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| Registros recuperados: 11 | |
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| Puillandre, Nicolas; Baylac, Michel; Boisselier, Marie-catherine; Cruaud, Corinne; Samadi, Sarah. |
| DNA sequences are currently used to propose primary hypotheses of species delimitation, especially when morphological variability is difficult to assess. In an integrative taxonomy framework, these hypotheses are then compared with other characters, such as morphology or geography, to produce robust species delimitations. For this purpose, the cytochrome oxidase subunit I (COI) gene has been sequenced for almost 50 specimens of the genus Benthomangelia, a deep-sea marine gastropod genus, collected in the South-West Pacific. Five genetic groups, displaying low and high genetic distances respectively within and between groups, were defined. COI hypotheses were compared with both the results obtained with the independent nuclear 28S gene and with an elliptic... |
| Tipo: Text |
Palavras-chave: 28S rRNA; COI gene; DNA taxonomy; Elliptic fourier analysis; Integrative taxonomy; Molluscs. |
| Ano: 2009 |
URL: https://archimer.ifremer.fr/doc/00206/31678/30065.pdf |
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| Pante, Eric; France, Scott C.; Couloux, Arnaud; Cruaud, Corinne; Mcfadden, Catherine S.; Samadi, Sarah; Watling, Les. |
| The diversity, ubiquity and prevalence in deep waters of the octocoral family Chrysogorgiidae Verrill, 1883 make it noteworthy as a model system to study radiation and diversification in the deep sea. Here we provide the first comprehensive phylogenetic analysis of the Chrysogorgiidae, and compare phylogeny and depth distribution. Phylogenetic relationships among 10 of 14 currently-described Chrysogorgiidae genera were inferred based on mitochondrial (mtMutS, cox1) and nuclear (18S) markers. Bathymetric distribution was estimated from multiple sources, including museum records, a literature review, and our own sampling records (985 stations, 2345 specimens). Genetic analyses suggest that the Chrysogorgiidae as currently described is a polyphyletic family.... |
| Tipo: Text |
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| Ano: 2012 |
URL: https://archimer.ifremer.fr/doc/00467/57831/60158.pdf |
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| Holford, Mande; Puillandre, Nicolas; Terryn, Yves; Cruaud, Corinne; Olivera, Baldomero; Bouchet, Philippe. |
| Toxoglossate marine gastropods, traditionally assigned to the families Conidae, Terebridae, and Turridae, are one of the most populous animal groups that use venom to capture their prey. These marine animals are generally characterized by a venom apparatus that consists of a muscular venom bulb and a tubular venom gland. The toxoglossan radula, often compared with a hypodermic needle for its use as a conduit to inject toxins into prey, is considered a major anatomical breakthrough that assisted in the successful initial radiation of these animals in the Cretaceous and early Tertiary. The pharmacological success of toxins from cone snails has made this group a star among biochemists and neuroscientists, but very little is known about toxins from the other... |
| Tipo: Text |
Palavras-chave: Life history similarities; Similar proboscis type; Morphology; Biology; Peptides; Radula. |
| Ano: 2009 |
URL: https://archimer.ifremer.fr/doc/00207/31788/30197.pdf |
