PCR‐based techniques to determine diet of the Australian sea lion (Neophoca cinerea): a comparison with morphological analysis

Comprehensive dietary information for the endangered Australian sea lion (Neophoca cinerea) is currently limited by the deficiency and poor quality of identifiable prey remains recovered from regurgitate and faeces and the difficulty of observing feeding in the wild. In this study, we investigated DNA‐based prey detection methods using conventional (end‐point) and quantitative real‐time PCR (qPCR) on faeces collected from two captive Australian sea lions fed experimental diets of whole teleost fish, squid and shark tissue. PCR prey detection methods using the mitochondrial cytochrome oxidase subunit I (COI) and 16S genes combined with clone sequencing were compared with prey identified using traditional hard part analysis. The molecular results indicated that prey DNA was degraded. However, prey amplification was successful by targeting short (71 bp) DNA fragments. Both conventional PCR and qPCR techniques significantly increased prey detection compared with analysis of hard parts. For both sea lions, the hard part analysis was constrained by sporadic and extremely low recovery of fish otoliths (<2%), and cephalopod beaks were not recovered from the 116 squid fed. Comparisons between PCR techniques indicated comparable prey detection frequencies for all species tested; however, the sensitivity and greater resolution of qPCR improved prey detection by ~25% in one sea lion fed the experimental squid and perch. The detection of squid DNA ≤ 6 day post‐ingestion by qPCR further exhibits the ability and potential of this method to detect low concentrations of infrequent or pulse prey. This study highlights the use of DNA‐based analysis to detect prey taxa in the absence of identifiable hard prey remains.     

A note on the stomach contents of fur seals Arctocephalus pusillus pusillus beached on the south-east coast of South Africa

The stomach contents of 36 South African fur seals beached over a 20 year period along the south-east coast of South Africa were examined. In all, 15 fish and nine cephalopod prey types were identified. Five species of fish (Merluccius capensis, Trachurus trachurus capensis, Cynoglossus zanzibarensis, Pterogymnus laniarius, Austroglossus pectoralis) and two cephalopods (Loligo vulgaris reynaudii, Octopus sp.) were of major importance in the diet. The proportion of demersal species in the diet is higher than previously reported, suggesting that the seals forage extensively on the sea floor. The most important fish species in the diet was M. capensis, and the most important cephalopod was L. v. reynaudii. Male and female seals showed distinct prey selection, suggesting possible intraspecific resource partitioning. There is no evidence of competition between seals and other top predators.     

Diet of mid-Atlantic Sowerby's beaked whales Mesoplondon bidens

The first mid-Atlantic diet of Mesoplodon beaked whales is presented, from ten Sowerby's Mesoplodon bidens stranded in the Azores region between 2002 and 2009. This doubles the worldwide number of stomachs sampled, and reveals new feeding habits for this species. The mean number of prey items per stomach was 85±89 (range: 12–238), with fish accounting for 99.3% and cephalopods contributing less than 1% of total prey. Fish otoliths from 15 families and cephalopod lower mandibles from three families were identified, representing 22 taxa. The diet consisted mainly of small mid-water fish, the most numerous being Diaphus sp., Lampanyctus sp. and Melamphaidae species. Myctophids were present in all stranded individuals, followed by Diretmidae, Melamphaidae and Opisthoproctus soleatus, while the remaining fish species were scarce or single occurrences. Consistency of diet in four different years reveals a divergence from all previous records in continental areas, where mainly neritic and shelf-break benthopelagic fish species have been reported. Mid-Atlantic Sowerby's beaked whales' showed dietary plasticity, feeding on the most abundant mid-water groups occurring between 0 and750 m. Trophic level from prey numerical frequency was estimated at 4.4±0.46.     

Dietary plasticity of the oceanic striped dolphin, Stenella coeruleoalba, in the neritic waters of the Bay of Biscay

The striped dolphin, Stenella coeruleoalba, is an oceanic species that occasionally occurs in neritic habitats; in the Bay of Biscay it is abundant offshore and erratic in occurrence over the shelf. Given that prey assemblages differ widely among these habitats both in terms of taxonomic composition and of ecology, this would suggest that striped dolphins are able to shift from vertically migrating meso-pelagic prey to neritic or coastal prey types. We investigated the striped dolphin's dietary plasticity by examining the stomach contents of individuals stranded along the French Atlantic coast. 1109 prey items were identified belonging to 30 distinct taxa and their biomass was calculated. Fish accounted for 91% of the diet by number and 61% by mass; the rest was mostly cephalopods, crustaceans being present as trace. Specific composition included both oceanic (myctophid and sternoptychid fish; histioteuthid, gonatid and brachioteuthid cephalopods), neritic (gadids and anchovy; loliginid, sepiolid and sepiid cephalopods) and even coastal (atherinid fish) prey types, showing that these animals had changed their diet as they moved over the shelf.     

