Consulta: creatorFacets:"Siano, Raffaele"
Registros recuperados: 43
Data/hora: 15/06/2024 01:06:47

Workflows novateurs pour une analyse métabolomique plus claire et plus intégrative
Provedor de dados: 5
Autores: Mondeguer, Florence; Allard, Pierre-marie; Souard, Florence; Elie, Nicolas; Guitton, Yann; Sibat, Manoella; Siano, Raffaele.
During their life cycle, Alexandrium minutum and Scrippsiella donghaienis can produce resistant and revivable cysts that can accumulate in marine sediments for hundreds of years. Our working hypothesis assumes that these two genera have "recorded" their adaptation to ecosystem changes in these cells preserved in the form of cysts. From these revived cysts, toxic and non-toxic dinoflagellate cultures (Alexandrium minutum and Scrippsiella donghaienis) were analyzed by a metabolomic approach to investigate the possible adaptive responses of phytoplankton to these changes in coastal ecosystems. The strains were obtained from isotopically dated sediments, 1986 and 1996 for "old" and 2006 for "modern". In total, 84 samples were obtained. Each experimental...
Tipo: Text
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00485/59662/62721.pdf

DYNAPSE - DYNamiques des efflorescences et de la toxicité des espèces phytoplanctoniques nuisibles du genre PSEudo nitzschia en région Loire Bretagne
Provedor de dados: 5
Autores: Belin, Catherine; Chapelle, Annie; Delmas, Daniel; Nezan, Elisabeth; Siano, Raffaele.
Les efflorescences de la diatomée Pseudo-nitzschia sont largement répandues sur les côtes Manche-Atlantique depuis une trentaine d’années (source Rephy). Depuis les années 2000 elles y sont parfois associées des événements toxiques du type ASP (Amnesic Shellfish Poisonning) qui perturbent grandement les pêcheries de coquillages et notamment celles de coquilles Saint Jacques. Les efflorescences et toxicités liées aux Pseudo-nitzschia sont des phénomènes en augmentation sur les côtes françaises mais aussi mondialement. Le genre Pseudo-nitzschia comprend plusieurs espèces très difficiles à identifier en routine or certaines sont toxiques et d’autres pas. Les facteurs environnementaux abiotiques et biotiques contrôlent à la fois la croissance des microalgues...
Tipo: Text
Palavras-chave: Algues toxiques; Pseudo nitzschia; Toxicité des coquillages; Pêcheries; Facteurs environnementaux.
Ano: 2013
URL: http://archimer.ifremer.fr/doc/00189/30035/28521.pdf

Premières propositions pour un indice de composition du phytoplancton, basé sur les résultats des méthodes pigments et diversité génétique. Action 3 - Indice Composition - Livrable 1. Rapport final, mars 2015.
Provedor de dados: 5
Autores: Siano, Raffaele; Delmas, Daniel; Lampert, Luis.
Tipo: Text
Palavras-chave: Phytoplancton; Pigments; Indice composition; Diversité pigmentaire; Metabarcoding; Picoplancton; Mamiellophyceae; Chlb; Golfe de Gascogne; Panache de la Gironde; Phytoplankton; Pigments; Composition index; Pigment diversity; Metabarcoding; Picoplankton; Mamiellophyceae; Chlb; Gulf of Biscay; River Gironde plume.
Ano: 2015
URL: http://archimer.ifremer.fr/doc/00361/47263/47228.pdf

The Bay of Brest (France), a new risky site for toxic Alexandrium minutum blooms and PSP shellfish contamination
Provedor de dados: 5
Autores: Chapelle, Annie; Le Gac, Mickael; Labry, Claire; Siano, Raffaele; Quere, Julien; Caradec, Florian; Le Bec, Claude; Nezan, Elisabeth; Doner, Anne; Gouriou, Jeremie.
Tipo: Text
Ano: 2015
URL: http://archimer.ifremer.fr/doc/00278/38921/37461.pdf

Étude sur la prolifération de la micro algue Alexandrium minutum en rade de Brest
Provedor de dados: 5
Autores: Chapelle, Annie; Le Bec, Claude; Amzil, Zouher; Dreanno, Catherine; Guillou, Laure; Klouch, Khadidja; Labry, Claire; Le Gac, Mickael; Pineau-guillou, Lucia; Siano, Raffaele; Abernot, Chantal; Andrieux, Francoise; Caradec, Florian; Destombe, Christophe; Dia, A.; Doner, Anne; Duval, Julia; Gouriou, Jeremie; Lazure, Pascal; Le Brun, Luc; Le Gal, Dominique; Malestroit, Pascale; Petton, Sebastien; Plus, Martin; Quere, Julien; Savar, Veronique; Schmitt, Sophie; Terre, A.; Youenou, Agnes.
Suite à l’événement de grande ampleur d’efflorescence d’Alexandrium minutum et des toxicités associées en Rade de Brest en 2012, un projet a été élaboré avec la Région Bretagne dans le cadre du développement du port de Brest. L’Ifremer a organisé un échantillonnage dans l’estuaire de la rivière de Daoulas, zone la plus touchée en 2012, au cours des printemps-été 2013 et 2014. Un suivi de la présence d’A. minutum dans les sédiments a également été réalisé en hiver 2014. De ces suivis, des mesures réalisées au laboratoire à ce jour, des simulations du modèle Prévimer ainsi que des résultats du réseau Rephy et Velyger, il ressort que: * La rade de Brest peut aujourd’hui être considérée comme une zone à risque pour Alexandrium minutum. En effet, depuis 2012...
Tipo: Text
Ano: 2014
URL: http://archimer.ifremer.fr/doc/00254/36487/35029.pdf

Phenomer. Rapport d'Etude pour l'Agence de l'Eau Loire-Bretagne
Provedor de dados: 5
Autores: Curd, Amelia; Antoine, Virginie; Chapelle, Annie; Siano, Raffaele; Pilven, Sophie.
Tipo: Text
Ano: 2015
URL: http://archimer.ifremer.fr/doc/00286/39760/38253.pdf

Phenomer. Rapport d’activités de juillet 2014 à juin 2015 pour la Fondation de France
Provedor de dados: 5
Autores: Curd, Amelia; Antoine, Virginie; Chapelle, Annie; Siano, Raffaele; Pilven, Sophie.
Tipo: Text
Ano: 2015
URL: http://archimer.ifremer.fr/doc/00286/39762/38255.pdf

