Résumé: The avoidance reaction by fish in front of an approaching vessel is a major source of bias in direct biomass assessment and ecological studies based on fisheries acoustics data. An experiment was carried out to compare echosounder data obtained using a small speedboat and a research fisheries vessel generating significant higher noise above conventional reduced-noise standard. The results show that there was no significant difference between the individual fish target strength distributions, and the numbers of schools recorded by both boats, these schools having similar areas and perimeters. However, the schools detected by the noisier vessel were significantly deeper, and unexpectedly had a significantly higher energy level. These findings suggest that noise-reduced vessels trigger a different vessel avoidance reaction. The noise-reduction standard is not sufficient to reduce avoidance behavior. It is also to take into consideration the ambient noise, which could impair perception of the platform by the fish, and the probability that the acoustic stimuli could be less important than visual perception under some local conditions. The paper introduces the concept of partial avoidance and presents a conceptual diagram of the strength of the avoidance reaction. Last, it is not recommended, because of noise reasons, that vessels routinely used for pelagic stock assessment surveys be changed. Indeed standardized time series, which could be disrupted when switching to a new vessel, are more important than the hypothetical gain from change to quieter vessels. Obviously, all long-term surveys must change vessels; best practice will be to estimate the vessel effect before any change to avoid disrupting the time series and/or perform vessel intercalibration surveys.

Résumé: The aim of this study was to demonstrate that fish larvae identified using their COI sequences offer a unique opportunity for improving the knowledge of local fish richness. Fish larvae were sampled at the end of their pelagic phase using light-traps set off the West Coast of La Reunion Island, southwestern Indian Ocean, once per month from October 2014 to March 2015. Among the 5174 larvae caught, 214 morphologically different specimens were selected, 196 successfully barcoded, giving a total of 101 different Barcode Index Numbers (BINs). Among these BINs, 55 had never been recorded in La Reunion exclusive economic zone (EEZ), and 13 were new for the BOLD database. Even if the sampling effort for collecting fish post-larvae during this study was relatively low, it allowed adding at least nine new species to an updated checklist of fishes of La Reunion EEZ.

Résumé: Previous studies have shown that four commercially important demersal species, namely Atlantic cod (Gadus morhua), haddock (Melanogrammus aeglefinus), whiting (Merlangius merlangus), and European plaice (Pleuronectes platessa), spawn in distinct areas across the North Sea. Based on two comprehensive ichthyoplankton surveys in 2004 and 2009, the present study uses generalized additive mixed models to delimit these spawning grounds using the distribution of recently spawned eggs, investigates their relationship to specific environmental conditions, and examines egg dispersal during their development. Results indicate that presence-absence of early stage eggs is more related to temporal and topographic variables, while egg densities are closely linked with hydrography. Egg distribution patterns were relatively consistent during development and only changed near hatching. Compared with historic observations, the location of the spawning grounds appeared stable on the broad scale but centres of egg abundance varied between the surveyed years. Potential effects of long-term climate change and anthropogenic short-term disturbances, such as seismic surveys, on fish reproduction are discussed, pointing out the demand for multispecies studies on these issues.

Résumé: This study investigated the genetic diversity of phytoplankton communities in six shallow lagoons located on the French coast of the northwestern Mediterranean Sea that represented a trophic gradient ranging from oligotrophic to hypereutrophic. The phytoplankton communities were sampled once a month from spring (May) to the beginning of autumn (September/early October) in 2012 and fractionated by size. Metabarcodes were generated from cDNAs by targeting the D1-D2 region of the 28S rRNA gene and pyrosequenced using Roche 454 technology. Examination of the annotated barcodes revealed harmful algal species not previously documented in these lagoons. Three ichthyotoxic species belonging to Pfiesteriaceae were detected: Luciella masanensis was relatively widespread and abundant in many samples, whereas Pfiesteria piscicida and Stoeckeria changwonensis were found as single barcode sequences. Furthermore, a phylogenetic analysis of barcodes annotated as belonging to Pfiesteriaceae suggested the existence of two previously undescribed clades. The other toxic or potentially harmful dinoflagellates detected through rare barcodes were Dinophysis acuminata, Vulcanodinium rugosum, Alexandrium andersonii and A. ostenfeldii. The two most abundant dinoflagellate taxa were Gymnodinium litoralis and Akashiwo sanguinea with respect to sequence numbers. Four diatom species from the genus Pseudo-nitzschia that potentially produce domoic acid were identified (P. galaxiae, P. delicatissima, P. brasiliana and P. calliantha). These observations are discussed in terms of the literature and monitoring records related to the identified taxa in this Mediterranean area. (C) 2017 Elsevier B.V. All rights reserved.

