Éditeur(s) : Pergamon-elsevier Science Ltd
Résumé : Epinephelus itajara is one of the marine fish species most threatened for extinction and it is considered to be "critically endangered" by the IUCN. The present study evaluated the genetic diversity of the species and the genetic/evolutionary relationships of its populations along the Atlantic coast of South America. The results indicate relatively reduced genetic variation, re-emphasizing the low adaptive potential of the species. One of the populations presented relatively high degrees of genetic diversity and it is evolutionary isolated from the all other populations. The evidences indicate the existence of two Evolutionarily Significant Units comprising E. itajara in the Atlantic coast of South America and the conservation prospects for the species must take these evidences into account.
Biochemical Systematics And Ecology (0305-1978) (Pergamon-elsevier Science Ltd), 2014-10 , Vol. 56 , P. 255-266

Droits : 2014 Elsevier Ltd. All rights reserved.
http://archimer.ifremer.fr/doc/00230/34100/34465.pdf
DOI:10.1016/j.bse.2014.06.004
http://archimer.ifremer.fr/doc/00230/34100/

Résumé : Ifremer launched and coordinated the development of a strategy for the REBENT network (REseau BENThique) in 2000 to monitor the aftermath of the "Erika" oil spill in December 1999. Its aim is to provide consistent baseline knowledge about coastal benthic habitats and constitute a monitoring tool to detect changes at various scales over time and space. Sector-based seabed habitat mapping in shallow water (< 50 m deep), is currently being conducted throughout Brittany's coastal waters through a combination of geoacoustic marine systems and ground-truthing using biological grab sampling and seabed observations. Sedimentological and biological results on Glenan area emphasize a great diversity of subtidal habitats and marine species recognized. Sidescan imagery accentuates the complexity of the communities structure in a marine environment distinguished by strong and regulary roughness of the sea. Maerl biocenose is present at the nord-east of the archipelago. Progressively it gives way to mud sediment colonized by Amphiura filiformis and Haploops in the deeper channel. To the west and the south, substratum types are more coarse, occasionally mobiles, composed of essentially sand community with Nephtys and gravelly sand community with Branchiostoma lanceolatum.
Le Rebent (Réseau benthique), initié en 2000 à la suite de la catastrophe de l'Erika, a pour objectif de suivre les habitats benthiques côtiers et de détecter les changements à différentes échelles de temps et d'espace. L'approche sectorielle dans les petits fonds (< 50 m) des côtes bretonnes combine, des moyens de prospection acoustique, afin de délimiter les principaux types de substrats, avec des prélèvements et des observations biologiques pour caractériser les peuplements macrobenthiques. Les résultats des analyses sédimentologiques et faunistiques montrent autour de l'archipel des Glénan, une grande diversité d'habitats et d'espèces reconnues. L'imagerie acoustique fait ressortir la complexité de leur structuration dans un environnement marin soumis à de fortes et régulières périodes d'agitation. La biocénose de maërl occupe le nord-est de l'archipel. Elle laisse place progressivement aux sédiments envasés à Amphiura filiformis et aux vases à Haploops dans le fond du chenal. A l'ouest et au sud, les subtrats sont plus grossiers, essentiellement sableux à Nephtys et sablo-graveleux à Branchiostoma lanceolatum, épisodiquement mobiles.

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/2006/rapport-2301.pdf
http://archimer.ifremer.fr/doc/2006/sup-2301.pdf
http://archimer.ifremer.fr/doc/00000/2301/

Éditeur(s) : HAL CCSD Wiley
Résumé : [b]Aim[/b][br/] Many tropical tree species have poorly delimited taxonomic boundaries and contain undescribed or cryptic species. We examined the genetic structure of a species complex in the tree genus Carapa in the Neotropics in order to evaluate age, geographic patterns of diversity and evolutionary relationships, and to quantify levels of introgression among currently recognized species.[br/] [br/] [b]Location[/b][br/] Lowland moist forests in the Guiana Shield, the Central and Western Amazon Basin, Chocó and Central America.[br/] [br/] [b]Methods[/b][br/] Genetic structure was analysed using seven nuclear simple sequence repeats (nuSSR), five chloroplast SSRs (cpSSR), and two chloroplast DNA (cpDNA) intergenic sequences (trnH-psbA and trnC-ycf6). Bayesian clustering analysis of the SSR data was used to infer population genetic structure and to assign 324 samples to their most likely genetic cluster. Bayesian coalescence analyses were performed on the two cpDNA markers to estimate evolutionary relationships and divergence times.[br/] [br/] [b]Results[/b][br/] Two genetic clusters (nu_guianensis and nu_surinamensis) were detected, which correspond to the Neotropical species C. guianensis (sensu latu) and C. surinamensis. Fourteen cpDNA haplotypes clustered into six haplogroups distributed between the two nuclear genetic clusters. Divergence between the haplogroups was initiated in the Miocene, with some haplotype structure evolving as recently as the Pleistocene. The absence of complete lineage sorting between the nuclear and chloroplast genomes and the presence of hybrid individuals suggest that interspecific reproductive barriers are incomplete. NuSSR diversity was highest in C. guianensis and, within C. guianensis, cpDNA diversity was highest in the Central and Western Amazon Basin. Regional genetic differentiation was strong but did not conform to an isolation-by-distance process or exhibit a phylogeographical signal.[br/] [br/] [b]Main conclusions[/b][br/] The biogeographical history of Neotropical Carapa appears to have been influenced by events that took place during the Neogene. Our results point to an Amazonian centre of origin and diversification of Neotropical Carapa, with subsequent migration to the Pacific coast of South America and Central America. Gene flow apparently occurs among species, and introgression events are supported by inconsistencies between chloroplast and nuclear lineage sorting. The absence of phylogeographical structure may be a result of the ineffectiveness of geographical barriers among populations and of reproductive isolation mechanisms among incipient and cryptic species in this species complex.
ISSN: 0305-0270

hal-01032395
https://hal.archives-ouvertes.fr/hal-01032395
DOI : 10.1111/j.1365-2699.2011.02678.x