Diet of albacore Thunnus alalunga from the waters of Mauritius (western Indian Ocean) inferred from stomach contents and fatty acid analysis

The diet of albacore Thunnus alalunga from their spawning ground in the waters of Mauritius was investigated. The stomach contents of 249 albacore individuals, caught by industrial longliners and artisanal fishers, was analysed, and the dominant prey taxa were selected for lipid and fatty acid (FA) analysis. The FA profiles of prey were compared with those of liver tissue of spawning-capable and post-spawning female albacore, using multivariate analysis. Whereas stomach content analysis identified cephalopods and crustaceans as the dominant prey items in number, FA-profile analysis identified crustaceans and fishes as the most-frequently consumed prey of post-spawning female albacore. In contrast, the FA profiles of spawning-capable albacore and those of prey showed very low similarity. Analysis of the prey suggests that although cephalopods, crustaceans and fishes could all provide albacore with the required lipids and FAs, cephalopod prey seem to be less desirable owing to their lower energy content (i.e. low in total lipid, triacylglycerol, 16:0, 18:0 and 18:1ω9). Instead, the most beneficial food appeared to be locally available fishes, which are more energy-rich and have a higher docosahexaenoic acid/ eicosapentaenoic acid ratio. These results provide new information on the trophic ecology of albacore, promote our understanding of the importance of prey type for successful reproduction of albacore, and highlight the advantages of FA profiling to study diet.     

Feeding habits of the ommastrephid squid Nototodarus sloanii on the Chatham Rise,New Zealand

The diet of the squid Nototodarus sloanii was determined from examination of stomach contents of 388 specimens of 14.3–41.0 cm dorsal mantle length sampled at depths of 211–760 m on the Chatham Rise, New Zealand. Prey items were predominantly mesopelagic fishes, with some crustaceans and cephalopods. The most important prey species identified was Maurolicus australis, followed by Lampanyctodes hectoris, and unidentified squids (Teuthoidea). Multivariate analyses using distance‐based linear models, non‐parametric multi‐dimensional scaling, analysis of similarities, and similarity percentages, indicated crustaceans were more important in the diet of smaller squid (83–480 g), the fish component of the diet was dominated by L. hectoris on the east Chatham Rise and M. australis on the west Chatham Rise, and there may be a difference in diet with sex, with crustaceans and cephalopods more important for females. The results indicated that N. sloanii, similar to other ommastrephid squids, foraged primarily in the mesopelagic layers.     

Ontogenetic shifts and temporal changes in the trophic patterns of the deep‐sea red shrimp,Aristaeomorpha foliacea (Decapods: Aristeidae), in the Eastern Ionian Sea (Eastern Mediterranean)

The purpose of this paper is to provide the first detailed data concerning the diet and feeding activity of the giant red shrimp, Aristaeomorpha foliacea, in the Eastern Ionian Sea (Eastern Mediterranean), in relation to season, size class and sex. Feeding activity in A. foliacea was intense, based on its low vacuity index and high prey diversity, with a diet dominated by mesopelagic prey and less frequent occurrence of benthic taxa. Giant red shrimp displayed a highly diversified diet that exhibited slight seasonal fluctuations. The diets of both sexes consisted of 60 different prey categories belonging chiefly to three groups: crustaceans (e.g. decapods, such as Plesionika spp. and Pasiphaeidae, amphipods), cephalopods (mainly Enoploteuthidae) and fishes (Myctophidae, Macrouridae). These three prey categories accounted for 72–82% of the relative abundance and total occurrence for males and 70–88% for females, respectively. Variation in food availability, as well as increased energy demands related to gonad development and breeding activity, appear to be critical factors driving temporal changes in feeding strategy. Feeding activity increased during spring and summer, which coincides with reproductive activities (mating, gonad maturation, egg‐laying). Females seem to be more active predators than males, consuming prey with greater swimming ability. However, ontogenetic shifts in diet were also apparent, despite high dietary overlap among small, medium and large females. Large individuals, which are more efficient predators, selected highly mobile prey (e.g. fishes), whereas small individuals consumed low‐mobility prey (e.g. copepods, ostracods, tanaids and sipunculans).     