Innovative metabolomic workflows to study growth kinetics dinoflagellate cysts revived from modern and ancient sediments
Provedor de dados: 5
Autores: Mondeguer, Florence; Souard, Florence; Guitton, Yann; Allard, Pierre-marie; Elie, Nicolas; Sibat, Manoella; Latimier, Marie; Quere, Julien; Wolfender, Jean-luc; Siano, Raffaele; Hess, Philipp.
Aquatic ecosystems worldwide have been negatively affected by eutrophication, many of them driven by increasing nutrient inputs from untreated domestic sewage and industrial and agricultural wastewater. During their life cycle, Alexandrium minutum and Scrippsiella donghaienis can produce resistant and revivable cysts that can accumulate in the sediments of the coastal marine environment for hundreds of years. As a working hypothesis, we presumed that these two genera have preserved their adaptation to such ecosystem changes in the form of cysts in the old sediments. From revivified cysts, some cultures of toxic and non-toxic dinoflagellates (A. minutum and S. donghaienis) were analyzed by a metabolomic approach to study the possible adaptive responses of...
Tipo: Text
Ano: 2018
URL: https://archimer.ifremer.fr/doc/00464/57591/59769.pdf

Human-induced river runoff overlapping natural climate variability over the last 150 years: Palynological evidence (Bay of Brest, NW France)
Provedor de dados: 5
Autores: Lambert, Clement; Penaud, Aurelie; Vidal, Muriel; Klouch, Khadidja; Gregoire, Gwendoline; Ehrhold, Axel; Eynaud, Frederique; Schmidt, Sabine; Ragueneau, Olivier; Siano, Raffaele.
For the first time a very high resolution palynological study (mean resolution of 1 to 5 years) was carried out over the last 150 years in a French estuarine environment (Bay of Brest; NW France), allowing direct comparison between the evolution of landscapes, surface water, and human practices on Bay of Brest watersheds, through continental (especially pollen grains) and marine (phytoplanktonic microalgae: cysts of dinoflagellates or dinocysts) microfossils. Thanks to the small size of the watersheds and the close proximity of the depositional environment to the mainland, the Bay of Brest represents an ideal case study for palynological investigations. Palynological data were then compared to published palaeo-genetic analyses conducted on the same core...
Tipo: Text
Palavras-chave: Pollen grains; Dinoflagellate cysts; Estuarine dynamics; River runoff; Climate variability.
Ano: 2018
URL: https://archimer.ifremer.fr/doc/00410/52110/52813.pdf

Species specific gene expression dynamics during harmful algal blooms
Provedor de dados: 5
Autores: Metegnier, Gabriel; Paulino, Sauvann; Ramond, Pierre; Siano, Raffaele; Sourisseau, Marc; Destombe, Christophe; Le Gac, Mickael.
Harmful algal blooms are caused by specific members of microbial communities. Understanding the dynamics of these events requires comparing the strategies developed by the problematic species to cope with environmental fluctuations to the ones developed by the other members of the community. During three consecutive years, the meta-transcriptome of micro-eukaryote communities was sequenced during blooms of the toxic dinoflagellate Alexandrium minutum. The dataset was analyzed to investigate species specific gene expression dynamics. Major shifts in gene expression were explained by the succession of different species within the community. Although expression patterns were strongly correlated with fluctuation of the abiotic environment, and more...
Tipo: Text
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00622/73390/72602.pdf

Diversity of cultured photosynthetic flagellates in the northeast Pacific and Arctic Oceans in summer
Provedor de dados: 5
Autores: Balzano, S.; Gourvil, P.; Siano, Raffaele; Chanoine, M.; Marie, D.; Lessard, S.; Sarno, D.; Vaulot, Daniel.
During the MALINA cruise (summer 2009), an extensive effort was undertaken to isolate phytoplankton strains from the northeast (NE) Pacific Ocean, the Bering Strait, the Chukchi Sea, and the Beaufort Sea. In order to characterise the main photosynthetic microorganisms occurring in the Arctic during the summer season, strains were isolated by flow cytometry sorting (FCS) and single cell pipetting before or after phytoplankton enrichment of seawater samples. Strains were isolated both onboard and back in the laboratory and cultured at 4 °C under light/dark conditions. Overall, we isolated and characterised by light microscopy and 18 S rRNA gene sequencing 104 strains of photosynthetic flagellates which grouped into 21 genotypes (defined by 99.5% 18 S rRNA...
Tipo: Text
Ano: 2012
URL: http://archimer.ifremer.fr/doc/00114/22491/20172.pdf

A new potentially toxic Azadinium species (Dinophyceae) from the Mediterranean Sea, A. dexteroporum sp. nov.
Provedor de dados: 5
Autores: Percopo, Isabella; Siano, Raffaele; Rossi, Rachele; Soprano, Vittorio; Sarno, Diana; Zingone, Adriana.
A new photosynthetic planktonic marine dinoflagellate, Azadinium dexteroporum sp. nov., is described from the Gulf of Naples (South Tyrrhenian Sea, Mediterranean Sea). The plate formula of the species, Po, cp, X, 4, 3a, 6, 6C, 5?S, 6'" and 2, is typical for this recently described genus. Azadinium dexteroporum is the smallest rep-resentative of the genus (8.5m average length, 6.2m average width) and shares the presence of a small antapical spine with the type species A.spinosum and with A.polongum. However, it differs from all other Azadinium species for the markedly asymmetrical Po plate and the position of the ventral pore, which is located at the right posterior end of the Po plate. Another peculiarity of A.dexteroporum is the pronounced concavity of...
Tipo: Text
Palavras-chave: Azadinium; Azaspiracid; Dinoflagellate; LC; MS-TOF; LTER-MC; Mediterranean Sea; Phylogeny; Taxonomy.
Ano: 2013
URL: http://archimer.ifremer.fr/doc/00171/28199/27278.pdf

PHENOMER: Better knowledge of HAB with the help of citizen observations
Provedor de dados: 5
Autores: Curd, Amelia; Chapelle, Annie; Siano, Raffaele.
Tipo: Text
Ano: 2014
URL: http://archimer.ifremer.fr/doc/00213/32415/30888.pdf

