Geographic assignment of seabirds to their origin: combining morphology, genetics and biogeochemical analyses

Longline fisheries, oil spills, and offshore wind farms are some of the major threats increasing seabird mortality at sea, but the impact of these threats on specific populations has been difficult to determine so far. We tested the use of molecular markers, morphometric measures, and stable isotope (δ15N and δ13C) and trace element concentrations in the first primary feather (grown at the end of the breeding period) to assign the geographic origin of Calonectris shearwaters. Overall, we sampled birds from three taxa: 13 Mediterranean Cory's Shearwater (Calonectris diomedea diomedea) breeding sites, 10 Atlantic Cory's Shearwater (Calonectris diomedea borealis) breeding sites, and one Cape Verde Shearwater (C. edwardsii) breeding site. Assignment rates were investigated at three spatial scales: breeding colony, breeding archipelago, and taxa levels. Genetic analyses based on the mitochondrial control region (198 birds from 21 breeding colonies) correctly assigned 100% of birds to the three main taxa but failed in detecting geographic structuring at lower scales. Discriminant analyses based on trace elements composition achieved the best rate of correct assignment to colony (77.5%). Body measurements or stable isotopes mainly succeeded in assigning individuals among taxa (87.9% and 89.9%, respectively) but failed at the colony level (27.1% and 38.0%, respectively). Combining all three approaches (morphometrics, isotopes, and trace elements on 186 birds from 15 breeding colonies) substantially improved correct classifications (86.0%, 90.7%, and 100% among colonies, archipelagos, and taxa, respectively). Validations using two independent data sets and jackknife cross-validation confirmed the robustness of the combined approach in the colony assignment (62.5%, 58.8%, and 69.8% for each validation test, respectively). A preliminary application of the discriminant model based on stable isotope δ15N and δ13C values and trace elements (219 birds from 17 breeding sites) showed that 41 Cory's Shearwaters caught by western Mediterranean long-liners came mainly from breeding colonies in Menorca (48.8%), Ibiza (14.6%), and Crete (31.7%). Our findings show that combining analyses of trace elements and stable isotopes on feathers can achieve high rates of correct geographic assignment of birds in the marine environment, opening new prospects for the study of seabird mortality at sea.

Feeding ecology and trophic position of three sympatric demersal chondrichthyans in the Northwestern Mediterranean.

Understanding how marine predators interact is a scientific challenge. In marine ecosystems, segregation in feeding habits has been largely described as a common mechanism to allow the coexistence of several competing marine predators. However, little is known about the feeding ecology of most species of chondrichthyans, which play a pivotal role in the structure of marine food webs worldwide. In this study, we examined the trophic ecology of 3 relatively abundant chondrichthyans coexisting in the Mediterranean Sea: the blackmouth catshark Galeus melastomus , the velvet belly lanternshark Etmopterus spinax and the rabbit fish Chimaera monstrosa. To examine their trophic ecology and interspecific differences in food habits, we combined the analysis of stomach content and stable isotopes. Our results highlighted a trophic segregation between C. monstrosa and the other 2 species. G. melastomus showed a diet composed mainly of cephalopods, while E. spinax preyed mainly on shrimps and C. monstrosa on crabs. Interspecific differences in the trophic niche were likely due to different feeding capabilities and body size. Each species showed different isotopic niche space and trophic level. Specifically, C. monstrosa showed a higher trophic level than E. spinax and G. melastomus. The high trophic levels of the 3 species highlighted their important role as predators in the marine food web. Our results illustrate the utility of using complementary approaches that provide information about the feeding behaviour at short (stomach content) and long-term scales (stable isotopes), which could allow more efficient monitoring of marine food-web changes in the study area.