The importance of cephalopods as prey for hake and other groundfish in South African waters

Literature on trophic relationships in the Benguela ecosystem has stressed the importance of cephalopods as prey of groundfish. The groundfish community of the shelf and upper slope of southern Africa is dominated by the Cape hakes, and the results presented (1984–1991) confirm that both species of hake are important predators of cephalopods, especially taking into consideration the abundance of hake in the ecosystem. However, geographic, seasonal and species variability are evident in the patterns observed. The main prey species are Sepia spp. (predominantly Sepia australis), Loligo vulgaris reynaudii, Todaropsis eblanae and Lycoteuthis ?diadema. The last-named is an important food organism for fish. Its systematic status needs revision, however. Qualitative results of studies of cephalopod predation are also provided for kingklip and monkfish.     

Spatial, temporal and ontogenetic variation in diet of anchovy (Engraulis encrasicolus) on the Algerian coast (SW Mediterranean)

The diet of anchovy Engraulis encrasicolus was studied in three regions (Béjaia, Bénisaf and Ghazaouet) along the Algerian coast. Ontogenetic, spatial and seasonal variations in anchovy diet were investigated using multivariate analyses and analysed in relation with sea surface temperature and chlorophyll-a. 46 prey taxa of varying size between 0.57 mm (Euterpina acutifrons) and 6.8 mm (fish larvae) were recorded. Whatever the season, the region or the fish size, anchovy is exclusively zooplanktivorous and copepods were the most present prey, constituting 87% by number of the prey taken and found in 98% of the anchovy stomachs examined. However, their occurrence and number varied according to the different areas, seasons and fish size. During its first year of life, anchovy feeds almost exclusively on copepods (mainly small and medium size prey). As anchovy grows, copepods are gradually substituted by large crustaceans such as decapods and amphipods. Hierarchical cluster analysis, analysis of similarities (ANOSIM) and similarities percentage (SIMPER) indicated a distinct diet of anchovy of the bay of Bejaia from those of the bays of Bénisaf and Ghazaouet probably due to differences in hydrologic conditions. Diet differences also occurred between seasons. Summer and spring have distinct prey assemblages each and showed low diet similarities with the two other seasons. More prey species were found in the diet during winter (36) and autumn (30) and the vacuity index was lower in winter. Temporal variability in satellite-derived chlorophyll-a matched the seasonal variability in the diversity of the anchovy prey and feeding intensity as reflected by the vacuity index, suggesting further investigation of the potential use of satellite-derived chlorophyll-a data as a proxy for anchovy feeding intensity.     

Diet of the South African fur seal (1974–1985) and an assessment of competition with fisheries in southern Africa

Almost 1 000 South African fur seals Arctocephalus pusillus pusillus were collected at sea (inshore and offshore) for examination of stomach contents and other biological parameters. The main prey of seals above the age of one year was teleost fish, of which at least 28 species were identified. Overall, 74,6 per cent of the diet was teleost fish, 16,7 per cent cephalopods, 4,8 per cent crustaceans such as shrimps, prawns, amphipods and isopods and 3,2 percent rock lobster. Within this overall dietary pattern there were marked regional differences. The importance of individual fish species in the diet was investigated from the numbers and the sizes of otoliths occurring in the stomachs, from which the identity and size classes of the prey species could be calculated. Again there were regional differences in the importance of different prey species. On the west coast of South Africa the most important species were anchovy and Cape hakes (each 23% of total diet), whereas on the south coast the important species were anchovy (17%), horse mackerel (14%), pilchard (12%) and Cape hake (14%). Off South West Africa the two dominant species were pelagic goby (52%) and horse mackerel (23%), anchovy and Cape hake constituting only 4 and 5 per cent respectively of total diet. The total annual consumption of anchovy and Cape hake by seals in South African waters was calculated at 125 000 and 120 000 tons respectively.     

