Éditeur(s) : Springer
Résumé : Proteinases from hepatopancreas (HP) and gastric juice (GJ) from wild and cultured red octopus (Octopus maya) were characterized. Hepatopancreas assays revealed optimal activity at pH 4, 9-10 and 10 for wild and pH 3, 8, and 9, for cultured octopuses, for total proteinases, trypsin and chymotrypsin, respectively. In the gastric juice, maximum activity was recorded at pH 6, 8, and 7 for total proteinases, trypsin, and chymotrypsin, respectively for both wild and cultured octopus. A reduction on enzyme activity of 70 and 20% was observed in HP and GJ extracts, respectively when protease inhibitor Pepstatin A was used. That result suggests that the main proteases in the HP were aspartic acid proteinases type (possibly Cathepsin D) and some of them were present in the GJ. Dissociating discontinuous polyacrylamide gel electrophoresis showed activity bands between 20 and 28, 30 and 34, 35 and 45, 60 and 70 kDa, and a last one between 75 and 100 kDa. We concluded that extracellular digestion of O. maya takes place in an acid environment, around pH 6. In contrast, intracellular digestion in the HP is developed at pHs between 3 and 4, where cathepsin D could be the most important enzyme for O. maya.
Aquaculture International (0967-6120) (Springer), 2011-06 , Vol. 19 , N. 3 , P. 445-457

Droits : Springer Science+Business Media B.V. 2010
http://archimer.ifremer.fr/doc/00036/14683/17998.pdf
DOI:10.1007/s10499-010-9360-5
http://archimer.ifremer.fr/doc/00036/14683/

Éditeur(s) : Springer
Résumé : The Golo Margin in eastern Corsica is dissected by four canyons and two gullies which fed turbidite systems. Study of the dispersal of surficial sediments and flow dynamic in the Golo system is based on Kullenberg and interface cores interpreted in relation to a previously published seismic dataset. Cores were described in detail and interpreted within a sedimentary and stratigraphic framework. During the last 42,000 years, gravity processes which occurred in the large systems with a canyon source were mainly slide-induced, differentiated turbulent surges and hyperpycnal flows. Processes occurring in the small system with a gully source are mainly hyperconcentrated and concentrated flows. Deposits from the Corsican Margin can intercalate with products of processes triggered on the Pianosa Ridge located in the eastern part of the basin. During relative sea-level lowstands or during periods of rapid or high-amplitude sea-level fall, only large canyons (South and North Golo) are supplied by carbonate-rich hyperconcentrated and concentrated flows which are channelled in incised valleys on the shelf. During periods of slow or low-amplitude sea-level fall and during sea-level rise, sediments are trapped on a shelf delta and intensely winnowed by shelf hydrodynamic processes. Sand-rich hyperconcentrated and concentrated flows occur. All the systems fed by a canyon are active simultaneously. Gullies form and are active only during periods of sea-level rise. During relative highstands of sea level (Holocene), all the system is draped by hemipelagic sediments. Relative sea-level changes and canyon location relative to river mouths have a strong influence on the nature of sediment input, and the initiation and type of gravity flows which, in turn, control morphology and geometry.
Geo-Marine Letters (0276-0460) (Springer), 2006-12 , Vol. 26 , N. 6 , P. 373-395

Droits : 2006 Springer
http://archimer.ifremer.fr/doc/2006/publication-3594.pdf
DOI:10.1007/s00367-006-0045-z
http://archimer.ifremer.fr/doc/00000/3594/

Éditeur(s) : Springer
Résumé : The transforming growth factor (TGF)-beta superfamily is a group of important growth factors involved in multiple processes such as differentiation, cell proliferation, apoptosis and cellular growth. In the Pacific oyster Crassostrea gigas, the oyster gonadal (og) TGF-beta gene was recently characterized through genome-wide expression profiling of oyster lines selected to be resistant or susceptible to summer mortality. Og TGF-beta appeared specifically expressed in the gonad to reach a maximum when gonads are fully mature, which singularly contrasts with the pleiotropic roles commonly ascribed to most TGF-beta family members. The function of og TGF-beta protein in oysters is unknown, and defining its role remains challenging. In this study, we develop a rapid bacterial production system to obtain recombinant og TGF-beta protein, and we demonstrate that og TGF-beta is processed by furin to a mature form of the protein. This mature form can be detected in vivo in the gonad. Functional inhibition of mature og TGF-beta in the gonad was conducted by inactivation of the protein using injection of antibodies. We show that inhibition of og TGF-beta function tends to reduce gonadic area. We conclude that mature og TGF-beta probably functions as an activator of germ cells development in oyster.
Marine Biotechnology (1436-2228) (Springer), 2011-10 , Vol. 13 , N. 5 , P. 971-980