Environmental determinants of foraging strategies in Cory"s shearwaters Calonectris diomedea

Despite the advent of devices to track seabird movements, the extent to which productive areas and oceanic winds influence foraging strategies is still not fully understood. We investigated the main environmental determinants of foraging strategies in Cory"s shearwaters Calonectris diomedea by combining satellite-tracking information from 14 birds breeding on the Canary Islands with concurrent data on chlorophyll a (chl a) concentrations and oceanic winds. Additionally, we took blood samples at the end of each foraging trip and analysed carbon (C) and nitrogen (N) stable isotopes to examine the use of trophic resources. All birds showed commuting trips, concentrating foraging activity exclusively on the African continental shelf. Foraging locations showed a strong association with chl a concentrations, suggesting birds select foraging areas according to prey availability. In contrast with other breeding colonies where Cory"s shearwaters use a dual-foraging method, birds showed a unimodal strategy and did not show differences in C and N isotope signatures in plasma, confirming that close proximity to highly productive areas strongly influences foraging strategies. In addition, birds tracked during 2 consecutive trips foraged in the same area, suggesting that high resource availability promotes fidelity to feeding grounds also at coarse scales. Persistent northeast trade winds blew during the study period, and commuting trips followed a consistent clockwise movement with a southwest heading while the birds foraged along the continental shelf, suggesting that birds used tail winds to reduce their flying costs. Our results corroborate that oceanographic conditions in the vicinity of the breeding colony have a strong effect on foraging strategies of pelagic seabirds.

Variation in nitrogen use strategies and photosynthetic pathways among vascular epiphytes in the Brazilian Central Amazon

The variation in nitrogen use strategies and photosynthetic pathways among vascular epiphyte families was addressed in a white-sand vegetation in the Brazilian Central Amazon. Foliar nitrogen and carbon concentrations and their isotopic composition (δ15N and δ13C, respectively) were measured in epiphytes (Araceae, Bromeliaceae and Orchidaceae) and their host trees. The host tree Aldina heterophylla had higher foliar N concentration and lower C:N ratio (2.1 ± 0.06% and 23.6 ± 0.8) than its dwellers. Tree foliar δ15N differed only from that of the orchids. Comparing the epiphyte families, the aroids had the highest foliar N concentration and lowest C:N ratios (1.4 ± 0.1% and 34.9 ± 4.2, respectively). The orchids had more negative foliar δ15N values (-3.5 ± 0.2‰) than the aroids (-1.9 ± 0.7‰) and the bromeliads (-1.1 ± 0.6‰). Within each family, aroid and orchid taxa differed in relation to foliar N concentrations and C:N ratios, whereas no internal variation was detected within bromeliads. The differences in foliar δ15N observed herein seem to be related to the differential reliance on the available N sources for epiphytes, as well as to the microhabitat quality within the canopy. In relation to epiphyte foliar δ13C, the majority of epiphytes use the water-conserving CAM-pathway (δ13C values around -17‰), commonly associated with plants that live under limited and intermittent water supply. Only the aroids and one orchid taxon indicated the use of C3-pathway (δ13C values around -30‰).

Spatial and temporal variation in fish populations and assemblages in coastal waters of the northern Baltic Proper

The distribution and traits of fish are of interest both ecologically and socio-economically. In this thesis, phenotypic and structural variation in fish populations and assemblages was studied on multiple spatial and temporal scales in shallow coastal areas in the archipelago of the northern Baltic Proper. In Lumparn basin in Åland Islands, the fish assemblage displayed significant seasonal variation in depth zone distribution. The results indicate that investigating both spatial and temporal variation in small scale is crucial for understanding patterns in fish distribution and community structure in large scale. The local population of Eurasian perch Perca fluviatilis L displayed habitat-specific morphological and dietary variation. Perch in the pelagic zone were on average deeper in their body shape than the littoral ones and fed on fish and benthic invertebrates. The results differ from previous studies conducted in freshwater habitats, where the pelagic perch typically are streamlined in body shape and zooplanktivorous. Stable isotopes of carbon and nitrogen differed between perch with different stomach contents, suggesting differentiation of individual diet preferences. In the study areas Lumparn and Ivarskärsfjärden in Åland Islands and Galtfjärden in Swedish east coast, the development in fish assemblages during the 2000’s indicated a general shift towards higher abundances of small-bodied lower-order consumers, especially cyprinids. For European pikeperch Sander lucioperca L., recent declines in adult fish abundances and high mortalities (Z = 1.06–1.16) were observed, which suggests unsustainably high fishing pressure on pikeperch. Based on the results it can be hypothesized that fishing has reduced the abundances of large predatory fish, which together with bottom-up forcing by eutrophication has allowed the lower-order consumer species to increase in abundances. This thesis contributes to the scientific understanding of aquatic ecosystems with new descriptions on morphological and dietary adaptations in perch in brackish water, and on the seasonal variation in small-scale spatial fish distribution. The results also demonstrate anthropogenic effects on coastal fish communities and underline the urgency of further reducing nutrient inputs and regulating fisheries in the Baltic Sea region.