Éditeur(s) : ISTPM
Résumé : The problems caused by venomous fish in the waters of the Lesser Antilles were studied in two notes published by the state-run Technical Assistance and Social Credit Company (SATEC) and in older works by Poey (1866), Arcisz (1950) and Randal (1958). The first SATEC note gives the brief description and classification of venomous coastal fishes of St. Barthelemy; the other SATEC note explores the hypotheses on the origin of venomousity of tropical fish based on a vast literature review (Morice, 1961, 1962). It also gives in the appendix a complete list of "fearful" species (this is how venoumous fish are designated in the local language and the "ciguatera" is called a "hurt fish") in St. Barthelemy waters and reports the cases of poisoning studied on the island since September 1960.In October 1963, we carried out a short expedition to St. Martin, during which we established equivalences between local names used by the inhabitants of St. Barthelemy and St. Martin to designate dangerous species. Moreover, thanks to kind help by a doctor at the Marigot hospital, we were able to note details on the symptoms from a series of serious poisonings that occurred at Marigot and surrounding areas in July-August 1963. The species incriminated by the victims of this poisoning had been caught in the south-west of the "Ile des Chiens" situated in the north-west of St. Martin and were all part of the list previously established for St. Barthelemy.
Les problèmes posés par la vénénosité de certains poissons des eaux des Petites Antilles ont fait l'objet, en de:hors de travaux anciens de POEY, 1866 à ARCISZ, 1950 et RANDALL, 1958) de deux notes ronéotypées par les services de la S.A.T.E.C. L'une concerne la description rapide et la classification des poissons côtiers vénéneux de l'île de St-Barthélémy; l'autre étudie les théories émises à propos de l'origine de la vénénosité des poissons tropicaux, ceci après compilation de la vaste littérature parue à ce sujet (MORICE, 1961 : 1962) ; elle donne également en annexe la liste complétée des espèces « redouteuses » des eaux de St-Barthélémy avec notification des cas d'empoisonnement étudiés dans l'île depuis septembre 1960 (c'est en effet par ce qualificatif que les poissons vénéneux sent désignés dans le patois de St-Barthélémy, et la « ciguatera)) est appelée « mal poisson ))). En octobre 1963, nous avons effectué une courte mission d'étude à St-Martin, séjour au cours duquel nous avons pu établir l'équivalence des noms vernaculaires utilisés par les habitants de St-Barthélémy et de St-Martin pour désigner les espèces dangereuses; de plus, grâce au concours aimable du médecin de l'hôpital de Marigot, nous avons pu noter les détails symptomatologiques d'une série d'intoxications graves survenues à Marigot et clans ses environs en juillet-août 1963. Les espèces incriminées par les victimes de cette intoxication avaient été capturées dans le sud-ouest de l'îlot des Chiens, dans le nord-ouest de St-Martin et faisaient toutes partie de la liste établie précédemment pour St-Barthélémy. (OCR non contrôlé)
Revue des Travaux de l'Institut des Pêches Maritimes (0035-2276) (ISTPM), 1965-09 , Vol. 28 , N. 3 , P. 231-236

Droits : Ifremer
http://archimer.ifremer.fr/doc/1965/publication-4040.pdf
http://archimer.ifremer.fr/doc/00000/4040/

Éditeur(s) : Elsevier Science Bv
Résumé : Coastal and estuarine systems provide nursery grounds for many marine fish species. Their productivity has been correlated with terrigeneous inputs entering the coastal-estuarine benthic food web, thereby favouring the establishment of fish juveniles. Studies in these ecosystems often describe the nursery as a single large habitat without verifying nor considering the presence of contiguous habitats. Our study aimed at identifying different habitats based on macrozoobenthic communities and morpho-sedimentary characteristics and assessing the trophic interactions between fish juveniles and their benthic preys within these habitats. It included 43 sampling sites covering 5 habitats in which we described taxonomically and quantitatively the invertebrates and fish communities with stable isotopes and gut contents. It suggested that the benthic common sole Solea solea displayed feeding plasticity at the population level, separating the juveniles (G0) from the older fish (G1) into different "feeding sub-populations". Size-based feeding plasticity was also observable in the spatial occupancy of that species in the studied bay. The demersal pouting, Trisopterus luscus, equally used the different habitats but displayed low feeding plasticity across and inside each habitat. Stable isotopes proved to be powerful tools to study the spatial distribution of trophic interactions in complex ecosystems like the bay of Vilaine and to define optimal habitats for fish that use the coastal-estuarine ecosystem as nursery grounds.
Journal Of Sea Research (1385-1101) (Elsevier Science Bv), 2013-08 , Vol. 81 , P. 40-48

Droits : 2013 Elsevier B.V. All rights reserved
http://archimer.ifremer.fr/doc/00151/26226/24327.pdf
DOI:10.1016/j.seares.2013.03.013
http://archimer.ifremer.fr/doc/00151/26226/