Étude sur la prolifération de la micro algue Alexandrium minutum en rade de Brest. Projet Daoulex. Rapport d’avancement n° 2 : Analyse des traces biologiques d’Alexandrium minutum dans les sédiments de la Rade de Brest.
Provedor de dados: 5
Autores: Chapelle, Annie; Le Bec, Claude; Siano, Raffaele; Caradec, Florian; Andrieux, Francoise.
Suite à l’efflorescence de grande ampleur d’Alexandrium minutum et des événements toxiques associés en Rade de Brest en 2012, un projet a été monté avec la Région dans le cadre du développement du port de Brest, pour élucider les contrôles de cette efflorescence. De juillet à août 2013, l’Ifremer a organisé un échantillonnage serré dans l’estuaire de Daoulas, zone la plus touchée en 2012 (rapport d’avancement n°1). Une autre partie de ce projet vise à la détection (rapport d’avancement n°2) et à la quantification (rapport d’avancement n°3) des traces biologiques d’A. minutum dans les sédiments de surface en différentes stations de la Rade de Brest présentant des caractéristiques sédimentaires différentes. Pour la détection des traces biologiques (ADN...
Tipo: Text
Ano: 2014
URL: http://archimer.ifremer.fr/doc/00191/30231/28647.pdf

Variable inter and intraspecies alkaline phosphatase activity within single cells of revived dinoflagellates
Provedor de dados: 5
Autores: Girault, Mathias; Siano, Raffaele; Labry, Claire; Latimier, Marie; Jauzein, Cecile; Beneyton, Thomas; Buisson, Lionel; Del Amo, Yolanda; Baret, Jean-christophe.
Adaptation of cell populations to environmental changes is mediated by phenotypic variability at the single-cell level. Enzyme activity is a key factor in cell phenotype and the expression of the alkaline phosphatase activity (APA) is a fundamental phytoplankton strategy for maintaining growth under phosphate-limited conditions. Our aim was to compare the APA among cells and species revived from sediments of the Bay of Brest (Brittany, France), corresponding to a pre-eutrophication period (1940’s) and a beginning of a post-eutrophication period (1990’s) during which phosphate concentrations have undergone substantial variations. Both toxic marine dinoflagellate Alexandrium minutum and the non-toxic dinoflagellate Scrippsiella acuminata were revived from...
Tipo: Text
Palavras-chave: Climate-change ecology; Microbial ecology.
Ano: 2021
URL: https://archimer.ifremer.fr/doc/00679/79097/81568.pdf

Acquisition de données complémentaires aux dénombrements, avec les techniques d’analyses pigmentaires et de diversité génétique. Etat d’avancement et premiers résultats. Action Indice Composition. Livrable n° AIV. Rapport final, 16 juillet 2014.
Provedor de dados: 5
Autores: Delmas, Daniel; Siano, Raffaele.
Studies on phytoplankton community diversity cannot be limited microphytoplankton (cells&gt;20 ìm), it is indeed necessary to take into account also the nano (3-20ìm) picophytoplankton (&lt;3 ìm) components. In the frame of this work aimed at studying temporal phytoplankton community diversity two complementary methodologies of phytoplankton sample analysis, pigment and genetic (metarbarcoding) diversity, have been used as alternative to routine morphological analysis carried out at light microscopy. The REPHY station (047-P-016 Concarneau Large) off-shore the Concarneau Bay has been sampled during the annual highest phytoplankton production (March-July 2012) with a frequent sample interval strategy (twice per week). Results obtained by both pigment and...
Tipo: Text
Palavras-chave: Phytoplancton; Structure de taille; Picophytoplancton; Nanophytoplancton; Microphytoplancton; Diversité génétique; Metabarcoding; Taxonomie pigmentaire; Façade atlantique; Baie de Concarneau; Phytoplankton; Size classes; Picophytoplankton; Nanophytoplankton; Microphytoplankton; Genetic diversity; Metabarcoding; Pigment taxonomy; Atlantic coasts; Concarneau Bay.
Ano: 2014
URL: http://archimer.ifremer.fr/doc/00361/47260/47225.pdf

Historical records from dated sediment cores reveal the multidecadal dynamic of the toxic dinoflagellate     Alexandrium minutum     in the Bay of Brest (France)
Provedor de dados: 5
Autores: Klouch, Khadidja; Schmidt, Sabine; Andrieux-loyer, Francoise; Le Gac, Mickael; Hervio-heath, Dominique; Qui-minet, Zujaila Nohemi; Quere, Julien; Bigeard, Estelle; Guillou, Laure; Siano, Raffaele.
The multiannual dynamic of the cyst-forming and toxic marine dinoflagellate Alexandrium minutum was studied over a time scale of about 150 years by a paleoecological approach based on ancient DNA (aDNA) quantification and cyst revivification data obtained from two dated sediment cores of the Bay of Brest (Brittany, France). The first genetic traces of the species presence in the study area dated back to 1873 ± 6. Specific aDNA could be quantified by a newly-developed real-time PCR assay in the upper core layers, in which the germination of the species (in up to 17–19 year-old sediments) was also obtained. In both cores studied, our quantitative paleogenetic data showed a statistically significant increasing trend in the abundance of A. minutum ITS1 rDNA...
Tipo: Text
Palavras-chave: Paleoecology; Ancient DNA; Real-time PCR; Harmful algal blooms (HAB); Dinoflagellates; Coastal ecology.
Ano: 2016
URL: http://archimer.ifremer.fr/doc/00334/44516/44212.pdf

Eukaryotic plankton diversity in the sunlit ocean
Provedor de dados: 5
Autores: De Vargas, Colomban; Audic, Stephane; Henry, Nicolas; Decelle, Johan; Mahe, Frederic; Logares, Ramiro; Lara, Enrique; Berney, Cedric; Le Bescot, Noan; Probert, Ian; Carmichael, Margaux; Poulain, Julie; Romac, Sarah; Colin, Sebastien; Aury, Jean-marc; Bittner, Lucie; Chaffron, Samuel; Dunthorn, Micah; Engelen, Stefan; Flegontova, Olga; Guidi, Lionel; Horak, Ales; Jaillon, Olivier; Lima-mendez, Gipsi; Lukes, Julius; Malviya, Shruti; Morard, Raphael; Mulot, Matthieu; Scalco, Eleonora; Siano, Raffaele; Vincent, Flora; Zingone, Adriana; Dimier, Celine; Picheral, Marc; Searson, Sarah; Kandels-lewis, Stefanie; Acinas, Silvia G.; Bork, Peer; Bowler, Chris; Gorsky, Gabriel; Grimsley, Nigel; Hingamp, Pascal; Iudicone, Daniele; Not, Fabrice; Ogata, Hiroyuki; Pesant, Stephane; Raes, Jeroen; Sieracki, Michael E.; Speich, Sabrina; Stemmann, Lars; Sunagawa, Shinichi; Weissenbach, Jean; Wincker, Patrick; Karsenti, Eric.
Marine plankton support global biological and geochemical processes. Surveys of their biodiversity have hitherto been geographically restricted and have not accounted for the full range of plankton size. We assessed eukaryotic diversity from 334 size-fractionated photic-zone plankton communities collected across tropical and temperate oceans during the circumglobal Tara Oceans expedition. We analyzed 18S ribosomal DNA sequences across the intermediate plankton-size spectrum from the smallest unicellular eukaryotes (protists, &gt; 0.8 micrometers) to small animals of a few millimeters. Eukaryotic ribosomal diversity saturated at similar to 150,000 operational taxonomic units, about one-third of which could not be assigned to known eukaryotic groups....
Tipo: Text
Ano: 2015
URL: http://archimer.ifremer.fr/doc/00270/38135/37217.pdf