Droits : Springer Science+Business Media, LLC 2011
http://archimer.ifremer.fr/doc/00042/15371/13438.pdf
DOI:10.1007/s10126-010-9361-4
http://archimer.ifremer.fr/doc/00042/15371/

Éditeur(s) : Springer
Résumé : We investigated the habitat use in green turtles exploiting a 13-ha multispecific seagrass meadow at Mayotte Island, south-western Indian Ocean. A phytoecological survey shows the occurrence of eight seagrass species, dominated by Halodule uninervis and Syringodium isoetifolium, distributed according to four distinct seagrass communities along the depth gradient. Direct underwater censuses show that green turtles occurred all over the meadow. Yet when community relative surface area was taken into account green turtles preferentially frequented the most seaward, biomass-richer S. isoetifolium-dominated community, suggesting that green turtles compensate for their intrinsically nutrient-poor herbivorous diet. Additionally, smaller (80 cm standard curved carapace length, SCCL) individuals also preferentially occurred in the most shoreward H. univervis-dominated community where no larger ([80 cm SCCL) individuals were sighted, suggesting habitat use is indicative of diet selection and may reflect size-specific food requirements and physiology.
Marine Biology (0025-3162) (Springer), 2010-12 , Vol. 157 , N. 12 , P. 2581-2590

Droits : 2010 Springer
http://archimer.ifremer.fr/doc/00018/12918/10201.pdf
DOI:10.1007/s00227-010-1520-7
http://archimer.ifremer.fr/doc/00018/12918/

Éditeur(s) : Springer
Résumé : Because of their characteristic living environments, marine organisms produce a variety of lipids. Fatty acids constitute the essential part of triglycerides and wax esters, which are the major components of fats and oils. Nevertheless, phospholipids and glycolipids have considerable importance and will be taken into account, especially the latter compounds that excite increasing interest regarding their promising biological activities. Thus, in addition to the major polyunsaturated fatty acids (PUFA) such as eicosapentaenoic (EPA) and docosahexaenoic (DHA) acids, a great number of various fatty acids occur in marine organisms, e.g. saturated, mono- and diunsaturated, branched, halogenated, hydroxylated, methoxylated, non-methylene-interrupted. Various unprecedented chemical structures of fatty acids, and lipid-containing fatty acids, have recently been discovered, especially from the most primitive animals such as sponges and gorgonians. This review of marine lipidology deals with recent advances in the field of fatty acids since the end of the 1990s. Different approaches will be followed, mainly developing biomarkers of trophic chains in marine ecosystems and of chemotaxonomic interest, reporting new structures, especially those with biological activities or biosynthetic interest. An important part of this review will be devoted to the major PUFA, their relevance to health and nutrition, their biosynthesis, their sources (usual and promising) and market.
Marine Biotechnology I (0724-6145) (Springer), 2005 , Vol. 96 , P. 49-125

Droits : 2005 Springer-Verlag
http://archimer.ifremer.fr/doc/2005/publication-937.pdf
DOI:10.1007/b135782
http://archimer.ifremer.fr/doc/00000/937/