Phylogenetic position and systematics of the wood‐associate limpet genus Caymanabyssia and implications for ecological radiation into deep‐sea organic substrates by lepetelloid gastropods

The gastropod superfamily Lepetelloidea represents an extremely diverse lineage in terms of their utilization of different deep‐sea organic substrates that include sunken wood, leaves, whale and fish bones, egg cases of sharks and rays, annelid tubes and detrital cephalopod beaks among others. They also inhabit cold seeps and hydrothermal vents, thus presenting an interesting case for the evaluation of such organic substrates as ‘stepping stones’ into these chemosynthetically nourished environments. Here we show the first molecular phylogeny of the Pseudococculinidae, a primarily wood‐dwelling family and the most speciose in Lepetelloidea. Special emphasis is placed on the genus Caymanabyssia, for which the only subfamily Caymanabyssiinae has been established, and a new species Caymanabyssia solis is described herein and compared with previously known taxa in order to reconsider the morphological characteristics of lepetelloids on wood. Bayesian and likelihood trees reconstructed using four‐gene sequences reveal that Pseudococculinidae sensu auctt. is a polyphyletic taxon that is grouped by shared plesiomorphic conditions of characters including the radula, a digestive organ, the morphology of which is often governed strongly by diet and feeding ecology. The newly reinterpreted families Pseudococculinidae and Caymanabyssiidae represent reciprocal sister clades as a basal radiation in Lepetelloidea. Sunken wood might thus have served as an ancestral habitat from which species on other substrates and vent and seep taxa were derived.     

Predominance of parallel‐ and cross‐predation in anglerfish

Several studies in the last 20 years have revealed that morphological asymmetry in fish can be characterized as ‘antisymmetry’. Antisymmetry is a lateral dimorphism in which each population consists of individuals with well‐developed left sides (lefties) and well‐developed right sides (righties). This dimorphism influences predator–prey interactions. In some piscivorous fishes, it has been found that predators can catch more prey of the opposite morphological type to themselves (cross‐predation) than of the same morphological type (parallel‐predation). Our previous work clarified that the predominance of cross‐predation is caused by lateralized behaviors of predators and prey that correspond to their morphological antisymmetry. Moreover, based on the results of our behavioral observations, we hypothesized that parallel‐predation can predominate when predators encounter the potential prey frontally. To test this hypothesis, in the present study we investigated the relationship between lateral morphological types of anglerfish (Lophiomus setigerus) and those of the prey fishes found in their stomachs. Anglerfish attract potential prey using their first dorsal fin (illicium) as a lure, and their frontal encounters with potential prey fishes were photographed in situ and observed in an aquarium. The results of a stomach contents analysis indicated that parallel‐predation predominated in five benthopelagic prey fish species (perches and eels). By contrast, five benthic prey fishes (gobies and weevers) exhibited the predominance of cross‐predation. These results not only demonstrate the predominance of parallel‐predation in a natural fish community, but also suggest that the relationship between morphological types of predator and prey species can be reversed depending on the lifestyle of prey.     

Diets of Steller sea lions off the coast of Hokkaido,Japan: An inter‐decadal and geographic comparison

Inter‐decadal and geographic variations in the diets of Steller sea lion, Eumetopias jubatus, were examined based on the contents of 408 stomachs collected from coastal areas around Hokkaido Island during the periods 1994–1998 and 2005–2012. The most important prey species in the 1990s were gadid fishes (walleye pollock [Gadus chalcogrammus], Pacific cod [Gadus microcephalus] and saffron cod [Eleginus gracilis]). The frequency of occurrence and gravimetric contribution of gadids decreased in the 2000s latter period at three study sites (Rausu, Shakotan and Rebun) and were replaced by Okhotsk Atka mackerel (Pleurogrammus azonus) and smooth lumpsucker (Aptocyclus ventricosus). However, analysis based on gravimetric composition indicated that the dietary diversity of prey showed only a slight inter‐decadal difference, reflecting the wide diversity of prey ingested during both study periods. These results indicate that Steller sea lions along the Hokkaido coast are opportunistic feeders that utilize a wide variety of prey, and appear to feed mainly upon prey that is easily obtained.     

Insights into the diet of a poorly known species: pygmy killer whale Feresa attenuata from Cape Verde,West Africa

Despite having a worldwide distribution in tropical waters, knowledge on pygmy killer whales Feresa attenuata, including diet, is poor, with only a few studies carried out to date. The presence of otoliths and beaks in stomachs that have been examined indicate that the diet of F. attenuata includes squid, octopus and fish. In this study, the stomach contents of two F. attenuata recently stranded in Cape Verde, West Africa, were examined. A variety of fish hard parts and otoliths were recovered, in addition to the upper beak from an unidentified cephalopod and the remains of some marine arthropods. Lanternfish (Myctophidae) and deepbody boarfish Antigonia capros were identified from otoliths and comprised 95.4% of prey items. Whereas the sizes of the myctophids in the two whale stomachs were similar, those of other prey items differed. The findings provide important information on the diet of F. attenuata in the Cape Verde region.     