Galactose oxidation using 13C in healthy and galactosemic children

Galactosemia is an inborn error of galactose metabolism that occurs mainly as the outcome of galactose-1-phosphate uridyltransferase (GALT) deficiency. The ability to assess galactose oxidation following administration of a galactose-labeled isotope (1-13C-galactose) allows the determination of galactose metabolism in a practical manner. We aimed to assess the level of galactose oxidation in both healthy and galactosemic Brazilian children. Twenty-one healthy children and seven children with galactosemia ranging from 1 to 7 years of age were studied. A breath test was used to quantitate 13CO2 enrichment in exhaled air before and at 30, 60, and 120 min after the oral administration of 7 mg/kg of an aqueous solution of 1-13C-galactose to all children. The molar ratios of 13CO2 and 12CO2 were quantified by the mass/charge ratio (m/z) of stable isotopes in each air sample by gas-isotope-ratio mass spectrometry. In sick children, the cumulative percentage of 13C from labeled galactose (CUMPCD) in the exhaled air ranged from 0.03% at 30 min to 1.67% at 120 min. In contrast, healthy subjects showed a much broader range in CUMPCD, with values from 0.4% at 30 min to 5.58% at 120 min. The study found a significant difference in galactose oxidation between children with and without galactosemia, demonstrating that the breath test is useful in discriminating children with GALT deficiencies.

Dynamic ecosystems under anthropogenic stress : how does macrotidal sandy fauna respond to green tides?

Highly dynamic systems, often considered as resilient systems, are characterised by abiotic and biotic processes under continuous and strong changes in space and time. Because of this variability, the detection of overlapping anthropogenic stress is challenging. Coastal areas harbour dynamic ecosystems in the form of open sandy beaches, which cover the vast majority of the world’s ice-free coastline. These ecosystems are currently threatened by increasing human-induced pressure, among which mass-development of opportunistic macroalgae (mainly composed of Chlorophyta, so called green tides), resulting from the eutrophication of coastal waters. The ecological impact of opportunistic macroalgal blooms (green tides, and blooms formed by other opportunistic taxa), has long been evaluated within sheltered and non-tidal ecosystems. Little is known, however, on how more dynamic ecosystems, such as open macrotidal sandy beaches, respond to such stress. This thesis assesses the effects of anthropogenic stress on the structure and the functioning of highly dynamic ecosystems using sandy beaches impacted by green tides as a study case. The thesis is based on four field studies, which analyse natural sandy sediment benthic community dynamics over several temporal (from month to multi-year) and spatial (from local to regional) scales. In this thesis, I report long-lasting responses of sandy beach benthic invertebrate communities to green tides, across thousands of kilometres and over seven years; and highlight more pronounced responses of zoobenthos living in exposed sandy beaches compared to semi-exposed sands. Within exposed sandy sediments, and across a vertical scale (from inshore to nearshore sandy habitats), I also demonstrate that the effects of the presence of algal mats on intertidal benthic invertebrate communities is more pronounced than that on subtidal benthic invertebrate assemblages, but also than on flatfish communities. Focussing on small-scale variations in the most affected faunal group (i.e. benthic invertebrates living at low shore), this thesis reveals a decrease in overall beta-diversity along a eutrophication-gradient manifested in the form of green tides, as well as the increasing importance of biological variables in explaining ecological variability of sandy beach macrobenthic assemblages along the same gradient. To illustrate the processes associated with the structural shifts observed where green tides occurred, I investigated the effects of high biomasses of opportunistic macroalgae (Ulva spp.) on the trophic structure and functioning of sandy beaches. This work reveals a progressive simplification of sandy beach food web structure and a modification of energy pathways over time, through direct and indirect effects of Ulva mats on several trophic levels. Through this thesis I demonstrate that highly dynamic systems respond differently (e.g. shift in δ13C, not in δ15N) and more subtly (e.g. no mass-mortality in benthos was found) to anthropogenic stress compared to what has been previously shown within more sheltered and non-tidal systems. Obtaining these results would not have been possible without the approach used through this work; I thus present a framework coupling field investigations with analytical approaches to describe shifts in highly variable ecosystems under human-induced stress.

