collecting seawater samples from a wide range of oceanic regions including the Mediterranean Sea. In this study, a total of 754,167 V4-18S ribosomal DNA (rDNA) metabarcodes derived from 20 plankton samples collected at 19 sampling sites across the coastal areas of the Mediterranean Sea were analyzed to explore the relationships between phytoplankton assemblages' composition, sub-regional environmental features and human pressures. We reduced the whole set of autotroph plankton (1398 OTUs) to a smaller number of ecologically relevant entities (205 taxa) and used the latter for analysing the structure of phytoplankton assemblages. Chaetoceros was the only genus occurring in all the samples, while the number of taxa was maximum in the W Mediterranean. Based on the assigned OTUs, the structure of E Mediterranean phytoplankton was the most homogeneous. Further, phytoplankton assemblages from the three Mediterranean sub-regions (Western, Adriatic and Eastern) were significantly different (R=0.25, p=0.0136) based on Jaccard similarity. We also observed that phytoplankton diversity and human impact on marine ecosystems were not significantly related to each other based on Mantel's test.


Subject(s)
Biodiversity , Phytoplankton/classification , Phytoplankton/physiology , High-Throughput Nucleotide Sequencing , Mediterranean Sea , Microalgae/classification , Microalgae/genetics , Microalgae/physiology , Phytoplankton/genetics , RNA, Algal/genetics , RNA, Ribosomal, 18S/genetics
15.
Sci Rep ; 7(1): 4259, 2017 06 26.
Article in English | MEDLINE | ID: mdl-28652566

ABSTRACT

The aim of this study was to develop and validate a high resolution melting (HRM) method for the rapid, accurate identification of the various harmful diatom Pseudo-nitzschia species in marine environments. Pseudo-nitzschia has a worldwide distribution and some species are toxic, producing the potent domoic acid toxin, which poses a threat to both human and animal health. Hence, it is important to identify toxic Pseudo-nitzschia species. A pair of primers targeting the LSU rDNA of the genus Pseudo-nitzschia was designed for the development of the assay and its specificity was validated using 22 control DNAs of the P. calliantha, P. delicatissima/P. arenysensis complex and P. pungens. The post-PCR HRM assay was applied to numerous unidentified Pseudo-nitzschia strains isolated from the northwestern Adriatic Sea (Mediterranean Sea), and it was able to detect and discriminate three distinct Pseudo-nitzschia taxa from unidentified samples. Moreover, the species-specific identification of Pseudo-nitzschia isolates by the HRM assay was consistent with phylogenetic analyses. The HRM assay was specific, robust and rapid when applied to high numbers of cultured samples in order to taxonomically identify Pseudo-nitzschia isolates recovered from environmental samples.


Subject(s)
DNA, Ribosomal/genetics , Diatoms/genetics , Phylogeny , Animals , Diatoms/isolation & purification , Diatoms/pathogenicity , Humans , Marine Toxins/genetics , Marine Toxins/isolation & purification , Mediterranean Sea , Nucleic Acid Denaturation/genetics
16.
Harmful Algae ; 63: 7-12, 2017 03.
Article in English | MEDLINE | ID: mdl-28366402

ABSTRACT

During the past decade, next generation sequencing (NGS) technologies have provided new insights into the diversity, dynamics, and metabolic pathways of natural microbial communities. But, these new techniques face challenges related to the genome size and level of genome complexity of the species under investigation. Moreover, the coverage depth and the short-read length achieved by NGS based approaches also represent a major challenge for assembly. These factors could limit the use of these high-throughput sequencing methods for species lacking a reference genome and characterized by a high level of complexity. In the present work, the evolutionary history, mainly consisting of gene transfer events from bacteria and unicellular eukaryotes to microalgae, including harmful species, is discussed and reviewed as it relates to NGS application in microbial communities, with a particular focus on harmful algal bloom species and dinoflagellates. In the context of genetic population studies, genotyping-by-sequencing (GBS), an NGS based approach, could be used for the discovery and analysis of single nucleotide polymorphisms (SNPs). The NGS technologies are still relatively new and require further improvement. Specifically, there is a need to develop and standardize tools and approaches to handle large data sets, which have to be used for the majority of HAB species characterized by evolutionary highly dynamic genomes.


Subject(s)
Genome, Plant/genetics , High-Throughput Nucleotide Sequencing/methods , Microalgae/genetics , Animals , Genotype , Humans , Sequence Analysis, DNA/methods
17.
Environ Sci Technol ; 49(24): 14230-8, 2015 Dec 15.
Article in English | MEDLINE | ID: mdl-26580419

ABSTRACT

Paralytic shellfish poisoning (PSP) is a serious human illness caused by the ingestion of seafood contaminated with saxitoxin and its derivatives (STXs). These toxins are produced by some species of marine dinoflagellates within the genus Alexandrium. In the Mediterranean Sea, toxic Alexandrium spp. blooms, especially of A. minutum, are frequent and intense with negative impact to coastal ecosystem, aquaculture practices and other economic activities. We conducted a large scale study on the sxt gene and toxin distribution and content in toxic dinoflagellate A. minutum of the Mediterranean Sea using both quantitative PCR (qPCR) and HILIC-HRMS techniques. We developed a new qPCR assay for the estimation of the sxtA1 gene copy number in seawater samples during a bloom event in Syracuse Bay (Mediterranean Sea) with an analytical sensitivity of 2.0 × 10° sxtA1 gene copy number per reaction. The linear correlation between sxtA1 gene copy number and microalgal abundance and between the sxtA1 gene and STX content allowed us to rapidly determine the STX-producing cell concentrations of two Alexandrium species in environmental samples. In these samples, the amount of sxtA1 gene was in the range of 1.38 × 10(5) - 2.55 × 10(8) copies/L and the STX concentrations ranged from 41-201 nmol/L. This study described a potential PSP scenario in the Mediterranean Sea.