Éditeur(s) : HAL CCSD Springer Verlag (Germany) Springer Verlag
Résumé : International audience
Separated olivine grains from a deeply subducted serpentinized wehrlite (Changawuzi in the western Tianshan ultrahigh-pressure belt, China) were analysed with unpolarized transmission FTIR and the Ti contents were determined using LA-ICP-MS. The major bands in the olivine spectra display striking similarities to Ti-clinohumite and are interpreted as OH in lamellae. The quantification of the water content in lamellae requires calibration of the IR-absorption for such bands. We have obtained a new absorption coefficient for Ti-clinohumite of 0.125+/−0.017 ppm cm2 based on polarized FTIR measurements on three orthogonal sections through a large single crystal of Ti-clinohumite from Val Malenco, which has a known water content of 1.53 wt%. The resulting water content in olivine using this calibration factor ranges from 440 to 2,600 ppm and correlates positively with the Ti content that ranges from 130 to 1,400 ppm. For the quantification of the water content in Ti-chondrodite and Ti-clinohumite that are associated with olivine, we developed a new method using attenuated total reflectance FTIR spectroscopy. Ti-chondrodite and Ti-clinohumite display similar IR bands at ~3,562, 3,525 and ~3,583–3,586 cm−1. As in olivine, the water content and Ti content correlate in both Ti-clinohumite and Ti-chondrodite, indicating an intergrowth of these minerals, which has been confirmed by TEM analyses. Our results confirm previous suggestions that there is a strong correlation between the Ti content of ultramafic rocks and their capacity to transport water to the deeper mantle in subduction zones beyond conditions where hydrous phases are stable.
ISSN: 0010-7999

hal-01172237
https://hal.archives-ouvertes.fr/hal-01172237
DOI : 10.1007/s00410-014-0992-8

Éditeur(s) : HAL CCSD Springer Verlag (Germany) Springer Verlag
Résumé : International audience
La Cabaña peridotite is part of a dismembered ophiolite complex located within the metamorphic basement of the Coastal Cordillera of south-central Chile, and is the only location in Chile were Cr-spinels have been described so far. The La Cabaña peridotite is part of the Western Series unit, which comprises meta-sedimentary rocks, metabasites, and serpentinized ultramafic rocks. This unit has been affected by greenschist-facies metamorphism with reported peak PT conditions of 7.0–9.3 kbar and 380°–420 °C. Within La Cabaña peridotite Cr-spinels are present in two localities: Lavanderos and Centinela Bajo. In Lavanderos, Cr-spinel occurs in small chromitite pods and as accessory/disseminated grains with a porous or spongy texture in serpentinite, whereas in Centinela Bajo Cr-spinel is present as accessory zoned grains in partly serpentinized dunites, and in chromitite blocks. All Cr-spinels display variable degrees of alteration to Fe2+-rich chromite with a variation trend of major elements from chromite to Fe2+-rich chromite similar to those observed in other locations, i.e., an increase in Fe2O3 and FeO, a decrease in Al2O3 and MgO. Cr2O3 content increases from chromite to Fe2+-rich chromite in chromitite pods from Lavanderos and chromitite blocks from Centinela Bajo, but decreases in ferrian chromite zones in accessory grains from Centinela Bajo. The minor element (Ti, V, Zn, Ni) content is mostly low and does not exceed 0.4 wt.%, with the exception of MnO (<0.9 wt.%), which shows a correspondence with increasing degree of alteration. Cr# (Cr/Cr + Al) versus Mg# (Mg/Mg + Fe2+) and Fe3+/Fe3++Fe2+ versus Mg# plots are used to illustrate the Cr-spinel alteration process. Overall, the Cr-spinels from Lavanderos (chromitite pods and disseminated grains) exhibit Cr# values ranging from 0.6 to 1.0, Mg# (Mg/Mg + Fe2+) below 0.5, and (Fe3+/Fe3++Fe2+) <0.4. Cr-spinels from chromitites in Centinela Bajo have Cr# and Mg# values that range from 0.65 to 1.0, and 0.7-0.3, respectively, and (Fe3+/Fe3++Fe2+) < 0.4. Accessory Cr-spinels from Centinela Bajo have Cr# and Mg# values that range from 0.55 to 1.0, and 0.6- < 0.1, respectively. The (Fe3+/Fe3++Fe2+) ratio is less than 0.4 in chromite cores and Fe2+-rich chromite, and >0.5 in ferrian chromite and Cr-magnetite. Interpretation of the data obtained and Cr-spinel textures indicate that the alteration of Cr-spinel is a progressive process that involves in its initial stages the reaction of chromite with olivine under water-saturated conditions to produce clinochlore and Fe2+-rich chromite. During this stage the chromite can also incorporate Ni, Mn, and/or Zn from the serpentinization fluids. As alteration progresses, Fe2+-rich chromite loses mass resulting in the development of a spongy texture. In a later stage and under more oxidizing conditions Fe3+ is incorporated in chromite/Fe2+-rich chromite shifting its composition to an Fe3+-rich chromite (i.e., ferrian chromite). Depending on the fluid/rock and Cr-spinel/silicate ratios, Cr-magnetite can also form over Fe2+-rich chromite and/or ferrian chromite as a secondary overgrowth. The compositional changes observed in Cr-spinels from La Cabaña reflect the initial stages of alteration under serpentinization conditions. Results from this study show that the alteration of Cr-spinels is dependent on temperature. The degree and extent of alteration (formation of Fe2+-rich and/or ferrian chromite) are controlled by the redox nature of the fluids, the Cr-spinel/silicate and the fluid/rock ratios.
ISSN: 0930-0708