A geochemical and paleoceanographic investigation using marine molluscs of the late Quaternary marine submergences Quebec, Ontario, British Columbia

Sedjrrlents deposited in the Late Quaternary marine sUbrnergences that follov'ted the deglaciation of Ontario} Quebec., and 6ritlst-1 Columbia often contaln an abundant nlarlne invertebrate macrofauna. The rnacrofauna~ dotYllnated by aragonitic pelecypods} is fully preserved In their original mineralogy and cherrlistry 8S deternl1ned by x-ray dlffractlon., scannlng electron tl-,lcroscoDY., trace and r1l1 nor elet11ent analyses and stable isotopes. Ttle trace elernent and stable isotope geochen-Ilstry of chernlcal1y unaltered aragorlitlc molluscs can be used to determine paleoter1-lperatures and paleosallnltles." HO\Never} corrections need to be tllade \fvtlen deterrTIlnlng oxygen-isotope paleotenlperi:ttures due to the lnfluence of isotopically 11gtlt glaciol rneltv-laters and reduced sal1nltles. Ttle eastern Laurentide Ice Sheet probably had an o:~ygen lS0tOP1C composition as low as -8e) 0/00 (Sr1[IW). In additl0fl} corrections need to be rnade to the carbonlsotope values, before salinity deterrnlnatlons are t11ade., due to the reJjuctlon of the terrestrial carbon bl0rnass during glac1al maxlrna. Using geochernlcal data frot11 537 marlne n-'8crolnvertebrates frorTI 72 localities in soutt-,easter Ontarl0 and southern Quebec, it tras been deterrnined that the Late Quaternary Char1lplaln Sea \N6S density stratified along salinity and temperatlJre gradients. The deep-\h/aters of tt-,e Charnplaln Sea tlad salinities that ranged frorn 31 to 36 ppt} and terrlperatures of 00 to 5°C. Conversely.. the st1alloy./-\f*later regirrle of ttle Ctlarnplaln Sea tlad sal1nltles that ranged fron-, 24 to 33 ppt} Y.tltt1 terrlperatures ranglng from 5° to 15°C. Tr,8 rrlajorl rnlnor1 and trace e1et1-,ent geochernlcal analysls of 155 marine lnvertebrates frorn 4 10C611t1es of tt-,e Late Quaternary Ft. Langley Forrnatlon and Capl1ano Sedlments;. souttl\Nestern Brltlsh Columblal suggest l t~lat the 'waters of the o-,arlne lnundation that fol1o....ved the retreating Cordl11eran Ice Sheet had sal1nltles ranglng frorn 32 to 3f. DPt.

Investigating Microbial Trace-fossils and Abiotic Alteration in Hydrovolcanic Tuffs of the Fort Rock Volcanic Field, Oregon

Microbial ichnofossils in volcanic rocks provide a significant record of subsurface microbes and potentially extraterrestrial biosignatures. Here, the textures, mineralogy, and geochemistry of two continental basaltic hydrovolcanic deposits - Reed Rocks and Black Hills - in the Fort Rock Volcanic Field (FRVF) are investigated. Methods include petrographic microscopy, micro and powder X-ray diffraction, SEM/BSE/EDF imaging, energy dispersive spectroscopy, stable isotopes, and X-ray fluorescence. Petrographic analysis revealed granular and tubular textures with biogenic morphologies that include terminal enlargements, septate divisions, branching forms, spiral filaments, and ovoid bodies resembling endolithic microborings described in ocean basalts. They display evidence of behaviour and a geologic context expressing their relative age and syngenicity. Differences in abiotic alteration and the abundance/morphotype assemblage of putative microborings between the sites indicate that water/rock ratio, fluid composition and flux, temperature and secondary phase formation are influences on microboring formation. This study is the first report of reputed endolithic microborings in basalts erupted in a continental lacustrine setting.

