Éditeur(s) : HAL CCSD PeerJ
Résumé : International audience
Understanding the role of predators in food webs can be challenging in highly diverse predator/prey systems composed of small cryptic species. DNA based dietary analysis can supplement predator removal experiments and provide high resolution for prey identification. Here we use a metabarcoding approach to provide initial insights into the diet and functional role of coral-dwelling predatory fish feeding on small invertebrates. Fish were collected in Moorea (French Polynesia) where the BIOCODE project has generated DNA barcodes for numerous coral associated invertebrate species. Pyrosequencing data revealed a total of 292 Operational Taxonomic Units (OTU) in the gut contents of the arc-eye hawkfish (Paracirrhites arcatus), the flame hawkfish (Neocirrhites armatus) and the coral croucher (Caracanthus maculatus). One hundred forty-nine (51%) of them had species-level matches in reference libraries (>98% similarity) while 76 additional OTUs (26%) could be identified to higher taxonomic levels. Decapods that have a mutualistic relationship with Pocillopora and are typically dominant among coral branches, represent a minor contribution of the predators' diets. Instead, predators mainly consumed transient species including pelagic taxa such as copepods, chaetognaths and siphonophores suggesting non random feeding behavior. We also identified prey species known to have direct negative interactions with stony corals, such as Hapalocarcinus sp, a gall crab considered a coral parasite, as well as species of vermetid snails known for their deleterious effects on coral growth. Pocillopora DNA accounted for 20.8% and 20.1% of total number of sequences in the guts of the flame hawkfish and coral croucher but it was not detected in the guts of the arc-eye hawkfish. Comparison of diets among the three fishes demonstrates remarkable partitioning with nearly 80% of prey items consumed by only one predator. Overall, the taxonomic resolution provided by the metabarcoding approach highlights a highly complex interaction web and demonstrates that levels of trophic partitioning among coral reef fishes have likely been underestimated. Therefore, we strongly encourage further empirical approaches to dietary studies prior to making assumptions of trophic equivalency in food web reconstruction. How to cite this article Leray et al. (2015), Metabarcoding dietary analysis of coral dwelling predatory fish demonstrates the minor contribution of coral mutualists to their highly partitioned, generalist diet. PeerJ 3:e1047
ISSN: 2167-8359

Droits : http://creativecommons.org/licenses/by/
hal-01174184
https://hal-univ-perp.archives-ouvertes.fr/hal-01174184
https://hal-univ-perp.archives-ouvertes.fr/hal-01174184/document
https://hal-univ-perp.archives-ouvertes.fr/hal-01174184/file/peerj-1047.pdf
DOI : 10.7717/peerj.1047

Éditeur(s) : HAL CCSD Cambridge University Press (CUP)
Résumé : International audience
We studied the monogenean communities of 34 species of butterflyfish from the tropical Indo-West Pacific, identifying 13 dactylogyrid species (including two species that are presently undescribed). Monogenean assemblages differed significantly between host species in terms of taxonomic structure, intensity and prevalence. Parasite richness ranged from 0 (Chaetodon lunulatus) to 11 (C. auriga, C. citrinellus and C. lunula). Host specificity varied between the dactylogyrids species, being found on 2-29 of the 34 chaetodontid species examined. Sympatric butterflyfish species were typically parasitized by different combinations of dactylogyrid species, suggesting the existence of complex host-parasite interactions. We identified six clusters of butterflyfish species based on the similarities of their dactylogyrid communities. Dactylogyrid richness and diversity were not related to host size, diet specialization, depth range or phylogeny of butterflyfish species. However, there was a weak positive correlation between monogenean richness and diversity and host geographical range. Most communities of dactylogyrids were dominated by Haliotrema aurigae and H. angelopterum, indicating the importance of the genus Haliotrema in shaping monogenean communities of butterflyfishes. This study casts light on the structure of the monogenean communities of butterflyfishes, suggesting that the diversity and complexity of community structures arises from a combination of host species-specific parameters.
ISSN: 0031-1820

hal-01380679
https://hal-univ-perp.archives-ouvertes.fr/hal-01380679
DOI : 10.1017/S0031182016001463