Evolutionary processes and cellular functions underlying divergence in Alexandrium minutum
Provedor de dados: 5
Autores: Le Gac, Mickael; Metegnier, Gabriel; Chomerat, Nicolas; Malestroit, Pascale; Quere, Julien; Bouchez, Olivier; Siano, Raffaele; Destombe, Christophe; Guillou, Laure; Chapelle, Annie.
Understanding divergence in the highly dispersive and seemingly homogeneous pelagic environment for organisms living as free drifters in the water column remains a challenge. Here, we analyzed the transcriptome wide mRNA sequences, as well as the morphology of 18 strains of Alexandrium minutum, a dinoflagellate responsible for Harmful Algal Blooms worldwide, to investigate the functional bases of a divergence event. Analysis of the joint site frequency spectrum (JSFS) pointed toward an ancestral divergence in complete isolations followed by a secondary contact resulting in gene flow between the two diverging groups, but heterogeneous across sites. The sites displaying fixed SNPs were associated with a highly restricted gene flow and a strong...
Tipo: Text
Palavras-chave: Dinoflagellates; Harmful algal blooms; Populations Genomics; Pseudocryptic species; Speciation.
Ano: 2016
URL: http://archimer.ifremer.fr/doc/00347/45857/45529.pdf

Bacteria enhance the production of extracellular polymeric substances by the green dinoflagellate Lepidodinium chlorophorum
Provedor de dados: 5
Autores: Roux, Pauline; Siano, Raffaele; Collin, Karine; Bilien, Gwenael; Sinquin, Corinne; Marchand, Laetitia; Zykwinska, Agata; Delbarre-ladrat, Christine; Schapira, Mathilde.
High biomasses of the marine dinoflagellate Lepidodinium chlorophorum cause green seawater discolorations along Southern Brittany (NE Atlantic, France). The viscosity associated to these phenomena has been related to problems in oyster cultivation. The harmful effect of L. chlorophorum might originate from the secretion of Extracellular Polymeric Substances (EPS). To understand whether the EPS are produced by L. chlorophorum or its associated bacteria, or if they are a product of their interaction, batch cultures were performed under non-axenic and pseudo-axenic conditions for three strains. Maximum dinoflagellate cell abundances were observed in pseudo-axenic cultures. The non-sinking fraction of polymers (Soluble Extracellular Polymers, SEP), mainly...
Tipo: Text
Ano: 2021
URL: https://archimer.ifremer.fr/doc/00682/79403/81948.pdf

The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy
Provedor de dados: 5
Autores: Guillou, Laure; Bachar, Dipankar; Audic, S; Bass, David; Berney, Cedric; Bittner, Lucie; Boutte, Christophe; Burgaud, Gaetan; De Vargas, Colomban; Decelle, Johan; Del Campo, Javier; Dolan, John R.; Dunthorn, Micah; Edvardsen, Bente; Holzmann, Maria; Kooistra, Wiebe H. C. F.; Lara, Enrique; Le Bescot, Noan; Logares, Ramiro; Mahe, F; Massana, Ramon; Montresor, Marina; Morard, Raphael; Not, Fabrice; Pawlowski, Jan; Probert, Ian; Sauvadet, Anne-laure; Siano, Raffaele; Stoeck, Thorsten; Vaulot, Daniel; Zimmermann, Pascal; Christen, Richard.
The interrogation of genetic markers in environmental meta-barcoding studies is currently seriously hindered by the lack of taxonomically curated reference data sets for the targeted genes. The Protist Ribosomal Reference database (PR2, http://ssurrna. org/) provides a unique access to eukaryotic small sub-unit (SSU) ribosomal RNA and DNA sequences, with curated taxonomy. The database mainly consists of nuclear-encoded protistan sequences. However, metazoans, land plants, macrosporic fungi and eukaryotic organelles (mitochondrion, plastid and others) are also included because they are useful for the analysis of hightroughput sequencing data sets. Introns and putative chimeric sequences have been also carefully checked. Taxonomic assignation of sequences...
Tipo: Text
Ano: 2013
URL: http://archimer.ifremer.fr/doc/00114/22492/20174.pdf

First insight on metabolomics workflows and differences between dinoflagellate: characterization and discrimination of modern and ancient strains and their algal growth
Provedor de dados: 5
Autores: Mondeguer, Florence; Souard, Florence; Guitton, Yann; Latimier, Marie; Quere, Julien; Sibat, Manoella; Hess, Philipp; Siano, Raffaele.
Aquatic ecosystems worldwide have been negatively affected by eutrophication, many of them driven by increasing nutrient inputs from untreated domestic sewage and industrial and agricultural wastewater. During their life cycle, Alexandrium minutum and Scrippsiella donghaienis can produce resistant and revivable cysts that can accumulate in the sediments of the coastal marine environment for hundreds of years. As a working hypothesis, we presumed that these two genera have preserved their adaptation to such ecosystem changes in the form of cysts in the old sediments. From revivified cysts, some cultures of toxic and non-toxic dinoflagellates (A. minutum and S. donghaienis) were analyzed by a untargeted metabolomics approach by LC-HRMS to study the possible...
Tipo: Text
Ano: 2018
URL: https://archimer.ifremer.fr/doc/00440/55199/56664.pdf