Éditeur(s) : Elsevier
Résumé : The multi-component aspect of species diversity of groundfish assemblages was examined on the basis of a set of experimental trawl surveys conducted on the east coast of Corsica. We analysed and compared the structuration of diversity within three different bathymetric strata: the continental shelf (60-120 m depth), the upper slope (250-400 m) and the lower slope (450-570 m). For each of these three bathymetric strata, we simultaneously analysed 12 indices that are theoretically complementary and relate to 4 diversity components: (1) the number of species, (2) rarity, (3) evenness and (4) taxonomic diversity. Principal component analysis based on Spearman's correlation coefficients was carried out to investigate empirical relationships between the selected indices. Our results showed not only that a single diversity index cannot provide a complete view of the groundfish diversity along the east coast of Corsica, but also that-in some cases-one index cannot even encapsulate a complete description of a specific diversity component. We also found that the nature and the number of independent diversity components slightly varied from one bathymetric stratum to another. The main differences-which mainly occurred in the deepest bathymetric stratum-might be associated with lower density of individuals and lower dominance of some species at deeper depths. Finally, this study is the first dealing with groundfish diversity in this area, which is currently characterized by one of the lowest fishing intensity rates in the northern Mediterranean Sea. It might be considered as a first '' reference state '' with a view to monitoring the spatio-temporal changes in species diversity patterns along the east coast of Corsica in the future. (C) 2007 Elsevier B.V. All rights reserved.
Fisheries Research (0165-7836) (Elsevier), 2007-12 , Vol. 88 , N. 1-3 , P. 120-132

Droits : 2007 Elsevier B.V. All rights reserved.
http://archimer.ifremer.fr/doc/2007/publication-3512.pdf
DOI:10.1016/j.fishres.2007.08.003
http://archimer.ifremer.fr/doc/00000/3512/

Éditeur(s) : HAL CCSD International Phycological Society
Résumé : International audience
We studied a group of monoraphid diatom species (Bacillariophyceae, Achnanthidiaceae) found in the marine coastal environment of tropical islands of the Caribbean Sea, western Atlantic Ocean, Indian Ocean, South Pacific Ocean, the Adriatic Sea and the Black Sea. Based on light and electron microscope examination, Madinithidium was formally described as a genus new to science with the generitype defined as Madinithidium undulatum. The characteristic features of the valve structure are a strongly developed sternum and raphe sternum, transapical striae formed by a single areola (macroareolae) positioned in small depressions, elevated virgae and coaxial internal central raphe endings. Furthermore, the striae of both raphe and sternum valves are closed by finely perforated hymenes. Madinithidium and Achnanthidium species are difficult to identify correctly with light microscopy since their valves are small and finely structured. Four species recently described from the western Indian Ocean and assigned to Achnanthidium sensu lato – Achnanthidium capitatum, A. flexuistriatum, A. pseudodelicatissimum and A. scalariforme – possessed morphological features permitting their placement into Madinithidium gen. nov. The above-mentioned species were formally transferred to the new genus.
ISSN: 2330-2968

hal-01333391
https://hal-univ-perp.archives-ouvertes.fr/hal-01333391
DOI : 10.2216/14-21R2

Éditeur(s) : HAL CCSD Tecpar
Résumé : International audience
The general structure and organization of the shallow water (<1.5 m) fish assemblages were studied in two southern Brazilian ecosystems, a bay and a lagoon, under different marine or continental influences. The abiotic factors were measured to define the hydrology of the sites and the biotic descriptors were evaluated to characterize the assemblage structures. Transparency, salinity and organic matter were the abiotic factors which best distinguished the sites. A total richness of 69 species was observed. Ecological guilds, density, diversity and evenness indices values were different in each site. Hydrodynamism and geomorphology determined the structure and the organization of the fish assemblages in these shallow waters. It was observed that variations in the hydrological attributes generated by the marine or continental water movements are able to alter the conditions in the lagoon more quickly and at more regular frequencies than those in the bay.
ISSN: 1516-8913

hal-00753018
https://hal.univ-antilles.fr/hal-00753018
https://hal.univ-antilles.fr/hal-00753018/document
https://hal.univ-antilles.fr/hal-00753018/file/BRAZILIAN_2010.pdf

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
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 evidence for the vast majority of ESUs to be confined to a single marine realm. Exceptions, whereby ESUs span up to three realms, are located in the Indo-Pacific Ocean. Patterns of range-restricted species likely arise by repeated founder events and subsequent peripatric speciation, hypothesized to dominate speciation mechanisms for coastal marine organisms in the Indo-Pacific. Using a three-gene (cox3, psaA and rbcL), relaxed molecular clock phylogenetic analysis we estimated divergence times, providing a historical framework to interpret biogeographic patterns.
ISSN: 0022-3646

hal-01545323
https://hal.archives-ouvertes.fr/hal-01545323
DOI : 10.1111/jpy.12027

