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Registros recuperados: 10
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Analysis of the genomic basis of functional diversity in dinoflagellates using a transcriptome-based sequence similarity network ArchiMer
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
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Cabra reticulata sp. nov. (Dinophyceae), a new sand-dwelling dinoflagellate from the Atlantic Ocean ArchiMer
Chomerat, Nicolas; Nezan, Elisabeth.
A new sand-dwelling dinoflagellate species, Cabra reticulata sp. nov., is described from sandy habitats in the south of Brittany (northwestern France). This new species possesses the characteristics of the 'unusual' genus, Cabra Murray et Patterson. The thecal plate formula is Po Pt 3' 1a 4'' 'x' 3c ?s 5''' 1'''' (or alternatively interpreted as Po Pt 4' 0a 4'' 'x' 3c ?s 5''' 1''''). Because of the strong lateral compression, cells of C. reticulata are frequently seen laterally and have a polygonal shape, with three prominent antapical pointed flanges and a dorsal spine in the anterior part of the hypotheca. The cingulum is ascending and incomplete. The thecal surface is ornamented with strong reticulations forming polygonal areolae, which differs from C....
Tipo: Text Palavras-chave: Taxonomy; Sand dwelling; Roscoffia; Protists; Podolampaceae; Marine; Dinophyceae; Benthic.
Ano: 2009 URL: http://archimer.ifremer.fr/doc/2009/publication-6804.pdf
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Grazing of particle-associated bacteria-an elimination of the non-viable fraction BJM
Gonsalves,Maria-Judith; Fernandes,Sheryl Oliveira; Priya,Madasamy Lakshmi; LokaBharathi,Ponnapakkam Adikesavan.
Abstract Quantification of bacteria being grazed by microzooplankton is gaining importance since they serve as energy subsidies for higher trophic levels which consequently influence fish production. Hence, grazing pressure on viable and non-viable fraction of free and particle-associated bacteria in a tropical estuary controlled mainly by protist grazers was estimated using the seawater dilution technique. In vitro incubations over a period of 42 h showed that at the end of 24 h, growth coefficient (k) of particle-associated bacteria was 9 times higher at 0.546 than that of free forms. Further, ‘k’ value of viable cells on particles was double that of free forms at 0.016 and 0.007, respectively. While bacteria associated with particles were grazed...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Bacteria; Ciliates; Grazing; Particle; Protists; Viable.
Ano: 2017 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822017000100037
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Heterotrophic protists as a trophic link between picocyanobacteria and the pearl oyster Pinctada margaritifera in the Takapoto lagoon (Tuamotu Archipelago, French Polynesia) ArchiMer
Loret, Pascale; Le Gall, Solange; Dupuy, Christine; Blanchot, Jean; Pastoureaud, Annie; Delesalle, Bruno; Caisey, Xavier; Jonquieres, Gerard.
Pearl oysters are farmed in oligotrophic tropical atoll lagoons where planktonic communities are dominated by production from cyanobacteria smaller than 2 pm. Paradoxically, the pearl oyster Pinctada margaritifera only retains particles larger than 2 Pm. In this study, we assess the relative contribution of hetero/mixotrophic microbiota to the available planktonic resource. In Takapoto Atoll, picocyanobacteria are the dominant biomass (20 mug C l(-1)). The carbon biomass of ciliates and dinoflagellates ranges from 1 to 24 and 0.5 to 5 mug C l(-1) respectively, with a mean of 6 mug C l(-1) for ciliates and 2 mug C l(-1) for dinoflagellates. The possible retention by P. margaritifera on a natural protist suspension was investigated. Due to its high clearance...
Tipo: Text Palavras-chave: Trophic resource; Picoplankton; Pinctada margaritifera; Pearl oysters; Atoll lagoon; Protists.
Ano: 2000 URL: http://archimer.ifremer.fr/doc/2000/publication-823.pdf
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Impact of the oyster Crassostrea gigas on a microbial community in Atlantic coastal ponds near La Rochelle ArchiMer
Dupuy, Christine; Pastoureaud, Annie; Ryckaert, Mireille; Sauriau, Pierre-guy; Montanie, Hélène.
To assess the in situ impact of oysters Crassostrea gigas on planktonic protist and bacteria communities and the potential contribution of protozoa to their food resource intake, the abundance and the diversity of protists and bacteria were followed in 2 Atlantic coastal ponds, with and without oysters. The protist biomass in such ponds was high, with a maximum in spring of 982 mug C l(-1) and a minimum in winter of 179 pg C l(-1). Whatever the season, the presence of oysters (20 m(-2) corresponding to an average of 23 mg dry weight m(-2)) induced a significant decrease in >5 pm protist abundance. On the contrary, planktonic organisms <5 pm, such as Chlorophyta flagellates and bacteria, developed similarly in both ponds. It can be assumed that such...