New insights on the trophic ecology of bathyal communities from the methane seep area off Concepción,Chile (~36° S)

Studies of the trophic structure in methane‐seep habitats provide insight into the ecological function of deep‐sea ecosystems. Methane seep biota on the Chilean margin likely represent a novel biogeographic province; however, little is known about the ecology of the seep fauna and particularly their trophic support. The present study, using natural abundance stable isotopes, reveals a complex trophic structure among heterotrophic consumers, with four trophic levels supported by a diversity of food sources at a methane seep area off Concepción, Chile (~36° S). Although methanotrophy, thiotrophy and phototrophy are all identified as carbon fixation mechanisms fueling the food web within this area, most of the analysed species (87.5%) incorporate carbon derived from photosynthesis and a smaller number (12%) use carbon derived from chemosynthesis. Methane‐derived carbon (MDC) incorporation was documented in 22 taxa, including sipunculids, gastropods, polychaetes and echinoderms. In addition, wide trophic niches were detected in suspension‐feeding and deposit‐feeding taxa, possibly associated with the use of organic matter in different stages of degradation (e.g. from fresh to refractory). Estimates of Bayesian standard ellipses area (SEA_B) reveal different isotopic niche breadth in the predator fishes, the Patagonian toothfish Dissostichus eleginoides and the combtooth dogfish Centroscyllium nigrum, suggesting generalist versus specialist feeding behaviors, respectively. Top predators in the ecosystem were the Patagonian toothfish D. eleginoides and the dusky cat shark, Bythaelurus canescens. The blue hake Antimora rostrata also provides a trophic link between the benthic and pelagic systems, with a diet based primarily on pelagic‐derived carrion. These findings can inform accurate ecosystem models, which are critical for effective management and conservation of methane seep and adjacent deep‐sea habitats in the Southeastern Pacific.     

The first use of Fulton's K for assessing and comparing the conditions of inter‐tidal fish populations

Fulton's K condition factor was applied, for the first time, to inter‐tidal specimens of the shanny (Lipophrys pholis) and long‐spined scorpion fish (Taurulus bubalis) from two English rocky shore and two Welsh rocky shore sites during summer 2010 and winter 2011. As both species contribute to the diet of commercial species such as cod (Gadus morhua) and near‐threatened species such as the European otter (Lutra lutra), their condition may affect that of these predators. Fulton's K found that inter‐tidal Welsh fish maintained a ‘good’ condition between seasons, whereas the inter‐tidal English fish were in a poorer condition during winter. Although condition also changed amongst the sites on each coast, further studies are needed into fish morphologies, environmental parameters, prey availabilities and abundances, and fish specimen sex and maturities.     

Size-dependent, Spatial, and Temporal Variability of Juvenile Walleye Pollock (Theragra chalcogramma) Feeding at a Structural Front in the Southeast Bering Sea

Abstract. The waters surrounding the Pribilof Islands are an important nursery ground for juvenile walleye pollock (Theragra chalcogramma), an important forage fish in the pelagic food web of the productive Bering Sea shelf region. The diet of juvenile pollock was studied in two consecutive years along a transect line crossing from a well‐mixed coastal domain, through a frontal region to stratified water farther offshore. Variability in stomach fullness was high and evidence for increased feeding intensity in the front was weak. Prey diversity and prey size generally increased with increasing fish size, shifting from predominantly small copepods to larger, more evasive prey items such as euphausiids, crab megalopae and fish. The diet of the fish reflected changes in the relative abundance of copepods and euphausiids in the prey fields between years. Juvenile pollock showed increased feeding rates at dusk, and stomach fullness as well as prey condition were generally lowest just before sunrise; however, the proportion of euphausiids increased in the diet of pollock caught at night, suggesting that some food was also ingested during darkness. Juvenile pollock and their euphausiid prey both vertically migrated above the thermocline at night, although each had a different daytime depth.     