Résumé : Les forêts côtières inondables (FCI) des régions tropicales et subtropicales remplissent des fonctions écologiques nécessaires aux écosystèmes marins côtiers situés en aval et aux populations humaines vivant à proximité Aux Antilles, les mangroves et les forêts marécageuses à Pterocarpus officinalis sont structurés par des espèces ligneuses qui ont développé des adaptations particulières à la salinité, à l’inondation et aux substrats meubles sur lesquels elles reposent. Dans des contextes climatiques à forte saisonnalité, les saisons sèches prolongées entraînent de fortes variations de la salinité et du niveau de la nappe, que le changement climatique devrait amplifier. Les modèles climatiques de la région Caraïbe prévoient des saisons sèches plus sèches liées à une baisse des précipitations de 20 à 50 %. Or, la question des capacités de résistance et d’acclimatation des espèces ligneuses des FCI à des variations saisonnières marquées de leur environnement édaphique a été peu traitée dans la littérature scientifique.L’objectif de ce travail de thèse a été double. Il s’est agi, d'une part, de caractériser la structure et la croissance de faciès de végétation représentatifs des FCI antillaises et de mettre en évidence leurs déterminants. A cet effet, des individus adultes, des espèces ligneuses dominantes des FCI, (Avicennia germinans, Laguncularia racemosa, Pterocarpus officinalis, Rhizophora mangle), dans cinq faciès de végétation sur le gradient terre-mer, ont été suivis sur l'île de Grande-Terre (Guadeloupe). D’autre part, les effets de variations salines extrêmes sur la croissance et l’écophysiologie de ces quatre espèces ont été évalués au stade plantule par une expérience en conditions contrôlées.A travers cette étude, il a été montré que les différences de salinité et de fertilité entre les stationspermettent d’expliquer la composition et la structure des peuplements de FCI. Cette étude a égalementmontré que P. officinalis peut se maintenir dans une gamme de salinité plus large que ne l'indiquait lalittérature.Dans le contexte des Antilles où les marnages sont faibles, la saisonnalité du climat entraine des variations saisonnières importantes d’un ensemble de descripteurs édaphiques tels que le niveau de la nappe, la salinité du sol, le pH et le potentiel RedOx. L’inondation et la salinité des sols sont fortement corrélées aux variations mensuelles des précipitations. Les périodes sèches sont accompagnées de salinités élevées et d’une baisse du niveau de la nappe allant jusqu’à l’exondation des sols dans toutes les stations suivies. Les stress environnementaux liés à la saisonnalité entrainent une baisse de la production primaire. L’accroissement cambial mensuel des individus est fortement corrélé avec les précipitations et l’intensité du vent. Dans les stations de mangrove, la sècheresse édaphique régule la production primaire des palétuviers. En forêt marécageuse, la part de la sècheresse atmosphérique semble plus importante pour expliquer la production de P. officinalis. Aussi, les sècheresses édaphique et atmosphérique doivent être prises en compte toutes deux pour modéliser efficacement la croissance des peuplements des FCI.Lors de la saison sèche, le stress le plus important est le stress hydrique, lié à la diminution de la teneur en eau du sol et à l’augmentation de la salinité, qui entraine des contraintes physiologiques sur les palétuviers (ajustements stomatiques, pertes de surface foliaire et de conductivité hydraulique). Le stress ionique, lié à la toxicité des ions Na+ et Cl-, permet aussi d’expliquer une partie de la contrainte sur l’assimilation en carbone. En saison sèche, l’aération des sols ne se traduit pas par une amélioration des performances de croissance chez toutes les espèces. Aussi, la croissance cambiale maximale de toutes les espèces de FCI est réalisée en saison des pluies lorsque la salinité est faible et les niveaux d’inondation élevés.
In tropical and subtropical regions, flooded coastal forests provide essentials goods and services to local communities. In the Antilles, mangrove forests and the Pterocarpus officinalis swamp forest host tree species that are adapted to salinity, flooding and loose substrates. In areas were climatic seasonality is strong, dry seasons lead to strong fluctuations of soil salinity and water table level ; that climate change is likely to make stronger again. Climate model for the Caribbean project drier dry seasons with a decease of 20 to 50 % in annual rainfall amounts. However, resistance and acclimation ability of flooded coastal forest’s species to strong environmental fluctuations still remain poorly studied.This thesis aims two objectives. On the one hand, it aims to characterize the forest structure and monthly growth of vegetation structures representative of the Antillean flooded coastal forests and to highlight their determinants. In this respect, adult trees of the four dominant species of local flooded coastal forest (Avicennia germinans, Laguncularia racemosa, Pterocarpus officinalis, Rhizophora mangle), in five stations along a sea – land gradient were monitored on the Grande-Terre island (Guadeloupe). On the other hand, the effects of salinity variation patterns and salinity levels on growth performances and physiology of seedlings from the four same species were investigated through a greenhouse experiment.This study shows that differences among average salinity and soil fertility explain the vegetation structure of flooded coastal forest. It also extents, in the literature, the range of salinity in which P. officinalis can stand at the tree stage.In the Antilles were tidal range is small, climate seasonality lead to strong edaphic seasonal variations in water table level, soil salinity, pH and RedOx potential. Flooding and soil salinity are strongly correlated to monthly rainfall amounts: dry periods lead to high salinity and to a decrease in water table level under the soil surface. Seasonal environmental stresses lead to a decrease of primary production. Cambial growth was strongly correlated to monthly precipitation and average wind speed. In mangrove stations, edaphic drought determines primary production of mangrove trees, when, in swamp forest stations, atmospheric drought determines an important part of P. officinalis’ primary production.During the dry season, water stress is the more important environmental stress, both by the decrease in soil humidity and the increase in soil salinity, and leads to physiological strains (stomatal adjustment, loss of leaf area and hydraulic conductivity) for mangrove trees. Ionic toxicity of ions Na+ and Cl- also explains a part of the strain on carbon assimilation. During the dry season, re oxygenation of soils via low water table level does not lead to an increase of physiological traits. Thus, maximum cambial growth of all species is observed during the rainy season, when salinity is low and water table level is high.Flooded coastal forest’s species do not have the same ability to recover after a dry episode. In all the studied stations, A. germinans’ cambial growth rises back as soon as the rainy season starts, when, for one station, cambial growth of L. racemosa and R. mangle stay null during the three first month of the rainy season. This low ability to recover after a dry episode is correlated to a stronger impact of the dry season on the physiological traits of these two species.The greenhouse experiment shows that salinity variation patterns are to be taken into consideration for explaining seedlings’ growth and salinity tolerance. A stronger salinity increase impacts the growth of all the studied species; a punctual drop of salinity highlights that flooded coastal forest’s species differ in ability to take advantage of a low salinity episode. These results are coherent with field observations as cambial growth was fairly explained by monthly precipitation.