Résumé: 1. Whale shark, the world's largest fish, is believed to be particularly vulnerable owing to its biological characteristics (slow growth, late maturation, great longevity) and is listed as Vulnerable by IUCN and included in Appendix II of CITES. 2. Whale sharks are occasionally encircled in tropical tuna purse-seine nets, throughout this global fishery. Although apparent immediate survival rates following encirclement and release have recently been assessed through scientific onboard observer programmes, a more rigorous methodology is still required for studying post-released survival. 3. This work provides a method for applying pop-up satellite tags and reports an enhanced release procedure for whale sharks. The first assessment of survival after release from purse-seine nets involved six whale sharks tagged between May and September 2014 in the eastern tropical Atlantic Ocean. Five tags transmitted data: three popped up as programmed (after 30 days), while two surfaced prematurely (one after 21 and the other after 71 days (programmed to pop off after 30 and 90 days, respectively)) but showed no sign of unusual behaviour. 4. Overall, whale sharks survived at least 21 days (one at least 71 days) after release from purse-seine nets. These observations based on five large individuals (total length > 8 m), suggest that whale sharks have a good chance of survival when released with the proposed method. 5. Additional tagging in this and other oceans, especially of juveniles which may be more sensitive to encirclement and release operations, is essential to further assess whale shark post-release survival rates in tuna purse-seine fisheries. Copyright © 2016 John Wiley & Sons, Ltd.

Résumé: The “condition” is used as an indicator of fish health and is generally equated with the quantity of energy reserves. Biometric condition factors have been widely used and preferred over costly and time-consuming biochemical condition. Here, we investigated the relevance of four common condition factors based on biometric measurements (Le Cren's index, girth -length index, gonado-somatic index and hepato-somatic index) and of size- and weight -based empirical models to describe the physiological condition of tropical tunas. Biometric condition factors of bigeye (Thunnus obesus), skipjack (Katsuwonus pelamis) and yellowfin (Thunnus albacares) tunas sampled throughout 2013 in the western Indian Ocean region were assessed against benchmark biochemical indices (lipid content, protein content, triacylglycerol:sterol ratio and energy density) estimated in tissues with different physiological functions, i.e. red muscle, white muscle, liver, and gonads. Our findings suggest that tropical tunas do not store lipids in white muscle and that protein content is less variable than lipid content, which largely varies with ontogeny and the seasons according to tissue and species. This variability induced inconsistency between biometric factors, including the empirically adjusted ones, and biochemical indices, with the exception of the gonado-somatic index that fitted well to the composition of the gonads in the three species, and especially in females. (C) 2016 Elsevier Ltd. All rights reserved.

Résumé: Closely related species with divergent life history traits are excellent models to infer the role of such traits in genetic diversity and connectivity. Ophioderma longicauda is a brittle star species complex composed of different genetic clusters, including brooders and broadcasters. These species diverged very recently and some of them are sympatric and ecologically syntopic, making them particularly suitable to study the consequences of their trait differences. At the scale of the geographic distribution of the broadcasters (Mediterranean Sea and northeastern Atlantic), we sequenced the mitochondrial marker COI and genotyped an intron (i51) for 788 individuals. In addition, we sequenced 10 nuclear loci newly developed from transcriptome sequences, for six sympatric populations of brooders and broadcasters from Greece. At the large scale, we found a high genetic structure within the brooders (COI: 0.07 < FST < 0.65) and no polymorphism at the nuclear locus i51. In contrast, the broadcasters displayed lower genetic structure (0 < FST < 0.14) and were polymorphic at locus i51. At the regional scale, the multilocus analysis confirmed the contrasting genetic structure between species, with no structure in the broadcasters (global FST < 0.001) and strong structure in the brooders (global FST = 0.49), and revealed a higher genetic diversity in broadcasters. Our study showed that the lecithotrophic larval stage allows on average a 50-fold increase in migration rates, a 280-fold increase in effective size and a threefold to fourfold increase in genetic diversity. Our work, investigating complementary genetic markers on sympatric and syntopic taxa, highlights the strong impact of the larval phase on connectivity and genetic diversity.

Résumé: While many ectothermic species can withstand prolonged fasting without mortality, food deprivation may have sublethal effects of ecological importance, including reductions in locomotor ability. Little is known about how such changes in performance in individual animals are related to either mass loss during food deprivation or growth rate during re-feeding. This study followed changes in the maximum sprint swimming performance of individual European sea bass, Dicentrarchus labrax, throughout 45 days of food deprivation and 30 days of re-feeding. Maximum sprint speed did not show a significant decline until 45 days of food deprivation. Among individuals, the reduction in sprinting speed at this time was not related to mass loss. After 30 days of re-feeding, mean sprinting speed had recovered to match that of control fish. Among individuals, however, maximum sprinting speed was negatively correlated with growth rate after the resumption of feeding. This suggests that the rapid compensatory growth that occurs during re-feeding after a prolonged fast carries a physiological cost in terms of reduced sprinting capacity, the extent of which shows continuous variation among individuals in relation to growth rate. The long-term repeatability of maximum sprint speed was low when fish were fasted or fed a maintenance ration, but was high among control fish fed to satiation. Fish that had been previously food deprived continued to show low repeatability in sprinting ability even after the initiation of ad libitum feeding, probably stemming from variation in compensatory growth among individuals and its associated negative effects on sprinting ability. Together, these results suggest that food limitation can disrupt hierarchies of maximum sprint performance within populations. In the wild, the cumulative effects on locomotor capacity of fasting and re-feeding could lead to variable survival among individuals with different growth trajectories following a period of food deprivation.