hal-01172266
https://hal.archives-ouvertes.fr/hal-01172266
DOI : 10.1007/s00710-014-0335-5

Éditeur(s) : Springer Heidelberg
Résumé : This study describes how three individual fish, Atlantic cod (Gadus morhua L.), developed a novel behaviour and learnt to use a dorsally attached external tag to activate a self-feeder. This behaviour was repeated up to several hundred times, and over time these fish fine-tuned the behaviour and made a series of goal-directed coordinated movements needed to attach the feeder’s pull string to the tag and stretch the string until the feeder was activated. These observations demonstrate a capacity in cod to develop a novel behaviour utilizing an attached tag as a tool to achieve a goal. This may be seen as one of the very few observed examples of innovation and tool use in fish.
Animal Cognition (1435-9448) (Springer Heidelberg), 2014-05 , Vol. 17 , N. 3 , P. 779-785

Droits : Springer-Verlag Berlin Heidelberg 2013
http://archimer.ifremer.fr/doc/00171/28217/26513.pdf
DOI:10.1007/s10071-013-0710-3
http://archimer.ifremer.fr/doc/00171/28217/

Éditeur(s) : HAL CCSD Springer Verlag (Germany) Springer Verlag
Résumé : Direct numerical simulations of flow through two millimeter-scale rock samples of limestone and sandstone are performed using three diverse fluid dynamic simulators. The resulting steady-state velocity fields are compared in terms of the associated empirical probability density functions (PDFs) and key statistics of the velocity fields. The pore space geometry of each sample is imaged at 5.06−μm voxel size resolution using X-ray microtomography. The samples offer contrasting characteristics in terms of total connected porosity (about 0.31 for the limestone and 0.07 for the sandstone) and are typical of several applications in hydrogeology and petroleum engineering. The three-dimensional fluid velocity fields within the explicit pore spaces are simulated using ANSYS® FLUENT® ANSYS Inc. (2009), EULAG Prusa et al. (Comput. Fluids 37, 1193–1207 2008), and SSTOKES Sarkar et al. (2002). These computational approaches are highly disperse in terms of algorithmic complexity, differ in terms of their governing equations, the adopted numerical methodologies, the enforcement of internal no-slip boundary conditions at the fluid-solid interface, and the computational mesh structure. As metrics of comparison to probe in a statistical sense the internal similarities/differences across sample populations of velocities obtained through the computational systems, we consider (i) integral quantities, such as the Darcy flux and (ii) main statistical moments of local velocity distributions including local correlations between velocity fields. Comparison of simulation results indicates that mutually consistent estimates of the state of flow are obtained in the analyzed samples of natural pore spaces despite the considerable differences associated with the three computational approaches. We note that in the higher porosity limestone sample, the structures of the velocity fields obtained using ANSYS FLUENT and EULAG are more alike than either compared against the results obtained using SSTOKES. In the low-porosity sample, the structures of the velocity fields obtained by EULAG and SSTOKES are more similar than either is to the fields obtained using ANSYS FLUENT. With respect to macroscopic quantities, ANSYS FLUENT and SSTOKES provide similar results in terms of the average vertical velocity for both of the complex microscale geometries considered, while EULAG tends to render the largest velocity values. The influence of the pore space structure on fluid velocity field characteristics is also discussed.
ISSN: 1420-0597

hal-01174152
https://hal.archives-ouvertes.fr/hal-01174152
DOI : 10.1007/s10596-015-9486-7