http://www.theses.fr/2013AGUY0674/document

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
Patterns of connectivity and self-recruitment are recognized as key factors shaping the dynamics of marine populations. Connectivity is also essential for maintaining and restoring natural ecological processes with genetic diversity contributing to the adaptation and persistence of any species in the face of global disturbances. Estimates of connectivity are crucial to inform the design of both marine protected areas (MPAs) and MPA networks. Among several approaches, genetic structure is frequently used as a proxy for patterns of connectivity. Using 8 microsatellite loci, we investigated genetic structure of the two-banded sea bream Diplodus vulgaris, a coastal fish that is both commercially and ecologically important. Adults were sampled in 7 locations (stretches of coastline approximately 8 km long) and juveniles in 14 sites (~100 to 200 m of coastline) along 200 km of the Apulian Adriatic coast (SW Adri-atic Sea), within and outside an MPA (Torre Guaceto MPA, Italy). Our study found similar genetic diversity indices for both the MPA and the surrounding fished areas. An overall lack of genetic structure among samples suggests high gene flow (i.e. connectivity) across a scale of at least 200 km. However, some local genetic divergences found in two locations demonstrate some heterogeneity in processes renewing the population along the Apulian Adriatic coast. Furthermore, two sites appeared genetically divergent, reinforcing our observations within the genetic makeup of adults and confirming heterogeneity in early stage genetics that can come from either different supply populations or from chaotic genetic patchiness occurring under temporal variation in recruitment and in the reproductive success. While the specific role of the MPA is not entirely known in this case, these results confirm the presence of regional processes and the key role of connectivity in maintaining the local population supply.
ISSN: 1932-6203

hal-01442055
https://hal-univ-perp.archives-ouvertes.fr/hal-01442055
https://hal-univ-perp.archives-ouvertes.fr/hal-01442055/document
https://hal-univ-perp.archives-ouvertes.fr/hal-01442055/file/journal.pone.0167441.pdf
DOI : 10.1371/journal.pone.0167441.s009

Éditeur(s) : HAL CCSD
Résumé : International audience
In French Guiana, located on the northeastern coast of South America, bats of different species are very numerous. The infection of bats and their ticks with zoonotic bacteria, especially Rickettsia species, is so far unknown. In order to improve knowledge of these zoonotic pathogens in this French overseas department, the presence and diversity of tick-borne bacteria was investigated with molecular tools in bat ticks. In the beginning of 2013, 32 bats were caught in Saint-Jean-du-Maroni, an area close to the coast of French Guiana, and the ticks of these animals were collected. A total of 354 larvae of Argasidae soft ticks (Ornithodoros hasei) from 12 bats (Noctilio albiventris) were collected and 107 of them were analysed. DNA was extracted from the samples and quantitative real-time PCR was carried out to detect Rickettsia spp., Bartonella spp., Borrelia spp. and Coxiella burnetii. All tested samples were negative for Bartonella spp., Borrelia spp. and Coxiella burnetii. Rickettsia DNA was detected in 31 (28.9%) ticks. An almost entire (1118 base pairs long) sequence of the gltA gene was obtained after the amplification of some positive samples on conventional PCR and sequencing. A Bayesian tree was constructed using concatenated rrs, gltA, ompA, ompB, and gene D sequences. The study of characteristic sequences shows that this Rickettsia species is very close (98.3-99.8%) genetically to R. peacockii. Nevertheless, the comparative analysis of sequences obtained from gltA, ompA, ompB, rrs and gene D fragments demonstrated that this Rickettsia is different from the other members of the spotted fever group. The sequences of this new species were deposited in GenBank as Candidatus Rickettsia wissemanii. This is the first report showing the presence of nucleic acid of Rickettsia in Ornithodoros hasei ticks from South American bats. (C) 2016 Elsevier GmbH. All rights reserved.
TICKS AND TICK-BORNE DISEASES

hal-01459758
https://hal.archives-ouvertes.fr/hal-01459758
DOI : 10.1016/j.ttbdis.2016.09.004

Éditeur(s) : HAL CCSD Elsevier
Résumé : Finding records of past catastrophic storm events is essential to evaluate the long term climatic evolution in a given coastal area. This question has been addressed by the study of sediment cores sampled in a small coastal lagoon of the French Mediterranean coast (Pierre Blanche lagoon). Two cores were studied in detail and revealed the presence of three main storm events. The sedimentation rates calculated using the CFCS Pb-210 model, in agreement with Cs-137 data, are 3 +/- 0.4 and 4.2 +/- 0.7 mm y(-1) near the border and in the center of the lagoon respectively. This suggests that the 0.6 m deep lagoon could be filled with sediments over the next 150 yr. Our study shows that storm events can be characterized in sedimentary sequences identified by facies, grain size and faunal assemblages (lagoonal and marine species). Comparison of Pb-210, C-14 chronology and historical accounts suggest that the three identified storm events took place in 1742, 1839 and 1893 A.D. (i.e. about one catastrophic event per century).
ISSN: 0025-3227

hal-00411189
https://hal.archives-ouvertes.fr/hal-00411189
DOI : 10.1016/j.margeo.2008.03.001