SEARSÉ (volet 1) Signature des eaux des rivières et des estuaires dans le sud-ouest de la Nouvelle-Calédonie
Provedor de dados: 5
Autores: Lemonnier, Hugues; Royer, Florence; Lopez, Etienne; Berne, Stéphanie; Boher, Laura; Coignot, Elise; Desnues, Anne; Dupouy, Cécile; Helly, Maëlle; Gérard, Philippe; Gunkel-grillon, Peggy; Jamet, Léocadie; Lemestre, Monica; Liufau, Félise; Siano, Raffaele; Soulard, Benoit.
De par des mutations économiques, démographiques et sociétales, que connaît à ce jour la Nouvelle-Calédonie, des pressions anthropiques ne cessent de croître sur les milieux littoraux et côtiers. Les rivières sont d’importants vecteurs de transport de sédiments et d’éléments dissous. Ces apports, s’ils sont essentiels pour le fonctionnement des écosystèmes côtiers, peuvent être néfastes en cas d’excès (sels nutritifs, métaux et autres contaminants). Le projet SEARSE a pour objectifs de qualifier et de quantifier les apports des rivières et suivre leur devenir dans les panaches dans le lagon autour du grand Nouméa.
Tipo: Text
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00630/74207/73835.pdf

Morphological and genetic diversity of Beaufort Sea diatoms with high contributions from the     Chaetoceros neogracilis     species complex
Provedor de dados: 5
Autores: Balzano, Sergio; Percopo, Isabella; Siano, Raffaele; Gourvil, Priscillia; Chanoine, Melanie; Marie, Dominique; Vaulot, Daniel; Sarno, Diana.
Seventy-five diatoms strains isolated from the Beaufort Sea (Canadian Arctic) in the summer of 2009 were characterized by light and electron microscopy (SEM and TEM) as well as 18S and 28S rRNA gene sequencing. These strains group into 20 genotypes and 17 morphotypes and are affiliated with the genera Arcocellulus, Attheya, Chaetoceros, Cylindrotheca, Eucampia, Nitzschia, Porosira, Pseudo-nitzschia, Shionodiscus, Thalassiosira, Synedropsis. Most of the species have a distribution confined to the northern/polar area. Chaetoceros neogracilis and Chaetoceros gelidus were the most represented taxa. Strains of C. neogracilis were morphologically similar and shared identical 18S rRNA gene sequences, but belonged to four distinct genetic clades based on 28S rRNA,...
Tipo: Text
Palavras-chave: Biogeography; ITS; ITS2 secondary structure; LSU; Morphology; Phylogeny; Polar diatoms; SSU.
Ano: 2017
URL: http://archimer.ifremer.fr/doc/00356/46718/46584.pdf

Patterns of Rare and Abundant Marine Microbial Eukaryotes
Provedor de dados: 5
Autores: Logares, Ramiro; Audic, Stephane; Bass, David; Bittner, Lucie; Boutte, Christophe; Christen, Richard; Claverie, Jean-michel; Decelle, Johan; Dolan, John R.; Dunthorn, Micah; Edvardsen, Bente; Gobet, Angelique; Kooistra, Wiebe H. C. F.; Mahe, Frederic; Not, Fabrice; Ogata, Hiroyuki; Pawlowski, Jan; Pernice, Massimo C.; Romac, Sarah; Shalchian-tabrizi, Kamran; Simon, Nathalie; Stoeck, Thorsten; Santini, Sebastien; Siano, Raffaele; Wincker, Patrick; Zingone, Adriana; Richards, Thomas A.; De Vargas, Colomban; Massana, Ramon.
Background  Biological communities are normally composed of a few abundant and many rare species. This pattern is particularly prominent in microbial communities, in which most constituent taxa are usually extremely rare. Although abundant and rare subcommunities may present intrinsic characteristics that could be crucial for understanding community dynamics and ecosystem functioning, microbiologists normally do not differentiate between them. Here, we investigate abundant and rare subcommunities of marine microbial eukaryotes, a crucial group of organisms that remains among the least-explored biodiversity components of the biosphere. We surveyed surface waters of six separate coastal locations in Europe, independently considering the picoplankton,...
Tipo: Text
Ano: 2014
URL: http://archimer.ifremer.fr/doc/00186/29683/28098.pdf

Multiple microalgal partners in symbiosis with the acantharian Acanthochiasma sp. (Radiolaria)
Provedor de dados: 5
Autores: Decelle, Johan; Siano, Raffaele; Probert, Ian; Poirier, Camille; Not, Fabrice.
Acantharia (Radiolaria) are widespread and abundant heterotrophic marine protists, some of which can host endosymbiotic eukaryotic microalgae. Although this photosymbiotic association was first described at the end of the 19th century, the diversity of the symbiotic microalgae remains poorly characterized. Here, we examined the identity of the microalgae associated with the acantharian species Acanthochiasma sp. by sequencing partial 18S and internal transcribed spacer (ITS) ribosomal DNA genes from cultured symbionts and directly from isolated holobiont specimens. Single Acanthochiasma cells contained multiple symbiotic partners, including distantly related dinoflagellates (Heterocapsa sp., Pelagodinium sp., Azadinium sp. and Scrippsiella sp.) as well as...
Tipo: Text
Palavras-chave: Photosymbiosis; Radiolaria; Acantharia; Protists; Microalgae; Plankton.
Ano: 2012
URL: http://archimer.ifremer.fr/doc/00114/22493/21497.pdf

Phytoplankton taxonomic and functional diversity patterns across a coastal tidal front
Provedor de dados: 5
Autores: Ramond, Pierre; Siano, Raffaele; Schmitt, Sophie; De Vargas, Colomban; Marié, Louis; Memery, Laurent; Sourisseau, Marc.
Oceanic physics at fine scale; e.g. eddies, fronts, filaments; are notoriously difficult to sample. However, an increasing number of theoretical approaches hypothesize that these processes affect phytoplankton diversity which have cascading effects on regional ecosystems. In 2015, we targeted the Iroise Sea (France) and evidenced the setting up of the Ushant tidal front from the beginning of spring to late summer. Seawater samples were taken during three sampling cruises and DNA-barcoding allowed us to investigate patterns of eukaryotic phytoplankton diversity across this front. First focusing on patterns of taxonomic richness, we evidenced that the front harbored a hotspot of eukaryotic phytoplankton diversity sustained throughout summer. We then detail...
Tipo: Text
Ano: 2021
URL: https://archimer.ifremer.fr/doc/00677/78933/81307.pdf

Phenomer. Rapport d’activités de juillet 2015 à septembre 2016 pour la Fondation de France
Provedor de dados: 5
Autores: Curd, Amelia; Siano, Raffaele; Chapelle, Annie; Pilven, Sophie.
Tipo: Text
Ano: 2016
URL: http://archimer.ifremer.fr/doc/00356/46694/46556.pdf