Éditeur(s) : Springer
Résumé : The great fecundity and very high larval mortality of most marine invertebrates and fish make possible substantial variance in the number of offspring contributed by adults to subsequent generations. The reproductive success of such organisms may thus resemble a sweepstakes lottery, in which a minority of progenitors succeeds in replacing an entire population, while the majority fails to procreate. One specific prediction of this hypothesis, that genetic diversity of newly settled cohorts should be less than that of the adult population, is tested in the present study. Microsatellite DNA markers were examined in naturally spawned juvenile European flat oysters Ostrea edulis (L.), collected over a 12-day period in 1993 from the western Mediterranean Sea, near Sete, France (43 degrees 32'N, 3 degrees 56'E) and grown out for a period of up to 10 months. Variation in these juveniles was compared to that in a pooled sample of adults collected in 1994 from two locations (Thau Lagoon and Port St. Louis) that had statistically homogeneous allelic frequencies. Though nearly twice as large as the pooled adult sample, the juvenile sample had only 60% of the adult allelic diversity. Analyses of linkage disequilibrium and kinship, as well as estimation of the effective number of parents, suggested that 10-20 adults produced this juvenile cohort. This observation supports the hypothesis of sweepstakes reproductive success and suggests that partial inbreeding may occur even in species with large populations and dispersing planktonic larvae.
Marine Biology (0025-3162) (Springer), 2007-03 , Vol. 150 , N. 6 , P. 1173-1182

Droits : 2007 Springer
http://archimer.ifremer.fr/doc/2007/publication-2616.pdf
DOI:10.1007/s00227-006-0441-y
http://archimer.ifremer.fr/doc/00000/2616/

Éditeur(s) : HAL CCSD Springer Verlag (Germany) Springer Verlag
Résumé : The present study aims to review palaeoecological evidence for environmental changes induced by human activities over the last few millennia in the montane landscapes of Morocco. The study is based on well-dated pollen and geochemical records from the Rif and the Middle Atlas mountains, to show spatial and temporal variation in the onset and intensity of exploitation of forest, soil and mineral resources. Before ca. 2000 BP, anthropogenic impact was minimal. At about that time, abrupt changes of the arboreal pollen proportions, with a decline in all tree taxa, indicate a reduction of the forest cover interpreted as being anthropogenic. In the Rif Mountains, increased influx of carbonates (Ca) in the sedimentary records indicates enhanced soil erosion coincident with the reduction in tree cover. In the Middle Atlas, reduced forest cover is linked to geochemical evidence for mining and metallurgy of lead (Pb), copper (Cu) and zinc (Zn). These industrial activities correspond to the expansion of the Roman Empire into Morocco at around AD 40 and show a decline when the Romans were displaced by the Vandals about five centuries later.
ISSN: 0263-0338

hal-01217206
https://hal.archives-ouvertes.fr/hal-01217206
DOI : 10.1007/s10437-015-9186-7

Éditeur(s) : HAL CCSD Springer Verlag (Germany) Springer Verlag
Résumé : International audience
Recent mathematical calculations allow us to define set fracture intensity (I), i.e., the amount of rock mass affected by fracture sets, independently of the investigation mode. This parameter, characteristic of each rock mass, is of much interest to describe the mechanical response of the rock mass to external influences. The aim of this work is to apply these mathematical equations on one site using measurements of three distinct fracture sets: (1) on a plane surface, (2) along a scanline, and (3) using borehole imaging, in order to evaluate and explain variability in collected data. Even if the three types of measurements give differences on absolute intensity values, they still define similar trends, i.e., the order of the fracturing impact of joint sets is the same from the three measurement methods, irrespective of the fact that obtained values are quite different from one survey method to another. We discuss the possible origins of these biases.
ISSN: 1435-9529

hal-01121556
https://hal.archives-ouvertes.fr/hal-01121556
DOI : 10.1007/s10064-014-0572-1