Éditeur(s) : Actes Journées Conchylicoles, Ifremer Nantes, 3-4 avril 2001
Résumé : Mangrove oysters include various species that are also present on different coasts. In the southern part of the Atlantic Ocean, Crassostrea rhizophorae has been observed along the southern coast of America and Crassostrea gasar along the western coast of Africa. Fifteen populations of these oysters were sampled from these two geographic areas. Their polymorphism was studied on the 16S mitochondrial fragment both by par sequencing and RFLP analysis. Some samples' caryotype were also analysed. Two haplotypes were identified: C. gasar was found in Africa, but also for the first time in South America, whereas C. rhizophorae was only found on the coasts of South America.
Les huîtres de mangrove englobent plusieurs espèces qui sont présentes sur différentes côtes. Dans la partie sud de l'Océan Atlantique, Crassostrea rhizophorae a été décrite le long des côtes sud américaines et Crassostrea gasar le long des côtes ouest africaines. Quinze populations de ces huîtres ont été échantillonnées dans ces deux zones géographiques. Leur polymorphisme a été étudié sur le fragment mitochondrial 16S par séquençage et analyse en RFLP, le caryotype de certains échantillons a aussi été examiné. Deux haplotypes ont été identifiés: le type C. gasar a été trouvé en Afrique, mais aussi pour la première fois en Amérique du Sud, alors que le type C. rhizophorae a été rencontré seulement sur les côtes d'Amérique du Sud.

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/2001/acte-3278.pdf
http://archimer.ifremer.fr/doc/00000/3278/

Éditeur(s) : Université du Littoral Côte d'Opale (Dunkerque)
Résumé : In the Bay of Biscay and Celtic Sea waters, hake is considered as genetically homogeneous and form a unique stock with identical meristic characteristics. The vertebral mean vary from 50,68 (vertebrae) during the first year of life to 51,11 (vertebrae) for adults. 0-group Merluccius display a rapid growth with significant interannual variability (0.71 mm.day-1 in 2001 versus 0.74 mm.day-1 in 2002). The spawning period occurs in April and the average length on the firth January following the hatching is of 17.3 cm (first seasonal check / increment on the sagittal otolith is located about 0.143 cm from the nucleus). At the end of the first year of life the average length is about 24 cm. The longevity of the species is important and growth parameters (L = 138,24 cm ; K = 0,132) explain natural mortality coefficient of M = 0.21. No difference for growth between male and female has been observed for this stock. The ratio total weight / eviscerated weight is equal to Fc = 1,086. Both male and female have same spatial and bathymetric distribution. Juveniles are found in deep waters (< 17 cm length) and move to coastal waters where they display an average length of (33 cm length). Longer individuals are found in nursery areas where they feed and grow then move to deeper areas to spawn. Nursery areas are numerous and located in the Celtic Sea and in the bay of Biscay. In the bay of Biscay, disturbances resulted from hydrondynamics affect the settlement on the nursery grounds particularly in the southern part of the bay. Diet composition varies with age. Juveniles feed mainly on crustaceans (Euphausia kroni). At the length of 23 cm, individuals feed strictly on fishes. Sizes of preys are proportional with sizes of predators and preys are composed mainly of species that feed and reproduce close to the bottom. Cannibalism has been observed for this specie, and increases with age notably in the northern part of the bay of Biscay and in the Celtic Sea. Main preys are 0-group juveniles. This specie is assumed to be a passive predator catching its preys when they come to feed in the bottom. Although they are punctual, these results have been obtained after studies on the evolution of sizes during the first year of life (daily increments measurements) and on the spawning period parameters (back-calculating). Average length on the firth January following hatching and the position of the first seasonal check on the otolith are based on observations of the sizes on the firth January following hatching (obtained with growth rates and spawning period parameters). The results are similar to those described in previous studies, nevertheless they have to be confirmed with growth and diet composition analyses. A long term study appear essential to determine biological and ecological parameters of this species for sustainable management of the stock.
Les alertes quant à la surexploitation du stock de merlu européen sont nombreuses et récurrentes. Seulement l'estimation du niveau réel de l'état du stock a toujours posé des problèmes du fait de certaines lacunes dans la connaissance de la biologie et de l'écologie de cette espèce. Dans les eaux du golfe de Gascogne et de la mer Celtique, le merlu européen fait partie de la même population génétique et possède les mêmes caractéristiques meristiques. Sa moyenne vertébrale est de 50,68 durant sa première année de vie et évolue pour se stabiliser à 51,11 chez l'adulte. La croissance du merlu durant sa première année de vie et très rapide mais présente une variabilité interannuelle significative (0,71 mm .J-1 en 2001 et 0,74 mm .J-1 en 2002). Sa période de ponte maximale se déroule au mois d'avril et sa longueur au premier janvier suivant sa naissance est de 17,3 cm (la première marque hivernale est positionnée à 0,143 cm du nucléus de la sagittae). Au terme de sa première année de vie le merlu atteint une longueur de 24 cm. Sa longévité est assez longue (23 ans environ) et ses paramètres de croissance (L = 138,24 cm ; K = 0,132) permettent d'estimer son coefficient de mortalité naturelle à M = 0,21. Il n'a pas été établi de croissance différentielle entre sexe chez le merlu dans ces eaux. Le rapport poids total / poids éviscéré a été estimé à Fc = 1,086. Mâles ou femelles, les merlus ont une même répartition spatiale et bathymétrique. En général, ils sont très profonds à leurs stades juvéniles (< 17 cm) et ils se dirigent vers les eaux côtières pour les atteindre à 33 cm de longueur environ. Au-delà de cette taille, les merlus se concentrent au niveau des zones de nourricerie pour s'y alimenter avant de rejoindre les eaux plus profondes pour y pondre. Les zones de nourricerie du merlu sont très nombreuses et sont localisées en mer Celtique et dans le golfe de Gascogne aussi bien dans sa partie sud que dans sa partie nord. Les perturbations importantes dans l'hydrodynamisme du golfe de Gascogne (upwelling) semble influencer les niveaux de colonisation des zones de nourricerie notamment celles situées dans la partie sud du golfe. Le régime alimentaire du merlu évolue avec l'âge. Juvénile, il se nourrit principalement de crustacés (Euphausia krohni) et devient ichtyophage exclusif dès 23 cm de longueur. Le cannibalisme est une réalité chez le merlu et les merlus-proies sont les juvéniles du groupe d'âge G-0. Il s'intensifie avec l'âge notamment dans la partie nord du golfe de Gascogne et en mer Celtique ; Il est très faible dans le sud du golfe de Gascogne. La taille des proies évolue avec la taille du merlu et les poissons proies sont en général des espèces qui vont se nourrir ou se reproduire sur le fond. Ce comportement alimentaire fait que le merlu est un prédateur peu actif et qui attaque ses proies lorsqu'elles viennent sur le fond. Ces résultats, bien qu'ils ne soient que ponctuels, ont été obtenus après avoir déterminé le schéma d'évolution de la longueur du merlu durant sa première année de vie (dénombrement des accroissement journaliers) et des paramètres de sa période de ponte (rétro-calcul).La taille au premier hiver et la position de la première marque hivernale ont été déterminées en relativisant nos observations à l'estimation de la longueur du merlu au premier janvier suivant sa naissance : celle-ci étant obtenue en utilisant le taux de croissance et les paramètres de la période de ponte. Bien que l'ensemble des résultats obtenus, en ce qui concerne la répartition spatiale et les données sur la période de ponte, soient généralement conformes à ceux décrits dans la littérature, il est nécessaire de confirmer ceux concernant la croissance et le régime alimentaire. Pour cela, une étude à plus long terme semble indispensable pour parvenir à bien maîtriser l'ensemble des paramètres de biologie et d'écologie du merlu permettant ainsi une meilleure gestion de son stock.