Résumé: Sulphur-oxidising endosymbiont-bearing bivalves often inhabit seagrass meadows, where they can control sulphide levels and variably contribute to carbon cycling, by feeding on endosymbiotic bacteria and/or on particulate organic matter from the water column. The patterns of variability in their feeding mode and their spatial distribution within the seagrass meadows are however poorly studied. Seagrass beds form naturally patchy habitats with seagrass-sand edges that may have variable effects on different organisms. The present study aims at understanding differences in feeding mode and abundance of the endosymbiont-bearing bivalve Loripes lacteus (sensu Poli, 1791) as well as the physiological conditions of its endosymbiotic populations between edge and inner portion of meadows of the eelgrass Nanozostera noltii (Hornemann). In July 2010, Loripes specimens were sampled in 4 eelgrass patches at 2 different locations in the Thau lagoon, South of France. There was a clear negative edge effect on the abundance of small individuals of Loripes, while large individuals were homogeneously distributed between edge and inner part of the meadow. Although Loripes isotopic signatures (delta C-13 and delta N-15) were always closer to those of its symbiotic bacteria than to those of suspension-feeding bivalves, eelgrass edge enhanced mixotrophic behaviour of small animals, which assimilated less bacterial carbon and nitrogen at the edge than in the inner part of the eelgrass meadow. No differences related to eelgrass edges were instead found for the bacterial populations harboured by Loripes. Rather, flow cytometry revealed large variability at small spatial scales. Although bacteria were always important for the nutrition of Loripes, these findings showed that seagrass edges may contribute to regulate feeding mode and population structure of Loripes, which may have implications for seagrass functioning. (C) 2012 Elsevier B.V. All rights reserved.

Résumé: Accumulating evidence shows that environmental fluctuations and exploitation jointly affect marine fish populations, and understanding their interaction is a key issue for fisheries ecology. In particular, it has been proposed that age truncation induced by fisheries exploitation may increase the population's sensitivity to climate. In this study, we use unique long-term abundance data for the Northeast Arctic stock of cod (Gadus morhua) and the Norwegian Spring-Spawning stock of herring (Clupea harengus), which we analyze using techniques based on age-structured population matrices. After identifying time periods with different age distributions in the spawning stock, we use linear models to quantify the relative effect of exploitation and temperature on the population growth rates. For the two populations, age truncation was found to be associated with an increasing importance of temperature and a relatively decreasing importance of exploitation, while the population growth rate became increasingly sensitive to recruitment variations. The results suggested that the removal of older age classes reduced the buffering capacity of the population, thereby making the population growth rate more dependent on recruitment than adult survival and increasing the effect of environmental fluctuations. Age structure appeared as a key characteristic that can affect the response of fish stocks to climate variations and its consequences may be of key importance for conservation and management.

Résumé: A statistical catch-at-age model was developed to assess the effects of predation by the northwest Atlantic harp seal population on northern Gulf of St. Lawrence cod by estimating the relative importance of different sources of mortality that affected the stock during a period of collapse and non-recovery. Cod recruitment at age 1 is modeled via a non-linear stock-recruitment relationship based on total egg production and accounts for changes in female length-at-maturity and cod condition. Natural mortality other than seal predation also depends on cod condition used as an integrative index of changes in environmental conditions. The linkage between seals and cod is modeled through a multi-age functional response that was derived from the reconstruction of the seal diet using morphometric relationships and stomach contents of more than 200 seals collected between 1998 and 2001. The model was fitted following a maximum likelihood estimation approach to a scientific survey abundance index (1984 to 2006). Model results show that the collapse of the northern Gulf of St. Lawrence cod stock was mainly due to the combination of high fishing mortality rates and poor environmental conditions in the early to mid-1990s contributing to the current state of recruitment overfishing. The increase in harp seal abundance during 1984 to 2006 was reflected by an increase in predation mortality for the young cod age-groups targeted by seals. Although current levels of predation mortality affect cod spawning biomass, the lack of recovery of the NGSL cod stock seems mainly due to the very poor recruitment.