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Purpose The objective of this article was to estimate the social cost of respiratory cancer cases attributable to occupational risk factors in France in 2010. Methods According to the attributable fraction method and based on available epidemiological data from the lit- erature, we estimated the number of respiratory cancer cases due to each identified risk factor. We used the cost- of-illness method with a prevalence-based approach. We took into account the direct and indirect costs. We estimated the cost of production losses due to morbidity (absenteeism and presenteeism) and mortality costs (years of production losses) in the market and nonmarket spheres. Results The social cost of lung, larynx, sinonasal and mesothelioma cancer caused by exposure to asbestos, chromium, diesel engine exhaust, paint, crystalline silica, wood and leather dust in France in 2010 were estimated at between 917 and 2,181 million euros. Between 795 and 2,011 million euros (87-92 %) of total costs were due to lung cancer alone. Asbestos was by far the risk factor representing the greatest cost to French society in 2010 at between 531 and 1,538 million euros (58-71 %), ahead of diesel engine exhaust, representing an estimated social cost of between 233 and 336 million euros, and crystalline silica (119-229 million euros). Indirect costs represented about 66 % of total costs. Conclusion Our assessment shows the magnitude of the economic impact of occupational respiratory cancers. It allows comparisons between countries and provides valu- able information for policy-makers responsible for defining public health priorities.
ISSN: 1618-7598

halshs-00922838
https://halshs.archives-ouvertes.fr/halshs-00922838
DOI : 10.1007/s10198-013-0528-6
PUBMED : 23974964

Éditeur(s) : Springer
Résumé : The French Atlantic coast contains large highly productive intertidal mudflats that are colonised by juveniles of numerous flatfish species, including the common sole (Solea solea, L.). These ecosystems are also heavily exploited by the shellfish farming industry. Intensive bivalve culture is associated with substantial biodeposition (1-6 t-dw ha(-1) day(-1)), which directly or indirectly contributes to increase exopolysaccharide (EPS) concentrations at the interface between water column and seabed. EPS are long-chain molecules organised into colloids, which influence rheological properties of water, particularly viscosity. Increased water viscosity had consequences for ventilatory activity of juvenile flatfish, whereby the minimal pressure required to ventilate the medium increases directly with EPS concentration. Moreover, the critical EPS concentration ([EPS](crit)) at which water was no longer able to flow through the branchial basket ranged from almost nil to over 30 mg l(-1), depending on species and size. [EPS](crit) was lower in small individuals and individuals from species with high metabolic rates (turbot and plaice). These differences may depend upon gill and bucco-branchial cavity morphometrics. The ventilatory workload of sole increased with viscosity to a maximum at 2 mg EPS l(-1). Viscosity might, therefore, be a limiting factor for flatfish post larvae, which colonise the intertidal mudflats, depending upon their size and species. EPS concentrations in the field can reach 15 mg l(-1). A selective effect is conceivable but remains to be estimated in the field.
Marine Biology (0025-3162) (Springer), 2007-09 , Vol. 152 , N. 4 , P. 803-814

Droits : 2007 Springer
http://archimer.ifremer.fr/doc/2007/publication-2801.pdf
DOI:10.1007/s00227-007-0731-z
http://archimer.ifremer.fr/doc/00000/2801/

Éditeur(s) : HAL CCSD Springer
Résumé : International audience
With the development of genetics methods, it becomes possible to study the population structure and some aspects of the reproductive behaviour of endangered sharks. Here we describe the isolation of 20 polymorphic microsatellite markers in the bull shark Carcharhinus leucas (Carcharhinidae) and their characteristics. Two to 10 alleles per locus were detected. Observed and expected heterozygosities ranged from 0.00 to 0.78 and from 0.05 to0.80, respectively. Four markers showed deviations from Hardy–Weinberg equilibrium; among them, three showed presence of null alleles. No linkage disequilibrium was detected among any of the loci. Moreover, four, 11 and 19 of these 20 markers successfully cross-amplified in the tiger shark Galeocerdo cuvier, the sandbar shark Carcharhinus plumbeus and the dusky shark Carcharhinus obscurus, respectively.
ISSN: 1877-7252

hal-01253773
https://hal.archives-ouvertes.fr/hal-01253773
https://hal.archives-ouvertes.fr/hal-01253773/document
https://hal.archives-ouvertes.fr/hal-01253773/file/Pirog%20et%20al.%20-%202015%20-%20Isolation%20and%20characterization%20of%2020%20microsatellit_hal.pdf
DOI : 10.1007/s12686-014-0308-3