Éditeur(s) : Blackwell science
Résumé : Peneid shrimp are commonly reared in clear-water aquaria or tanks for short-term studies of 4-6 weeks during controlled experiments, such as nutrition studies to estimate dietary nutrient requirements. Recently, in line with the genetic program at Centre Oceanologique du Pacifique (COP), experimental clear-water facilities were tested for the first time over a longer rearing period. Environmental conditions used to maintain animal growth in clear-water system using a well-balanced diet were defined. After 100 days, shrimp growth rates tended to decrease and only by adjusting the diet could shrimp complete their life cycle and reach maturation size of around 40 g. This paper presents information on stocking density, diet quality and husbandry linked to reproduction that must be considered to successfully rear animals from PL's to breeder size in clear water. By following these protocols a minimum amount of breeders can be used to meet production goals. Moreover, by isolating a small group of individuals, genetic diversity can be preserved, thereby allowing specific crosses for selective breeding purposes. Length of trials, amount of feed, composition of feed, growth performances and maturation success are reported and should encourage further studies to optimize rearing conditions in clear-water rearing.
Aquaculture Research (1355-557X) (Blackwell science), 2004-11 , Vol. 35 , N. 13 , P. 1244-1252

Droits : 2004 Blackwell Synergy
http://archimer.ifremer.fr/doc/2004/publication-619.pdf
DOI:10.1111/j.1365-2109.2004.01145.x
http://archimer.ifremer.fr/doc/00000/619/

Éditeur(s) : HAL CCSD
Résumé : International audience
In all vertebrate species, estrogens play a crucial role in the development, growth, and function of reproductive and nonreproductive tissues. A large number of natural or synthetic chemicals present in the environment and diet can interfere with estrogen signaling; these chemicals are called endocrine disrupting chemicals (EDCs) or xenoestrogens. Some of these compounds have been shown to induce adverse effects on human and animal health, and some compounds are suspected to contribute to diverse disease development. Because xenoestrogens have varying sources and structures and could act in additive or synergistic effects when combined, they have multiple mechanisms of action. Consequently, an important panel of in vivo and in vitro bioassays and chemical analytical tools was used to screen, evaluate, and characterize the potential impacts of these compounds on humans and animals. In this paper, we discuss different molecular actions of some of the major xenoestrogens found in food or the environment, and we summarize the current models used to evaluate environmental estrogens.
Int J Endocrinol

Droits : info:eu-repo/semantics/OpenAccess
inserm-00863365
http://www.hal.inserm.fr/inserm-00863365
http://www.hal.inserm.fr/inserm-00863365/document
http://www.hal.inserm.fr/inserm-00863365/file/501851.pdf
PUBMED : 23737774

Éditeur(s) : HAL CCSD Royal Society of Chemistry
Résumé : International audience
Chemical mediation regulates behavioral interactions between species and thus affects population structure,community organization and ecosystem function. Among marine taxa that have developed chemicalmediation strategies, gastropods belong to a diverse group of molluscs found worldwide, including specieswith a coiled, reduced or absent shell. Most gastropods use natural products to mediate a wide range ofbehaviors such as defense, prey location or interactions with con- and hetero-geners. Their chemicallydefended diet, such as cyanobacteria, algae, sponges, bryozoans and tunicates, provides them witha considerable opportunity either as shelter from predators, or as a means to enhance their own chemicaldefense. In addition to improving their defenses, molluscs also use prey secondary metabolites in complexchemical communication including settlement induction, prey detection and feeding preferences. Theassimilation of prey secondary metabolites further provides the opportunity for interactions withconspecifics via diet-derived chemical cues or signals. This review intends to provide an overview on thesequestration, detoxification, and biotransformation of diet-derived natural products, as well as the role ofthese compounds as chemical mediators in gastropod-prey interactions.
ISSN: 0265-0568

hal-01563402
https://hal-univ-perp.archives-ouvertes.fr/hal-01563402
DOI : 10.1039/c6np00097e

Éditeur(s) : HAL CCSD Wiley
Résumé :  
absent
ISSN: 0307-6946

hal-01032107
https://hal.archives-ouvertes.fr/hal-01032107
DOI : 10.1111/j.1365-2311.2011.01265.x