Dietary analysis of harbour seals (Phoca vitulina) from faecal samples and overlap with fisheries in Erimo,Japan

The number of harbour seals in Japan has been rebounding since protection began in the mid‐1980s. With the increase in seal numbers, increased conflict with fisheries has occurred through depredation and the belief that seals compete with fisheries for prey. However, competition can only be determined if the prey species and quantities seals consume over time are known. We studied the diet of harbour seals in Erimo, site of the largest population of harbour seals in Japan, from 2011 to 2012 and assessed the degree of prey overlap with local fisheries. We used both hard parts and DNA techniques to identify prey items in seal scats, and compared these results to local fisheries data. A total of 46 prey occurrences was detected by both methods, of which 17 matched between techniques at least to the family level. Hard parts methods identified five incidences of prey undetected by DNA methods in five scats (one incidence per scat). DNA methods identified 24 additional prey occurrences in 13 scats, for which no hard part evidence for that prey had been found. This more than doubled the total number of prey occurrences across the 15 scats compared. Overall, the most frequently occurring harbour seal prey were walleye pollock (Theragra chalcogramma), sculpins and snailfishes. In contrast, the top three groups targeted by fisheries were codfishes, salmon and invertebrates. Many species common in the harbour seal's diet such as snailfishes and blennies were not targeted by fisheries. Fishes such as greenlings, sculpins, rockfishes and Japanese anchovy (Engraulis japonicus) were common in the diet of harbour seals, but made up a very small proportion of fisheries catches in Erimo. The importance of other prey species varied between seasons. Sculpins, greenlings and forage fishes were the top three prey groups for harbour seals in spring by percent modified frequency of occurrence, whereas the most important target groups by percentage mass caught by fisheries were codfishes, cephalopods and other invertebrates. Sculpins and rockfishes remained as important prey items for harbour seals in summer and autumn, in addition to codfishes, snailfishes and blennies. In contrast, the main groups caught by fisheries in summer were other fishes, particularly Japanese amberjack (Seriola quinqueradiata) and various species of sharks and eels, and invertebrates. By autumn, Erimo fisheries had focussed on catching salmon. Salmon were taken by harbour seals as well during this period, but at a relatively lower frequency compared to other prey groups. The results of our study show that although harbour seals consumed several of the prey species targeted by fisheries, the relative importance of these species to seals and fisheries and the seasons in which they were targeted were different.     

Prey spectrum of breeding sooty shearwaters (Puffinus griseus) in New Zealand

Prey remains from sooty shearwater (Puffinus griseus Gmelin, 1792) regurgitates, stomachs, and gizzards, were collected from four breeding colonies in southern New Zealand. We found a wide range of prey species (minimum 39 species of 35 genera), the most important of which were crustaceans (particularly euphausiid krill and hyperiid amphipods), cephalopods (notably arrow squid), fishes, and salps. Malacostracans (krill, amphipods, and decapods) were the predominant taxa of prey in both diversity and frequency of occurrence. Regurgitates were easily obtained from harvested chicks and provided the greatest range of prey remains (36 of the 39 species identified). However, these regurgitates comprised only 29% of the total number of samples collected. Fish, malacostracan, and salp prey ranged from 4 to 170 mm in size, whereas total lengths of squid ranged from 50 to 535 mm. Based on size and mass, the largest squid were undoubtedly scavenged, possibly in association with commercial fishers. The geographical distribution of prey species indicate that most sooty shearwaters breeding near Stewart Island forage in waters lying between the Subtropical and Polar Fronts. Our results suggest that the abundance of krill, the impact of fisheries and the influence of climate perturbations on prey species may play important roles in sooty shearwater breeding and survival.     

Trophic ecology of Pomatoschistus microps within an intertidal bay (Roscoff,France), investigated through gut content and stable isotope analyses

The diet of Pomatoschistus microps has been studied using both gut content and stable isotope analyses. In the Roscoff Aber Bay (Brittany, France), this fish is commonly found on sandy muddy intertidal flats. Gut content analyses were also interpreted using trophic indices. Owing to the large diversity of prey consumed, these indices emphasised the opportunistic feeding behaviour of P. microps. Here, this species fed mainly on endofauna with meiofauna being of high relative importance. The main biotic components of its trophic habitat, characterized by δ¹³C and δ¹⁵N, provided evidence of a major trophic pathway based on drift Enteromorpha sp. Trophic positions estimated by both diet analyses and isotopic analyses led to similar results. In this bay, P. microps is a first‐order predator with a low degree of omnivory. Despite a preferential consumption of the amphipod Corophium arenarium, we assumed that this goby behaves as a generalist feeding on a uniform variety of endofauna taxa.