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| Salazar, Guillem; Paoli, Lucas; Alberti, Adriana; Huerta-cepas, Jaime; Cuenca, Miguelangel; Field, Christopher M.; Coelho, Luis Pedro; Cruaud, Corinne; Engelen, Stefan; Gregory, Ann C.; Labadie, Karine; Marec, Claudie; Pelletier, Eric; Royo-llonch, Marta; Roux, Simon; Sánchez, Pablo; Uehara, Hideya; Zayed, Ahmed A.; Zeller, Georg; Carmichael, Margaux; Dimier, Céline; Ferland, Joannie; Kandels, Stefanie; Picheral, Marc; Pisarev, Sergey; Poulain, Julie; Acinas, Silvia G.; Babin, Marcel; Bork, Peer; Bowler, Chris; De Vargas, Colomban; Guidi, Lionel; Hingamp, Pascal; Iudicone, Daniele; Karp-boss, Lee; Karsenti, Eric; Ogata, Hiroyuki; Pesant, Stephane; Speich, Sabrina; Sullivan, Matthew B.; Wincker, Patrick; Sunagawa, Shinichi. |
| Ocean microbial communities strongly influence the biogeochemistry, food webs, and climate of our planet. Despite recent advances in understanding their taxonomic and genomic compositions, little is known about how their transcriptomes vary globally. Here, we present a dataset of 187 metatranscriptomes and 370 metagenomes from 126 globally distributed sampling stations and establish a resource of 47 million genes to study community-level transcriptomes across depth layers from pole-to-pole. We examine gene expression changes and community turnover as the underlying mechanisms shaping community transcriptomes along these axes of environmental variation and show how their individual contributions differ for multiple biogeochemically relevant processes.... |
| Tipo: Text |
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| Ano: 2019 |
URL: https://archimer.ifremer.fr/doc/00591/70339/68396.pdf |
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| Lecointre, Guillaume; Ameziane, Nadia; Boisselier, Marie-catherine; Bonillo, Celine; Busson, Frederic; Causse, Romain; Chenuil, Anne; Couloux, Arnaud; Coutanceau, Jean-pierre; Cruaud, Corinne; D'Udekem D'Acoz, Cedric; De Ridder, Chantal; Denys, Gael; Dettai, Agnes; Duhamel, Guy; Eleaume, Marc; Feral, Jean-pierre; Gallut, Cyril; Havermans, Charlotte; Held, Christoph; Hemery, Lenaig; Lautredou, Anne-claire; Martin, Patrick; Ozouf-costaz, Catherine; Pierrat, Benjamin; Pruvost, Patrice; Puillandre, Nicolas; Samadi, Sarah; Saucede, Thomas; Schubart, Christoph; David, Bruno. |
| There has been a significant body of literature on species flock definition but not so much about practical means to appraise them. We here apply the five criteria of Eastman and McCune for detecting species flocks in four taxonomic components of the benthic fauna of the Antarctic shelf: teleost fishes, crinoids (feather stars), echinoids (sea urchins) and crustacean arthropods. Practical limitations led us to prioritize the three historical criteria (endemicity, monophyly, species richness) over the two ecological ones (ecological diversity and habitat dominance). We propose a new protocol which includes an iterative fine-tuning of the monophyly and endemicity criteria in order to discover unsuspected flocks. As a result nine "full" species flocks... |
| Tipo: Text |
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| Ano: 2013 |
URL: https://archimer.ifremer.fr/doc/00296/40754/39754.pdf |
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| Martin-lescanne, Julie; Rousseau, Florence; De Reviers, Bruno; Payri, Claude; Couloux, Arnaud; Cruaud, Corinne; Le Gall, Line. |
| Molecular phylogenies inferred from rbcL sequences including 39 representative members of the Laurencia complex confirm the four genera currently recognised within the complex: Laurencia sensu stricto, Osmundea, Chondrophycus and the recently described genus Palisada. Furthermore, Palisada poiteaui was resolved as a fifth independent lineage suggesting that the complex is actually composed of five rather than four genera. Palisada poiteaui is the type species of the subgenus Yuzurua, and elevation of this subgenus to generic rank is proposed. This new genus allied strongly with Laurencia s.s. However, the other intergeneric relationships were not well supported, suggesting that rbcL sequences may not have sufficient signal to clarify infrageneric... |