Subject(s)
Dinoflagellida/pathogenicity , Environmental Monitoring/methods , Real-Time Polymerase Chain Reaction/methods , Saxitoxin/genetics , Shellfish Poisoning , Dinoflagellida/genetics , Ecosystem , Genetic Markers , Humans , Mediterranean Sea , Microalgae/genetics , Saxitoxin/toxicity , Seawater/parasitology , Shellfish Poisoning/parasitology
18.
Mar Pollut Bull ; 88(1-2): 102-9, 2014 Nov 15.
Article in English | MEDLINE | ID: mdl-25282181

ABSTRACT

Ostreopsis sp. is a toxic marine benthic dinoflagellate that causes high biomass blooms, posing a threat to human health, marine biota and aquaculture activities, and negatively impacting coastal seawater quality. Species-specific identification and enumeration is fundamental because it can allow the implementation of all the necessary preventive measures to properly manage Ostreopsis spp. bloom events in recreational waters and aquaculture farms. The aim of this study was to apply a rapid and sensitive qPCR method to quantify Ostreopsis cf. ovata abundance in environmental samples collected from Mediterranean coastal sites and to develop site-specific environmental standard curves. Similar PCR efficiencies of plasmid and environmental standard curves allowed us to estimate the LSU rDNA copy number per cell. Moreover, we assessed the effectiveness of mitochondrial COI and cob genes as alternative molecular markers to ribosomal genes in qPCR assays for Ostreopsis spp. quantification.


Subject(s)
Dinoflagellida/genetics , Environmental Monitoring/methods , Real-Time Polymerase Chain Reaction/methods , Seawater/analysis , DNA, Ribosomal , Electron Transport Complex IV/genetics , Gene Dosage , Harmful Algal Bloom , Humans , Limit of Detection , Marine Toxins/genetics , Mediterranean Region , Plasmids , Protozoan Proteins/genetics , Recreation , Seawater/parasitology , Water Quality
19.
Environ Sci Technol ; 48(6): 3532-40, 2014 Mar 18.
Article in English | MEDLINE | ID: mdl-24564517

ABSTRACT

Since the late 1990s, a respiratory syndrome has been repetitively observed in humans concomitant with Ostreopsis spp. blooms (mainly O. cf. ovata) in the Mediterranean area. Previous studies have demonstrated that O. cf. ovata produces analogues of palytoxin (ovatoxins and a putative palytoxin), one of the most potent marine toxins. On the basis of the observed association between O. cf. ovata blooms, respiratory illness in people, and detection of palytoxin complex in algal samples, toxic aerosols, containing Ostreopsis cells and/or the toxins they produce, were postulated to be the cause of human illness. A small scale monitoring study of marine aerosol carried out along the Tuscan coasts (Italy) in 2009 and 2010 is reported. Aerosols were collected concomitantly with O. cf. ovata blooms, and they were analyzed by both PCR assays and LC-HRMS. The results, besides confirming the presence of O. cf. ovata cells, demonstrated for the first time the occurrence of ovatoxins in the aerosol at levels of 2.4 pg of ovatoxins per liter of air. Given the lack of toxicological data on palytoxins by inhalation exposure, our results are only a first step toward a more comprehensive understanding of the Ostreopsis-related respiratory syndrome.


Subject(s)
Dinoflagellida/chemistry , Environmental Monitoring/methods , Marine Toxins/analysis , Acrylamides/analysis , Acrylamides/chemistry , Aerosols/analysis , Cnidarian Venoms , Dinoflagellida/genetics , Dinoflagellida/isolation & purification , Italy , Marine Biology , Marine Toxins/chemistry , Seawater
20.
Environ Sci Technol ; 47(8): 3788-95, 2013 Apr 16.
Article in English | MEDLINE | ID: mdl-23480590

ABSTRACT

We report the development and validation of a qPCR based method for estimation of the toxic benthic dinoflagellate Ostreopsis cf. ovata in the complex matrix of marine aerosol at Sant Andreu de Llavaneres beach (northwestern Mediterranean Sea). Toxic events in humans after inhalation or cutaneous contact have been reported during O. cf. ovata blooms and were attributed to palytoxin (PLTX)-like compounds produced by this microalga. Similar PCR efficiencies of plasmid and cellular environmental standard curves (98 and 100%, respectively) allowed obtaining the rDNA copy number per cell. The analytical sensitivity was set at 2 × 10(0) rDNA copy number and 8 × 10(-4) cell per reaction. Based on spiking experiments, we evaluated the aerosol filter inhibitory activity and recovery rate of cells from filters, then normalized the abundance data of toxic O. cf. ovata. The abundance in marine aerosol during the bloom varied in the range of 1-102 cells per filter. Analytical determinations were also applied to detect palytoxin in field samples. No palytoxin was detected in the aerosol filters, and the estimation of PLTX like-compound concentrations in microepiphytic assemblages varied between 0.1 and 1.2 pg/cell.


Subject(s)
Aerosols/analysis , Dinoflagellida/genetics , Dinoflagellida/isolation & purification , Marine Toxins/genetics , Marine Toxins/isolation & purification , Polymerase Chain Reaction/methods , Seawater/chemistry , DNA/genetics , DNA/isolation & purification , Gene Dosage/genetics , Reference Standards , Reproducibility of Results , Spain
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