The importance and distinctiveness of small-sized phytoplankton in the Magellan Straits
Provedor de dados: 5
Autores: Zingone, Adriana; Sarno, Diana; Siano, Raffaele; Marino, Donato.
The distribution of summer phytoplankton across the Straits of Magellan (SOM) was studied with the aims of tracing differences among the distinct subregions of the area and contributing to the knowledge of its biodiversity. Samples collected at 25 stations were observed and counted in light microscopy. Selected samples were observed with transmission electron microscopy. The main unifying feature of the phytoplankton in the SOM was the high abundance and numerical dominance of small-sized (&lt;10 μm) eukaryotic species, among which coccoid cells of &lt;3 μm size were predominant (56.2 ± 30.6 of the total phytoplankton abundance). They mostly belonged to the prasinophyte Pycnococcus provasolii, which was abundant (0.8–6,834 cells × 103 ml−1) at all stations...
Tipo: Text
Palavras-chave: Lennoxia faveolata; Periantarctic areas; Picoeukaryotes; Pycnococcus provasolii; Size structure.
Ano: 2011
URL: http://archimer.ifremer.fr/doc/00026/13722/10828.pdf

Phytoplankton diversity during the spring bloom in the northwestern Mediterranean Sea
Provedor de dados: 5
Autores: Percopo, Isabella; Siano, Raffaele; Cerino, Federica; Sarno, Diana; Zingone, Adriana.
The section of the Liguro-Provencal basin north of the Balearic Islands is one of the most productive sites in the whole Mediterranean Sea, with intense phytoplankton bloom lasting about 2 months in late winter-early spring. The phytoplankton species composition of the area was investigated using light and electron microscopy to analyze bottle and net samples collected at several stations in spring 2000 and 2003. Serial dilution cultures established from bottle samples were also examined. A total of 168 phytoplankton taxa was identified, consisting of 73 Coscinodiscophyceae, 47 Dinophyceae, 25 Coccolithophyceae and 4 Prymnesiophyceae, 5 Prasinophyceae, 3 Chrysophyceae, 2 Cryptophyceae, 2 Dictyochophyceae, 1 Euglenophyceae, 1 Pelagophyceae, 1...
Tipo: Text
Palavras-chave: Check-list; Diversity; NW Mediterranean Sea; Phytoplankton; Serial dilution cultures.
Ano: 2011
URL: http://archimer.ifremer.fr/doc/00038/14916/12245.pdf

Sélection de workflows adaptés à une analyse métabolomique plus transparente et intégrative
Provedor de dados: 5
Autores: Mondeguer, Florence; Allard, Pierre-marie; Souard, Florence; Elie, Nicolas; Guitton, Yann; Sibat, Manoella; Siano, Raffaele.
During their life cycle, Alexandrium minutum and Scrippsiella donghaienis can produce resistant and revivable cysts that can accumulate in marine sediments for hundreds of years. Our working hypothesis assumes that these two genera have "recorded" their adaptation to ecosystem changes in these cells preserved in the form of cysts. From these revived cysts, toxic and non-toxic dinoflagellate cultures (Alexandrium minutum and Scrippsiella donghaienis) were analyzed by a metabolomic approach to investigate the possible adaptive responses of phytoplankton to these changes in coastal ecosystems. The strains were obtained from isotopically dated sediments, 1986 and 1996 for "ancient" and 2006 for "modern". In total, 84 samples were obtained. Each experimental...
Tipo: Text
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00498/60941/64339.pdf

Dinoflagellate fossils: Geological and biological applications
Provedor de dados: 5
Autores: Penaud, Aurelie; Hardy, William; Lambert, Clement; Marret, Fabienne; Masure, Edwige; Seryais, Thomas; Siano, Raffaele; Wary, Melanie; Mertens, Kenneth.
Dinoflagellates are part of the marine plankton and about 200 species produce a cyst (dinocyst) during their life cycle, these organic-walled sexually-produced cysts being fossilizable in sediments for hundreds of millions of years. Over the past 40–50 years, dinocysts have led to major advances on Mesozoic-Cenozoic research, in terms of biostratigraphy and paleogeogeography. Dinocyst taxonomy has then been continuously revised, with the tabulation being the main morphological link between living dinoflagellates and fossilized cysts. Over the Quaternary, and based on the principle of uniformitarianism (i.e. species ecology did not change through time), relationships between modern assemblages and present-day environmental factors controlling their...
Tipo: Text
Palavras-chave: Dinoflagellate; Cyst-motile stage relationship; Modern dinocyst distribution; Paleoecology; Biostratigraphy; Ancient DNA.
Ano: 2018
URL: https://archimer.ifremer.fr/doc/00463/57476/59749.pdf

Cryptic species in the parasitic Amoebophrya species complex revealed by a polyphasic approach
Provedor de dados: 5
Autores: Cai, Ruibo; Kayal, Ehsan; Alves-de-souza, Catharina; Bigeard, Estelle; Corre, Erwan; Jeanthon, Christian; Marie, Dominique; Porcel, Betina M.; Siano, Raffaele; Szymczak, Jeremy; Wolf, Matthias; Guillou, Laure.
As critical primary producers and recyclers of organic matter, the diversity of marine protists has been extensively explored by high-throughput barcode sequencing. However, classification of short metabarcoding sequences into traditional taxonomic units is not trivial, especially for lineages mainly known by their genetic fingerprints. This is the case for the widespread Amoebophrya ceratii species complex, parasites of their dinoflagellate congeners. We used genetic and phenotypic characters, applied to 119 Amoebophrya individuals sampled from the same geographic area, to construct practical guidelines for species delineation that could be applied in DNA/RNA based diversity analyses. Based on the internal transcribed spacer (ITS) regions, ITS2...
Tipo: Text
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00609/72156/70916.pdf

Coupling between taxonomic and functional diversity in protistan coastal communities
Provedor de dados: 5
Autores: Ramond, Pierre; Sourisseau, Marc; Simon, Nathalie; Romac, Sarah; Schmitt, Sophie; Rigaut-jalabert, Fabienne; Henry, Nicolas; De Vargas, Colomban; Siano, Raffaele.
The study of protistan functional diversity is crucial to understand the dynamics of oceanic ecological processes. We combined the metabarcoding data of various coastal ecosystems and a newly developed trait‐based approach to study the link between taxonomic and functional diversity across marine protistan communities of different size‐classes. Environmental DNA was extracted and the V4 18S rDNA genomic region was amplified and sequenced. In parallel, we tried to annotate the Operational Taxonomic Units (OTUs) from our metabarcoding dataset to 30 biological traits using published and accessible information on protists. We then developed a method to study trait correlations across protists (i.e. trade‐offs) in order to build the best functional groups....
Tipo: Text
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00478/58964/61554.pdf