Éditeur(s) : Springer
Résumé : Terrestrial and marine biodiversity provides the basis for both ecosystems functioning and numerous commodities or services that underpin human well-being. From several decades, alarming trends have been reported worldwide for both biodiversity and ecosystem services. Therefore the sustainable management of biodiversity requires a double viewpoint balancing ecological conservation with the welfare of human societies. Understanding the underlying trade-offs, synergies and interactions imposes the development of interdisciplinary researches and methods. In that respect, bio-economic or ecological economic modeling is likely to play a major role. The present paper intends to elicit the key features, strengths and challenges of bio-economic approaches especially in mathematical and computational terms. It first recall the main bio-economic methods, models and decisional instruments used in these types of analyses. Then the paper shows to what extent bio-economic sustainability lies between equilibrium, viability and optimality mathematical frameworks. It ends up by identifying new major challenges among which the operationalization of ecosystem based management, the precautionary principle and the implementation of governance are especially important. Computational Management Science Computational Management Science Look Inside
Computational Management Science (1619-697X) (Springer), 2013-12 , Vol. 10 , N. 4 , P. 353-364

Droits : Springer-Verlag Berlin Heidelberg 2013
http://archimer.ifremer.fr/doc/00171/28208/26510.pdf
DOI:10.1007/s10287-013-0194-2
http://archimer.ifremer.fr/doc/00171/28208/

Éditeur(s) : Springer
Résumé : Batch culture experiments using viral enrichment were conducted to test the response of a coastal bacterial community to autochthonous (i.e., co-existing) or allochthonous riverine viruses. The effects of viral infections on bacterial dynamics and activity were assessed by epifluorescence microscopy and thymidine incorporation, respectively, whereas the effect of viral infection on bacterial community composition was examined by polymerase chain reaction-single strand conformation polymorphism 16S ribosomal RNA fingerprinting. The percentages of high nucleic acid-containing cells, evaluated by flow cytometry, were significantly correlated (r (2) = 0.91, n = 12, p < 0.0001) to bacterial production, making this value a good predictor of active cell dynamics along the study. While confinement and temperature were the two principal experimental factors affecting bacterial community composition and dynamics, respectively, additions of freshwater viruses had significant effects on coastal bacterial communities. Thus, foreign viruses significantly reduced net bacterial population increase as compared to the enrichment treated with inactivated virus. Moreover, freshwater viruses recurrently and specifically affected bacterial community composition, as compared to addition of autochthonous viruses. In most cases, the combined treatment viruses and freshwater dissolved organic matter helped to maintain or even enhance species richness in coastal bacterial communities in agreement to the 'killing the winner' hypothesis. Thus, riverine virus input could potentially influence bacterial community composition of the coastal bay albeit with modest modification of bulk bacterial growth.
Microbial Ecology (0095-3628) (Springer), 2009-02 , Vol. 57 , N. 2 , P. 295-306

Droits : 2009 Springer
http://archimer.ifremer.fr/doc/2009/publication-6636.pdf
DOI:10.1007/s00248-008-9428-1
http://archimer.ifremer.fr/doc/00000/6636/

Éditeur(s) : Springer
Résumé : We present the global general circulation model IPSL-CM5 developed to study the long-term response of the climate system to natural and anthropogenic forcings as part of the 5th Phase of the Coupled Model Intercomparison Project (CMIP5). This model includes an interactive carbon cycle, a representation of tropospheric and stratospheric chemistry, and a comprehensive representation of aerosols. As it represents the principal dynamical, physical, and bio-geochemical processes relevant to the climate system, it may be referred to as an Earth System Model. However, the IPSL-CM5 model may be used in a multitude of configurations associated with different boundary conditions and with a range of complexities in terms of processes and interactions. This paper presents an overview of the different model components and explains how they were coupled and used to simulate historical climate changes over the past 150 years and different scenarios of future climate change. A single version of the IPSL-CM5 model (IPSL-CM5A-LR) was used to provide climate projections associated with different socio-economic scenarios, including the different Representative Concentration Pathways considered by CMIP5 and several scenarios from the Special Report on Emission Scenarios considered by CMIP3. Results suggest that the magnitude of global warming projections primarily depends on the socio-economic scenario considered, that there is potential for an aggressive mitigation policy to limit global warming to about two degrees, and that the behavior of some components of the climate system such as the Arctic sea ice and the Atlantic Meridional Overturning Circulation may change drastically by the end of the twenty-first century in the case of a no climate policy scenario. Although the magnitude of regional temperature and precipitation changes depends fairly linearly on the magnitude of the projected global warming (and thus on the scenario considered), the geographical pattern of these changes is strikingly similar for the different scenarios. The representation of atmospheric physical processes in the model is shown to strongly influence the simulated climate variability and both the magnitude and pattern of the projected climate changes.
Climate Dynamics (0930-7575) (Springer), 2013-05 , Vol. 40 , N. 9-10 , P. 2123-2165