| Tipo: Text |
Palavras-chave: Chondrophycus; Laurencia complex; Molecular phylogeny; Osmundea; Palisada; RbcL; Yuzurua poiteaui; Yuzurua stat; Nov. |
| Ano: 2010 |
URL: https://archimer.ifremer.fr/doc/00202/31324/29729.pdf |
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| Lorion, Julien; Duperron, Sebastien; Gros, Olivier; Cruaud, Corinne; Samadi, Sarah. |
| Bathymodiolin mussels occur at hydrothermal vents and cold seeps, where they thrive thanks to symbiotic associations with chemotrophic bacteria. Closely related genera Idas and Adipicola are associated with organic falls, ecosystems that have been suggested as potential evolutionary 'stepping stones' in the colonization of deeper and more sulphide-rich environments. Such a scenario should result from specializations to given environments from species with larger ecological niches. This study provides molecular-based evidence for the existence of two mussel species found both on sunken wood and bones. Each species specifically harbours one bacterial phylotype corresponding to thioautotrophic bacteria related to other bathymodiolin symbionts. Phylogenetic... |
| Tipo: Text |
Palavras-chave: Idas; Adipicola; Molecular taxonomy; Organic falls; Symbiosis; Thioautotrophy. |
| Ano: 2009 |
URL: https://archimer.ifremer.fr/doc/00206/31680/30056.pdf |
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| Bittner, Lucie; Halary, Sebastien; Payri, Claude; Cruaud, Corinne; De Reviers, Bruno; Lopez, Philippe; Bapteste, Eric. |
| Background: Improving knowledge of biodiversity will benefit conservation biology, enhance bioremediation studies, and could lead to new medical treatments. However there is no standard approach to estimate and to compare the diversity of different environments, or to study its past, and possibly, future evolution. Presentation of the hypothesis: We argue that there are two conditions for significant progress in the identification and quantification of biodiversity. First, integrative metagenomic studies - aiming at the simultaneous examination (or even better at the integration) of observations about the elements, functions and evolutionary processes captured by the massive sequencing of multiple markers - should be preferred over DNA barcoding projects... |
| Tipo: Text |
Palavras-chave: Microbial diversity; Species concept; Dna barcodes; Ecological perspective; Community; Functional analysis; Rhodophyta; Systematics; Fragments; Taxonomy. |
| Ano: 2010 |
URL: https://archimer.ifremer.fr/doc/00202/31321/29733.pdf |
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| Silberfeld, Thomas; Bittner, Lucie; Fernandez-garcia, Cindy; Cruaud, Corinne; Rousseau, Florence; De Reviers, Bruno; Leliaert, Frederik; Payri, Claude E.; De Clerck, Olivier. |
| The brown algal genus Padina (Dictyotales, Phaeophyceae) is distributed worldwide in tropical and temperate seas. Global species diversity and distribution ranges, however, remain largely unknown. Species-level diversity was reassessed using DNA-based, algorithmic species delineation techniques based on cox3 and rbcL sequence data from 221 specimens collected worldwide. This resulted in estimates ranging from 39 to 61 putative species (ESUs), depending on the technique as well as the locus. We discuss the merits, potential pitfalls, and evolutionary and biogeographic significance of algorithmic species delineation. We unveil patterns whereby ESUs are in all but one case restricted to either the Atlantic or Indo-Pacific Ocean. Within ocean basins we find... |
| Tipo: Text |
Palavras-chave: Biogeography; Brown algae; Dictyotales; General mixed yule-coalescent model; Molecular phylogeny; Padina; Phaeophyceae; Species delineation. |
| Ano: 2013 |
URL: https://archimer.ifremer.fr/doc/00144/25568/23716.pdf |