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/2004/these-1247.pdf
http://archimer.ifremer.fr/doc/00000/1247/

Éditeur(s) : HAL CCSD Nature Publishing Group
Résumé : International audience
Marine biological invasions threaten biodiversity worldwide. Here we explore how Marine Protected areas, by reducing human use of the coast, confer resilience against the introduction of non-indigenous species (NIS), using two very different Pacific islands as case studies for developing and testing mathematical models. We quantified NIS vectors and promoters on Vancouver (Canada) and Moorea (French Polynesia) islands, sampled and barcoded NIS, and tested models at different spatial scales with different types of interaction among vectors and between marine protection and NIS frequency. In our results NIS were negatively correlated with the dimension of the protected areas and the intensity of the protection. Small to medium geographical scale protection seemed to be efficient against NIS introductions. The likely benefit of MPAs was by exclusion of aquaculture, principally in Canada. These results emphasize the importance of marine protected areas for biodiversity conservation, and suggest that small or medium protected zones would confer efficient protection against NIS introduction.
ISSN: 2045-2322

hal-01381251
https://hal-univ-perp.archives-ouvertes.fr/hal-01381251
https://hal-univ-perp.archives-ouvertes.fr/hal-01381251/document
https://hal-univ-perp.archives-ouvertes.fr/hal-01381251/file/rate%20of%20biological%20invasions.pdf
DOI : 10.1038/srep33013

Éditeur(s) : HAL CCSD Luís Felipe Toledo
Résumé : International audience
Expedition Pakaihi I Te Moana was conducted in 2011 to the Marquesas Islands, lying between 07°50ʹ S and 10°35ʹ S latitude and 138°25ʹ W and 140°50ʹ W longitude. The expedition combined extensive collections and visual censuses of the shore fish fauna. A total of 74 species are added as new records for the Marquesas Islands; the coastal fish fauna of the Marquesas Islands is increased from 415 to 495 species and the number of endemic species is increased from 48 to 68 species. This increases the percentage of species-level endemism for the Marquesas Islands to 13.7%, ranking as the third highest region of endemism for coral reef fishes in the Indo-Pacific. Only two other peripheral regions, the Hawai'ian Islands and Easter Island, have higher values.
ISSN: 1809-127X

Droits : http://creativecommons.org/licenses/by-nc-nd/
hal-01223491
https://hal-univ-perp.archives-ouvertes.fr/hal-01223491
https://hal-univ-perp.archives-ouvertes.fr/hal-01223491/document
https://hal-univ-perp.archives-ouvertes.fr/hal-01223491/file/12228-51386-1-PB.pdf
DOI : 10.15560/11.5.1758