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
While the populations of large herbivores are being depleted in many tropical rainforests, the importance of their trophic role in the ecological functioning and biodiversity of these ecosystems is still not well evaluated. This is due to the outstanding plant diversity that they feed upon and the inherent difficulties involved in observing their elusive behaviour. Classically, the diet of elusive tropical herbivores is studied through the observation of browsing signs and macroscopic analysis of faeces or stomach contents. In this study, we illustrate that the original coupling of classic methods with genetic and ethnobotanical approaches yields information both about the diet diversity, the foraging modalities and the potential impact on vegetation of the largest terrestrial mammal of Amazonia, the lowland tapir. The study was conducted in the Guianan shield, where the ecology of tapirs has been less investigated. We identified 92 new species, 51 new genera and 13 new families of plants eaten by tapirs. We discuss the relative contribution of our different approaches, notably the contribution of genetic barcoding, used for the first time to investigate the diet of a large tropical mammal, and how local traditional ecological knowledge is accredited and valuable for research on the ecology of elusive animals.
ISSN: 1932-6203

halsde-00676374
https://hal.archives-ouvertes.fr/halsde-00676374
DOI : 10.1371/journal.pone.0025850
PUBMED : 21991372

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : Characterizing the trophic relationships between large herbivores and the outstanding plant diversity in rainforest is a major challenge because of their elusiveness. This is crucial to understand the role of these herbivores in the functioning of the rainforest ecosystems. We tested a non-invasive approach based on the high-throughput sequencing of environmental samples using small plant plastid sequences (the trnL P6 loop) and ribosomal ITS1 primers, referred to as DNA metabarcoding, to investigate the diet of the largest neotropical herbivore, the lowland tapir. Sequencing was performed on plant DNA extracted from tapir faeces collected at the Nouragues station, a protected area of French Guiana. In spite of a limited sampling, our approach reliably provided information about the lowland tapir's diet at this site. Indeed, 95.1% and 74.4% of the plant families and genera identified thanks to the trnL P6 loop, respectively, matched with taxa already known to be consumed by tapirs. With this approach we were able to show that two families and eight new genera are also consumed by the lowland tapir. The taxonomic resolution of this method is limited to the plant family and genera. Complementary barcodes, such as a small portion of ITS1, can be used to efficiently narrow identifications down to the species in some problematic families. We will discuss the remaining limitations of this approach and how useful it is at this stage to unravel the diet of elusive rainforest herbivores and better understand their role as engineers of the ecosystem.
ISSN: 1932-6203

hal-01190578
https://hal.archives-ouvertes.fr/hal-01190578
PRODINRA : 209109
PUBMED : 23560107
DOI : 10.1371/journal.pone.0060799

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Biofouling increases the operational and economic costs associated with pearl production. As currentprocedures for reducing oyster biofouling can be detrimental to survival and growth and may pollute thesurrounding environment developing alternative, biologically-mediated, methods could potentially in-crease both production and ecological sustainability. With this in mind, the present study investigatednatural cleaning of black-lipped pearl oysters, Pinctada margaritifera, by butterflyfishes (Chaetodon). Thefeeding behaviour of six butterflyfish species was examined at Rangiroa Atoll, French Polynesia: Chae-todon auriga, Chaetodon citrinellus, Chaetodon ephippium, Chaetodon lunulatus, Chaetodon trifascialis andChaetodon ulietensis. All species cleaned the surface of pearl oysters by removing epibionts (from 16% to40% of total biomass), although dietary variation may explain different cleaning efficiencies. Generalistomnivores (C. auriga, C. citrinellus, C. ephippium and C. ulietensis) were the most efficient cleaners (%cleaning range: 26e40% of total biomass). Within this group, C. ephippium removed the most biomass(average of 41%) targeting algae and anemones. However, C. auriga targeted the most diverse range ofepibionts, removing significant amounts of algae, sponges, tunicates, and anemones. These resultssuggest that foraging by butterflyfishes can substantially reduce biofouling on economically-importanttropical bivalves.
ISSN: 0272-7714

hal-01434152
https://hal-univ-perp.archives-ouvertes.fr/hal-01434152
DOI : 10.1016/j.ecss.2016.04.001