Définition d’un indice composition pour le phytoplancton en Manche- Atlantique, à partir des données du micro-phytoplancton du REPHY et des réseaux régionaux, et des mesures complémentaires de la flore phytoplanctonique acquises avec des techniques novatrices. Action 3 – Livrable 1. Propositions pour un indice de composition du phytoplancton, basé sur les résultats des méthodes microscopie, pigments et diversité génétique. Rapport final, février 2016
Provedor de dados: 5
Autores: Hernandez Farinas, Tania; Brun, Melanie; Siano, Raffaele; Delmas, Daniel.
This deliverable is composed of two reports which propose indice of phytoplankton composition, based respectively on the results of pigment and genetic diversity methods, and the results of microscopy method. Proposals based on the results of pigment and genetic diversity methods. The present work is a continuation of several studies carried out in the past (Siano and Delmas, 2013, 2015) on investigating an indicator of phytoplankton diversity using two methods complementary to optical microscopy: the genetic diversity analyzed with metabarcoding (exhaustive analysis of the diversity and relative abundance of OTUs, i.e. groups of sequences identified by their genetic resemblance) and the pigmentary diversity (analysis of the diversity and abundance of...
Tipo: Text
Palavras-chave: Metabarcoding; OTUs; Pigments; Picophytoplancton; Indice composition; Niche ecologique; Mamiellophyceae; Chlorophylle b; Rade de Brest; Bretagne sud; Panache de la Gironde; Denombrements du micro-phytoplancton; Abondance totale; Monotonicite; Linearite; Pressions; Facade Manche-Atlantique; Metabarcoding; OTUs; Pigments; Picophytoplankton; Composition indice; Ecological niche; Mamiellophyceae; Chlorophyll b; Brest Bay; Southern Britain; Gironde plume; Micro-phytoplankton counts; Total abundance; Monotonicity; Linearity; Pressure; Channel-Atlantic coast.
Ano: 2016
URL: http://archimer.ifremer.fr/doc/00363/47421/47426.pdf

Novel Widespread Marine Oomycetes Parasitising Diatoms, Including the Toxic Genus Pseudo-nitzschia: Genetic, Morphological, and Ecological Characterisation
Provedor de dados: 5
Autores: Garvette, Andrea; Nezan, Elisabeth; Badis, Yacine; Bilien, Gwenael; Arce, Paola; Bresnan, Eileen; Gachon, Claire M. M.; Siano, Raffaele.
Parasites are key drivers of phytoplankton bloom dynamics and related aquatic ecosystem processes. Yet, the dearth of morphological and molecular information hinders the assessment of their diversity and ecological role. Using single-cell techniques, we characterise morphologically and molecularly, intracellular parasitoids infecting four potentially toxin-producing Pseudo-nitzschia and one Melosira species on the North Atlantic coast. These sequences define two, morphologically indistinguishable clades within the phylum Oomycota, related to the genera of algal parasites Anisolpidium and Olpidiopsis and the diatom parasitoid species Miracula helgolandica. Our morphological data are insufficient to attribute either clade to the still unsequenced genus...
Tipo: Text
Palavras-chave: Pseudo-nitzschia; Diatoms; Marine oomycetes; Plankton parasites; Single-cell analysis; Metabarcoding.
Ano: 2018
URL: https://archimer.ifremer.fr/doc/00470/58135/60593.pdf

Distribution and host diversity of Amoebophryidae parasites across oligotrophic waters of the Mediterranean Sea
Provedor de dados: 5
Autores: Siano, Raffaele; Alves-de-souza, C.; Foulon, E.; Bendif, El Mahdi; Simon, N.; Guillou, L.; Not, F.
Sequences affiliated to Syndiniales (Marine alveolate, MALV) regularly dominate 18S rDNA genetic libraries of nearly all marine ecosystems investigated so far. Among them, Amoebophryidae (MALV group II) is composed of numerous and genetically distant environmental sequences, where Amoebophrya is the only known and formally described genus. Amoebophrya species include virulent pathogens for a wide range of dinoflagellate species. Beside their regular occurrence in marine ecosystems, their quantitative distribution and the environmental factors triggering host infection have barely been studied in open oligotrophic waters. In order to understand the functional role of these parasites in natural environments, we studied the distribution and contribution to...
Tipo: Text
Ano: 2011
URL: http://archimer.ifremer.fr/doc/00026/13719/10824.pdf

Benthic protists: the under-charted majority
Provedor de dados: 5
Autores: Forster, Dominik; Dunthorn, Micah; Mahe, Frederic; Dolan, John R.; Audic, Stephane; Bass, David; Bittner, Lucie; Boutte, Christophe; Christen, Richard; Claverie, Jean-michel; Decelle, Johan; Edvardsen, Bente; Egge, Elianne; Eikrem, Wenche; Gobet, Angelique; Kooistra, Wiebe H. C. F.; Logares, Ramiro; Massana, Ramon; Montresor, Marina; Not, Fabrice; Ogata, Hiroyuki; Pawlowski, Jan; Pernice, Massimo C.; Romac, Sarah; Shalchian-tabrizi, Kamran; Simon, Nathalie; Richards, Thomas A.; Santini, Sebastien; Sarno, Diana; Siano, Raffaele; Vaulot, Daniel; Wincker, Patrick; Zingone, Adriana; De Vargas, Colomban; Stoeck, Thorsten.
Marine protist diversity inventories have largely focused on planktonic environments, while benthic protists have received relatively little attention. We therefore hypothesize that current diversity surveys have only skimmed the surface of protist diversity in marine sediments, which may harbour greater diversity than planktonic environments. We tested this by analyzing sequences of the hypervariable V4 18S rRNA from benthic and planktonic protist communities sampled in European coastal regions. Despite a similar number of OTUs in both realms, richness estimations indicated that we recovered at least 70% of the diversity in planktonic protist communities, but only 33% in benthic communities. There was also little overlap of OTUs between planktonic and...
Tipo: Text
Palavras-chave: Benthic microbial communities; Coastal environments; Protist diversity; High-throughput sequencing.
Ano: 2016
URL: https://archimer.ifremer.fr/doc/00341/45233/44658.pdf