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Ecosystems are commonly affected by natural, episodic disturbances that can abruptly and drastically alter communities. Although it has been shown that resilient ecosystems can eventually recover to pre-disturbed states, the extent to which communities in early stages of recovery could be affected by multiple anthropogenic stressors is poorly understood. Pervasive and rising anthropogenic stressors in coastal marine systems that could interactively affect the recovery of these systems following natural disturbances include high sedimentation, nutrient enrichment, and overfishing. Using a 6-month field experiment, we examined the effects of all combinations of these three stressors on key functional groups in the benthic community growing on simulated, post-disturbance reef patches within a system recovering from large-scale natural disturbances (corallivorous seastar outbreak and cyclone). Our study revealed that sedimentation, nutrient enrichment, and overfishing (simulated using exclusion cages) interactively affected coral survival and algal growth, with taxon-specific effects at multiple scales. First, our treatments affected corals and algae differently, with sedimentation being more detrimental to macroalgal growth but less detrimental to coral (Porites rus) survival in caged plots, driving significant interactions between sedimentation and caging for both taxa. We also observed distinct responses between coral species and between algal functional groups, with the most extensive responses from algal turf biomass, for which sedimentation suppressed the synergistic (positive) combined effect of nutrient enrichment and caging. Our findings suggest that different combinations of ubiquitous anthropogenic stressors, related to either sea- or land-based activities, interactively influence community recovery from disturbance and may alter species compositions in the resulting community. Our findings further suggest that anthropogenic stressors could promote further degradation of coral reefs following natural disturbances by inhibiting recovery to coral-dominated states that provide vital ecosystem services to coastal populations worldwide.
ISSN: 0722-4028

hal-01430977
https://hal-univ-perp.archives-ouvertes.fr/hal-01430977
DOI : 10.1007/s00338-016-1489-x

Éditeur(s) : HAL CCSD Wiley Open Access
Résumé : International audience
Assessing population connectivity is necessary to construct effective marine protected areas. This connectivity depends, among other parameters, inherently on species dispersal capacities. Isolation by distance (IBD) is one of the main modes of differentiation in marine species, above all in species presenting low dispersal abilities. This study reports the genetic structuring in the tropical hydrozoan Macrorhynchia phoenicea (sensu Postaire et al., 2016a), a brooding species, from 30 sampling sites in the Western Indian Ocean and the Tropical Southwestern Pacific, using 15 microsatellite loci. At the local scale, genet dispersal relied on asexual propagation at short distance, which was not found at larger scales. Considering one representative per clone, significant positive F-IS values (from -0.327*** to 0.411***) were found within almost all sites. Gene flow was extremely low at all spatial scales, among sites within islands (<10km distance) and among islands (100 to >11,000km distance), with significant pairwise F-ST values (from 0.035*** to 0.645***). A general pattern of IBD was found at the Indo-Pacific scale, but also within ecoregions in the Western Indian Ocean province. Clustering and network analyses identified each island as a potential independent population, while analysis of molecular variance indicated that population genetic differentiation was significant at small (within island) and intermediate (among islands within province) spatial scales. As shown by this species, a brooding life cycle might be corollary of the high population differentiation found in some coastal marine species, thwarting regular dispersal at distances more than a few kilometers and probably leading to high cryptic diversity, each island housing independent evolutionary lineages.
ISSN: 2045-7758

hal-01681593
https://hal.archives-ouvertes.fr/hal-01681593
DOI : 10.1002/ece3.3236

Éditeur(s) : HAL CCSD
Résumé : National audience
The last study describing the epidemiology of malaria in French Guiana was published 20 years ago. Yet French Guiana in the Americas along with Mayotte in the Indian Ocean is the only French territory with persisting endemic malaria. The purpose of this study is to provide an update based on official malaria surveillance data as well as on information from hospital records and various field surveys that have been carried out in recent years. Due to recurrent problems in collecting thorough, continuous, and consistent data, exact determination of incidence by plasmodium species has always been difficult in French Guiana. These problems include not only the remote location of endemic areas and intense unpredictable migration patterns but also poor data collection methods that do not always ensure consistency and homogeneity. Another factor hindering thorough collection of conventional epidemiological data is the requirement for rapid effective treatment in remote regions. The overall incidence of malaria in French Guiana appears to have remained stable since the beginning of the decade with an average of 3,920 case reports per year for an incidence rate of 20 per thousand, noting that three fourths of the 206,000 inhabitants of French Guiana live outside of endemic areas. Overall involvement of P. falciparum and P. vivax appears to be equal with P. malariae accounting for only 2.6% of cases. Trends in recent years indicate an increase in the number of cases involving P. vivax especially in the eastern zones, i.e. in the Oyapock focus where annual incidences in children have reached up to 500 per thousand and in the whole region located between Saint Georges and Cayenne. Conversely a decrease in endemic levels has been observed in western areas, especially for P. falciparum in the upper and middle focuses of the Maroni. Most zones now causing problems are located near migration points, particularly in relation with clandestine gold panning activities. In the coastal strip where the three main cities with most of the population are located, most reported cases are imported but local cases may occur. In general local transmission in these areas has been promptly controlled but trends indicate that incidence of these events may be rising. Anopheles darlingi is still recognized as the main vector but its role in transmission is less obvious in eastern areas where increasing evidence suggests that other species may contribute to maintaining endemic levels. These findings indicate that the extensive resources deployed in this French territory (public financing, health care network, public awareness campaigns, and training of health care personnel in diagnosis and treatment of malaria) have helped reduce the number of severe cases in an unfavorable epidemiological setting.
Médecine tropicale : revue du Corps de santé colonial

pasteur-00583514
https://hal-riip.archives-ouvertes.fr/pasteur-00583514
PUBMED : 19499726