Sélection des substrats lors de l’exercice prolongé avec ingestion de glucides : études par traçage au 13C

Les principaux substrats oxydés à l’exercice, soit les glucides, les lipides et les pro- téines ne contribuent pas tous au même niveau à la fourniture d’énergie lors de l’effort prolongé. De plus, le glucose peut provenir de différentes sources endogènes (muscle, foie) et exogènes. Plusieurs facteurs peuvent influencer leur contribution respective incluant : la masse musculaire impliquée et l’entraînement préalable, le sexe, l’état nutritionnel et les conditions environnementales. L’utilisation d’isotopes stables, tels que le carbone 13 (13C), combinée à la calorimétrie indirecte respiratoire corrigée pour l’excrétion d’urée dans l’urine et la sueur, permet de différencier les substrats endogènes et exogènes et d’évaluer la contribution de leur oxydation à la fourniture d’énergie. Ces méthodes d’investigation permettant d’apprécier la sélection des substrats lors de l’exercice prolongé avec ingestion de glucose ont permis d’effectuer les comparaisons qui ont fait l’objet des trois études de cette thèse. Dans la première étude, la sélection des substrats au cours d’un effort prolongé effectué avec les membres inférieurs ou les membres supérieurs a été comparée avec et sans ingestion de glucose. Une différence modeste fut observée entre la sélection des substrats selon le mode d’exercice avec l’ingestion d’eau, celle-ci favorisant légèrement l’oxydation des glucides lors de l’effort avec les membres supérieurs. La quantité de glucose exogène oxydée était plus faible lors de l’exercice avec les membres supérieurs qu’avec les membres supérieurs, mais sa contribution plus importante, conséquence d’une dépense énergétique plus faible. Dans la deuxième étude, on a comparé la sélection des substrats chez des sujets mas- culins et féminins et les effets d’une alimentation enrichie en glucides ou de l’ingestion de glucose, au cours d’un exercice prolongé d’une durée de deux heures. On reconnaît généralement que, pour une même puissance relative, les femmes utilisent moins de glucides et davantage de lipides que les hommes. Les effets séparés d’une alimentation riche en glucides ou de l’ingestion de glucose pendant l’exercice sur la sélection des substrats furent pourtant similaires chez les deux sexes. L’effet combiné des deux procédures de supplémentation est toutefois plus important chez la femme que chez l’homme, soutenant l’hypothèse qu’un léger déficit en glucides soit présent chez les femmes. Dans la troisième étude, l’oxydation des substrats et particulièrement celle d’amidon exogène au cours d’une marche prolongée à une faible puissance de travail a été décrite. Les individus qui pratiquent des activités physiques prolongées à des intensités faibles (< 40 %VO2max) sont encouragés à ingérer des glucides et de l’eau pendant l’effort, mais la contribution de leur oxydation à la fourniture d’énergie est relativement peu connue. Nous avons montré que, contrairement aux observations précédemment effectuées à jeun sans ingestion de glucides pendant l’effort, les glucides (incluant de source exogène) peuvent fournir une très grande partie de l’énergie lorsqu’ils sont ingérés à des intervalles réguliers au cours de l’exercice prolongé. Dans l’ensemble, les résultats des études expérimentales présentées dans cette thèse montrent que les glucides ingérés peuvent fournir une grande proportion de l’énergie pendant l’exercice prolongé. Toutefois, le mode d’exercice, le sexe et la puissance de travail mènent à des variations qui sont en grande partie liées à une dépense énergétique variable selon les conditions et les groupes d’individus ayant des caractéristiques différentes.

Chasseurs de bisons : apports de l’archéozoologie et de la biogéochimie isotopique à l’étude palethnographique et paléoéthologique du gisement épigravettien d’Amvrosievka (Ukraine)

Réalisé en cotutelle avec le Département de Préhistoire du Muséum national d’Histoire naturelle (Paris, France), École doctorale « Sciences de la nature et de l’Homme » (ED 227)

Bioaccumulation du méthylmercure chez les invertébrés aquatiques aux latitudes tempérées et polaires : rôle des facteurs écologiques, biologiques et géochimiques

Thèse numérisée par la Division de la gestion de documents et des archives de l'Université de Montréal