Molecular analyses of protists in long-term observation programmes—current status and future perspectives
Provedor de dados: 5
Autores: Stern, Rowena; Kraberg, Alexandra; Bresnan, Eileen; Kooistra, Wiebe H. C. F.; Lovejoy, Connie; Montresor, Marina; Moran, Xose Anxelu G.; Not, Fabrice; Salas, Rafael; Siano, Raffaele; Vaulot, Daniel; Amaral-zettler, Linda; Zingone, Adriana; Metfies, Katja.
Protists (microbial eukaryotes) are diverse, major components of marine ecosystems, and are fundamental to ecosystem services. In the last 10 years, molecular studies have highlighted substantial novel diversity in marine systems including sequences with no taxonomic context. At the same time, many known protists remain without a DNA identity. Since the majority of pelagic protists are too small to identify by light microscopy, most are neither comprehensively or regularly taken into account, particularly in Long-term Ecological Research Sites. This potentially undermines the quality of research and the accuracy of predictions about biological species shifts in a changing environment. The ICES Working Group for Phytoplankton and Microbial Ecology conducted...
Tipo: Text
Palavras-chave: Protists; Long-term Ecological Research Station; Molecular; Time-series; Questionnaire; Literature survey.
Ano: 2018
URL: https://archimer.ifremer.fr/doc/00455/56708/58470.pdf

Revival of ancient marine dinoflagellates using molecular biostimulation
Provedor de dados: 5
Autores: Delebecq, Gaspard; Schmidt, Sabine; Ehrhold, Axel; Latimier, Marie; Siano, Raffaele.
The biological processes involved in the preservation, viability, and revival of long‐term dormant dinoflagellate cysts buried in sediments remain unknown. Based on studies of plant seed physiology, we tested whether the revival of ancient cysts preserved in century‐old sediments from the Bay of Brest (France) could be stimulated by melatonin and gibberellic acid, two molecules commonly used in seed priming. Dinoflagellates were revived from sediments dated to approximately 150 years ago (156 ± 27, 32 cm depth), extending the known record age of cyst viability previously established as around one century. A culture suspension of sediments mixed with melatonin and gibberellic acid solutions as biostimulants exhibited germination of 11 dinoflagellate taxa...
Tipo: Text
Palavras-chave: Alexandrium; Cyst; Dinoflagellate; Gibberellic acid; Melatonin; Paleoecology; Priming; Scrippsiella; Resurrection ecology.
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00627/73960/73321.pdf

Marine protist diversity in European coastal waters and sediments as revealed by high-throughput sequencing
Provedor de dados: 5
Autores: Massana, Ramon; Gobet, Angelique; Audic, Stephane; Bass, David; Bittner, Lucie; Boutte, Christophe; Chambouvet, Aurelie; Christen, Richard; Claverie, Jean-michel; Decelle, Johan; Dolan, John R.; Dunthorn, Micah; Edvardsen, Bente; Forn, Irene; Forster, Dominik; Guillou, Laure; Jaillon, Olivier; Kooistra, Wiebe H. C. F.; Logares, Ramiro; Mahe, Frederic; Not, Fabrice; Ogata, Hiroyuki; Pawlowski, Jan; Pernice, Massimo C.; Probert, Ian; Romac, Sarah; Richards, Thomas; Santini, Sebastien; Shalchian-tabrizi, Kamran; Siano, Raffaele; Simon, Nathalie; Stoeck, Thorsten; Vaulot, Daniel; Zingone, Adriana; De Vargas, Colomban.
Although protists are critical components of marine ecosystems, they are still poorly characterized. Here we analysed the taxonomic diversity of planktonic and benthic protist communities collected in six distant European coastal sites. Environmental deoxyribonucleic acid (DNA) and ribonucleic acid (RNA) from three size fractions (pico-, nano- and micro/mesoplankton), as well as from dissolved DNA and surface sediments were used as templates for tag pyrosequencing of the V4 region of the 18S ribosomal DNA. Beta-diversity analyses split the protist community structure into three main clusters: picoplankton-nanoplankton-dissolved DNA, micro/mesoplankton and sediments. Within each cluster, protist communities from the same site and time clustered together,...
Tipo: Text
Ano: 2015
URL: http://archimer.ifremer.fr/doc/00275/38594/37190.pdf

Genetic diversity of the harmful family Kareniaceae (Gymnodiniales, Dinophyceae) in France, with the description of Karlodinium gentienii sp. nov.: A new potentially toxic dinoflagellate
Provedor de dados: 5
Autores: Nezan, Elisabeth; Siano, Raffaele; Boulben, Sylviane; Six, Christophe; Bilien, Gwenael; Cheze, Karine; Duval, Audrey; Le Panse, Sophie; Quere, Julien; Chomerat, Nicolas.
The family Kareniaceae is mostly known in France for recurrent blooms of Karenia mikimotoi in the Atlantic, English Channel, and Mediterranean Sea and for the unusual green discoloration in the saltwater lagoon of Diana (Corsica) caused by Karlodinium corsicum in April 1994. In terms of diversity, this taxonomic group was long overlooked owing to the difficult identification of these small unarmored dinoflagellates. In this study, thanks to the molecular characterization performed on single cells from field samples and cultures, twelve taxonomic units were assigned to the known genera Karenia, Karlodinium and Takayama, whereas one could not be affiliated to any described genus. The molecular phylogeny inferred from the D1–D2 region of the LSU rDNA showed...
Tipo: Text
Palavras-chave: Genetic diversity; Haemolytic; Kareniaceae; Pigments; Single cell; Taxonomy.
Ano: 2014
URL: http://archimer.ifremer.fr/doc/00225/33611/32310.pdf

Analysis of the genomic basis of functional diversity in dinoflagellates using a transcriptome-based sequence similarity network
Provedor de dados: 5
Autores: Meng, Arnaud; Corre, Erwan; Probert, Ian; Gutierrez-rodriguez, Andres; Siano, Raffaele; Annamale, Anita; Alberti, Adriana; Da Silva, Corinne; Wincker, Patrick; Le Crom, Stephane; Not, Fabrice; Bittner, Lucie.
Dinoflagellates are one of the most abundant and functionally diverse groups of eukaryotes. Despite an overall scarcity of genomic information for dinoflagellates, constantly emerging high-throughput sequencing resources can be used to characterize and compare these organisms. We assembled de novo and processed 46 dinoflagellate transcriptomes and used a sequence similarity network (SSN) to compare the underlying genomic basis of functional features within the group. This approach constitutes the most comprehensive picture to date of the genomic potential of dinoflagellates. A core-predicted proteome composed of 252 connected components (CCs) of putative conserved protein domains (pCDs) was identified. Of these, 206 were novel and 16 lacked any functional...
Tipo: Text
Palavras-chave: Genomics; Proteomics; Microbial biology; Molecular evolution; Protists; Transcriptomics.
Ano: 2018
URL: https://archimer.ifremer.fr/doc/00444/55550/57209.pdf