Résumé : Les systèmes d'élevage des petits ruminants au pâturage sont les plus répandus en zone tropicale humide mais l'exposition aux strongles gastro-intestinaux entraîne des pertes importantes de production. L'objectif de ce travail est d'évaluer un système de gestion mixte du pâturage associant diverses espèces animales permettant à priori d'accroître les performances via la réduction du parasitisme et!ou une meilleure alimentation. L'étude de la littérature a conduit à une méta-analyse confirmant de meilleures performances individuelles ou à l'hectare pour les ovins en mixte. Préalablement un dispositif visant à vérifier la non-transmission des larves d'Haemonchus contortus des caprinsaux génisses Créoles a été validé. Un second dispositif avec des chevrettes conduites en mixte, infestées ou pas par Haemonchus comortus (Ml et MnI) ont été comparées à des chevrettes contrôles infestées ou non (CI et CnI). Ce dispositif a été conduit pendant 2 ans avec des mesures du couvert pâturé, des mesures individuelles des quantités ingérées, de la digestibilité, du parasitisme et de la croissance. De plus fortes croissances ont étéobservées en pâturage mixte que les chevrettes soient infestées ou pas (43.25 et 31.68 glj pour MDI et MI vs. 32.44 et 17.91 glj) avec une moindre biomasse. Les mesures d'ingestion et d'ingéré digéré ont été corrélées aux croissances des chevrettes contrairement aux variables parasitaires et met en évidence le rôle de l'alimentation et de la résilience dans le bénéfice du pâturage mixte. Une autre gestion intégrée du pâturage a été étudiée basée sur l'utilisation du vermicompost et s' ant sur les mêmes leviers d'action: l'alimentation et le itisme
Systems of small ruminant grazing are most prevalent in the humid tropics but this environment exposes animals to gastro-intestinal with production losses. The objective ofthis thesis is to evaluate a system ofmixed management ofthe pasture combining various animal species, which allows a priori to increase animal performance by reducing the parasitism and/or better nutrition. The study of literature bas led to a meta-analysis confirming the better individual performances or calculated per ha for sheep reared mixed. The first experiment validated the non-transmission of Iarvae ofHaemonchus contortus from goats to heifers. In a second experiment, goats mixed with heifers, infested or not with Haemonchus contortus (Ml vs MnI) were compared with controls goats, reared alone, infested or not (CI and CNI). This deviee with a continuous driving was studied for two years with measurements on the sward, individual measures of intake, digestibility, parasitism and growth ofthe goats. The highest growth rates were measured with the mixed pasture as goats are infested or not (43.25 and 31.68 g / d for MN! and MI vs. 32.44 and 17,91 g / d) with lower biomass. The herbage intake and the digested herbage intake were well correlated to the growth rate, unIike parasitic variables, and highlight the role of diet in the benefit of mixed driving for goats. Therefore, the infested goats with Haemonchus, expressed greater resilience with improved growth performance compared with controls. Parallel to the study ofmixed pasture, another integrated management of grazing was studied, based on the use of vermicompost and relying on the same levers. namelv throuzh feedinz and parasitism

http://www.theses.fr/2012AGUY0537/document

Éditeur(s) : Public Library Science
Résumé : The blue mussel, Mytilus edulis, is a commercially important species, with production based on both fisheries and aquaculture. Dynamic Energy Budget (DEB) models have been extensively applied to study its energetics but such applications require a deep understanding of its nutrition, from filtration to assimilation. Being filter feeders, mussels show multiple responses to temporal fluctuations in their food and environment, raising questions that can be investigated by modeling. To provide a better insight into mussel–environment interactions, an experiment was conducted in one of the main French growing zones (Utah Beach, Normandy). Mussel growth was monitored monthly for 18 months, with a large number of environmental descriptors measured in parallel. Food proxies such as chlorophyll a, particulate organic carbon and phytoplankton were also sampled, in addition to non-nutritious particles. High-frequency physical data recording (e.g., water temperature, immersion duration) completed the habitat description. Measures revealed an increase in dry flesh mass during the first year, followed by a high mass loss, which could not be completely explained by the DEB model using raw external signals. We propose two methods that reconstruct food from shell length and dry flesh mass variations. The former depends on the inversion of the growth equation while the latter is based on iterative simulations. Assemblages of food proxies are then related to reconstructed food input, with a special focus on plankton species. A characteristic contribution is attributed to these sources to estimate nutritional values for mussels. M. edulis shows no preference between most plankton life history traits. Selection is based on the size of the ingested particles, which is modified by the volume and social behavior of plankton species. This finding reveals the importance of diet diversity and both passive and active selections, and confirms the need to adjust DEB models to different populations and sites.
Plos One (1932-6203) (Public Library Science), 2014-10 , Vol. 9 , N. 10 , P. 1-13

Droits : 2014 Picoche et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
http://archimer.ifremer.fr/doc/00218/32895/31380.pdf
http://archimer.ifremer.fr/doc/00218/32895/31381.pdf
http://archimer.ifremer.fr/doc/00218/32895/31382.pdf
http://archimer.ifremer.fr/doc/00218/32895/31383.pdf
http://archimer.ifremer.fr/doc/00218/32895/31384.pdf