Droits : The Author(s) 2013. This article is published with open access at Springerlink.com
http://archimer.ifremer.fr/doc/00138/24966/23079.pdf
DOI:10.1007/s00382-012-1636-1
http://archimer.ifremer.fr/doc/00138/24966/

Éditeur(s) : Springer
Résumé : The structure and summertime production of planktonic communities and the role of nondiatom planktonic cells were studied in coastal ponds, which are areas traditionally used for fattening and greening table-sized oysters. The abundance and biomass of nano-microplanktonic protists were determined at weekly intervals between February 1998 and February 1999 in a coastal pond without oysters in the French Atlantic coast near La Rochelle. The production of these microbiotas was determined in the summer period. The structure of plankton communities revealed the following observations: (1) microphytoplanktonic cells were mostly diatoms and dinoflagellates, (2) microzooplanktonic cells were mainly ciliates, and (3) nanoplanktonic cells were represented by pigmented (80-90% of the nanoplankton biomass) and colorless nanoflagellates. Diatoms were dominated by Naviculiineae. Dinoflagellates were dominated by Peridiniales. Oligotrichida were predominant in the ciliate community. Protist biomass levels were nine times higher from April to August (summer period 1033 mu g C L-1) than from September to March (winter period 114 mu g C L-1). Whatever the season, nanoflagellates were dominant in the water column (66 and 53% of the entire protist biomass in the summer and winter periods, respectively). Nanoflagellates represented the highest production of nano-microplanktonic communities (76% of carbon protist production) in the coastal pond in summer and showed the shortest generation time (7.1 h). Dinoflagellates came after nanoflagellates in production (19.5% of carbon protist production). Diatoms represented only a supplementary carbon resource available for higher trophic levels, whereas, until now, they were considered as the principal food of oysters in coastal ponds. Ciliates were a small source of carbon, but their growth rate was high. We suggest, first, that nanoflagellates represented the primary resource available in the pond and could constitute an important food resource for higher trophic levels, such as oysters, farmed in this type of pond. Overall, the system appeared to be more autotrophic than heterotrophic. Because inorganic nutrients are quickly exhausted in a semiclosed pond, pigmented flagellates dominated the carbon biomass, production and biomass of bacteria were high (thus, the microbial food web appeared to be active in this pond), and mixotrophy seemed to be an important trophic mode there.
Microbial Ecology (0095-3628) (Springer), 2007-05 , Vol. 53 , N. 4 , P. 537-548

Droits : 2007 Springer
http://archimer.ifremer.fr/doc/2007/publication-2641.pdf
DOI:10.1007/s00248-006-9087-z
http://archimer.ifremer.fr/doc/00000/2641/

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Variation of dead wood decay rates among tropical trees remains one source of uncertainty in global models of the carbon cycle. Taking advantage of a broad forest plot network surveyed for tree mortality over a 23-year period, we measured the remaining fraction of boles from 367 dead trees from 26 neotropical species widely varying in wood density (0.23–1.24 g cm-3) and tree circumference at death time (31.5–272.0 cm). We modeled decay rates within a Bayesian framework assuming a first order differential equation to model the decomposition process and tested for the effects of forest management (selective logging vs. unexploited), of mode of death (standing vs. downed) and of topographical levels (bottomlands vs. hillsides vs. hilltops) on wood decay rates. The general decay model predicts the observed remaining fraction of dead wood (R2 = 60%) with only two biological predictors: tree circumference at death time and wood specific density. Neither selective logging nor local topography had a differential effect on wood decay rates. Including the mode of death into the model revealed thatstanding dead trees decomposed faster than downed dead trees, but the gain of model accuracy remains rather marginal. Overall, these results suggest that the release of carbon from tropical dead trees to the atmosphere can be simply estimated using tree circumference at death time and wood density.
ISSN: 0029-8549

hal-01094187
https://hal-agroparistech.archives-ouvertes.fr/hal-01094187
DOI : 10.1007/s00442-010-1602-8