Tipo: Text Palavras-chave: Trophic link; Bacteria; Protists; Microbial food web; Coastal pond; Food source; Oysters; Bivalve.
Ano: 2000 URL: http://archimer.ifremer.fr/doc/2000/publication-822.pdf
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Methodology for Single-Cell Genetic Analysis of Planktonic Foraminifera for Studies of Protist Diversity and Evolution ArchiMer
Weiner, Agnes K. M.; Morard, Raphael; Weinkauf, Manuel F. G.; Darling, Kate F.; André, Aurore; Quillévéré, Frédéric; Ujiie, Yurika; Douady, Christophe J.; De Vargas, Colomban; Kucera, Michal.
Single-cell genetic analysis is an essential method to investigate the biodiversity and evolutionary ecology of marine protists. In protist groups that do not reproduce under laboratory conditions, this approach provides the only means to directly associate molecular sequences with cell morphology. The resulting unambiguous taxonomic identification of the DNA sequences is a prerequisite for barcoding and analyses of environmental metagenomic data. Extensive single-cell genetic studies have been carried out on planktonic foraminifera over the past 20 years to elucidate their phylogeny, cryptic diversity, biogeography, and the relationship between genetic and morphological variability. In the course of these investigations, it has become evident that genetic...
Tipo: Text Palavras-chave: Foraminifera; Protists; Single-cell genetics; Cryptic diversity; Comparability; Methods; Laboratory protocols; Standardization.
Ano: 2016 URL: https://archimer.ifremer.fr/doc/00383/49460/49938.pdf
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Molecular analyses of protists in long-term observation programmes—current status and future perspectives ArchiMer
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
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Multiple microalgal partners in symbiosis with the acantharian Acanthochiasma sp. (Radiolaria) ArchiMer
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
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Pearl Oysters Pinctada margaritifera grazing on natural plankton in Ahe atoll lagoon (Tuamotu archipelago, French Polynesia) ArchiMer
Fournier, Jonathan; Dupuy, Celie; Bouvy, Marc; Couraudon-reale, Marine; Charpy, Loic; Pouvreau, Stephane; Le Moullac, Gilles; Le Pennec, Marie-annick; Cochard, Jean-claude.
In atoll lagoons of French Polynesia, growth and reproduction of pearl oysters are mainly driven by plankton concentration. However, the actual diet of black-lip pearl oysters P. margaritifera in these lagoons is poorly known. To fill this gap, we used the flow through chamber method to measure clearance rates of P. margaritifera in Ahe atoll lagoon (Tuamotu Archipelago, French Polynesia). We found : (i) that pearl oysters cleared plankton at a rate that was positively related to plankton biovolume, (ii) that nanoflagellates were the main source of carbon for the pearl oysters, (iii) that the quantity and origin of carbon filtrated by pearl oysters was highly dependent on the concentration and composition of plankton. These results provide essential...
Tipo: Text Palavras-chave: Pinctada margaritifera; Clearance rates; French Polynesia; Phytoplankton; Protists.
Ano: 2012 URL: http://archimer.ifremer.fr/doc/00078/18888/16599.pdf
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Protists Within Corals: The Hidden Diversity ArchiMer
Clerissi, Camille; Brunet, Sebastien; Vidal-dupiol, Jeremie; Adjeroud, Mehdi; Lepage, Pierre; Guillou, Laure; Escoubas, Jean Michel; Toulza, Eve.
Previous observations suggested that microbial communities contribute to coral health and the ecological resilience of coral reefs. However, most studies of coral microbiology focused on prokaryotes and the endosymbiotic algae Symbiodinium. In contrast, knowledge concerning diversity of other protists is still lacking, possibly due to methodological constraints. As most eukaryotic DNA in coral samples was derived from hosts, protist diversity was missed in metagenome analyses. To tackle this issue, we designed blocking primers for Scleractinia sequences amplified with two primer sets that targeted variable loops of the 18S rRNA gene (18SV1V2 and 18SV4). These blocking primers were used on environmental colonies of Pocillopora damicornis sensu lato from two...
Tipo: Text Palavras-chave: Holobiont; Protists; Symbiosis; Metabarcoding; Blocking primer; Scleractinia; Pocillopora damicornis.
Ano: 2018 URL: http://archimer.ifremer.fr/doc/00457/56823/58661.pdf
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