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| Thubaut, Justine; Puillandre, Nicolas; Faure, Baptiste; Cruaud, Corinne; Samadi, Sarah. |
| Bathymodiolinae are giant mussels that were discovered at hydrothermal vents and harboring chemosynthetic symbionts. Due to their close phylogenetic relationship with seep species and tiny mussels from organic substrates, it was hypothesized that they gradually evolved from shallow to deeper environments, and specialized in decaying organic remains, then in seeps, and finally colonized deep-sea vents. Here, we present a multigene phylogeny that reveals that most of the genera are polyphyletic and/or paraphyletic. The robustness of the phylogeny allows us to revise the genus-level classification. Organic remains are robustly supported as the ancestral habitat for Bathymodiolinae. However, rather than a single step toward colonization of vents and seeps,... |
| Tipo: Text |
Palavras-chave: Bathymodiolinae; Chemosynthetic ecosystem; Deep-sea; Evolution. |
| Ano: 2013 |
URL: https://archimer.ifremer.fr/doc/00218/32957/31622.pdf |
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| Alberti, Adriana; Poulain, Julie; Engelen, Stefan; Labadie, Karine; Romac, Sarah; Ferrera, Isabel; Albini, Guillaume; Aury, Jean-marc; Belser, Caroline; Bertrand, Alexis; Cruaud, Corinne; Da Silva, Corinne; Dossat, Carole; Gavory, Frederick; Gas, Shahinaz; Guy, Julie; Haquelle, Maud; Jacoby, E'Krame; Jaillon, Olivier; Lemainque, Arnaud; Pelletier, Eric; Samson, Gaelle; Wessner, Mark; Acinas, Silvia G.; Royo-llonch, Marta; Cornejo-castillo, Francisco M.; Logares, Ramiro; Fernandez-gomez, Beatriz; Bowler, Chris; Cochrane, Guy; Amid, Clara; Ten Hoopen, Petra; De Vargas, Colomban; Grimsley, Nigel; Desgranges, Elodie; Kandels-lewis, Stefanie; Ogata, Hiroyuki; Poulton, Nicole; Sieracki, Michael E.; Stepanauskas, Ramunas; Sullivan, Matthew B.; Brum, Jennifer R.; Duhaime, Melissa B.; Poulos, Bonnie T.; Hurwitz, Bonnie L.; Pesant, Stephane; Karsenti, Eric; Wincker, Patrick; Bork, Peer; Boss, Emmanuel; Follows, Michael; Gorsky, Gabriel; Hingamp, Pascal; Iudicone, Daniele; Karp-boss, Lee; Not, Fabrice; Raes, Jeroen; Sardet, Christian; Speich, Sabrina; Stemmann, Lars; Sunagawa, Shinichi; Bazire, Pascal; Beluche, Odette; Besnard-gonnet, Marielle; Bordelais, Isabelle; Boutard, Magali; Dubois, Maria; Dumont, Corinne; Ettedgui, Evelyne; Fernandez, Patricia; Garcia, Esperance; Aiach, Nathalie Giordanenco; Guerin, Thomas; Hamon, Chadia; Brun, Elodie; Lebled, Sandrine; Lenoble, Patricia; Louesse, Claudine; Mahieu, Eric; Mairey, Barbara; Martins, Nathalie; Megret, Catherine; Milani, Claire; Muanga, Jacqueline; Orvain, Celine; Payen, Emilie; Perroud, Peggy; Petit, Emmanuelle; Robert, Dominique; Ronsin, Murielle; Vacherie, Benoit. |
| A unique collection of oceanic samples was gathered by the Tara Oceans expeditions (2009-2013), targeting plankton organisms ranging from viruses to metazoans, and providing rich environmental context measurements. Thanks to recent advances in the field of genomics, extensive sequencing has been performed for a deep genomic analysis of this huge collection of samples. A strategy based on different approaches, such as metabarcoding, metagenomics, single-cell genomics and metatranscriptomics, has been chosen for analysis of size-fractionated plankton communities. Here, we provide detailed procedures applied for genomic data generation, from nucleic acids extraction to sequence production, and we describe registries of genomics datasets available at the... |
| Tipo: Text |
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| Ano: 2017 |
URL: https://archimer.ifremer.fr/doc/00600/71256/69634.pdf |
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| Registros recuperados: 11 | |
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