Mónica C. Silva

Population census and nesting habitat selection of thin-billed prion Pachyptila belcheri on New Island, Falkland Islands

Seabirds have the potential to be used as indicators for monitoring changes in the southern oceans. However, many species and populations are still poorly known. The thin-billed prion ( Pachyptila belcheri) is the most abundant seabird species around the Falkland Islands, but this far, no detailed censuses of its populations had been carried out. In this study, we developed a methodology, based on standard field methods combined with a Geographical Information System, to census the biggest known colony (New Island) of this species. Data were also collected on nesting habitat preferences. Results indicate that there are 1,081,000 (95% confidence limits: 815,000–1,346,000) apparently active nest-burrow entrances on New Island South which, given the very high occupancy rates by known breeders, should correspond to a similar number of nesting couples. We present quantitative evidence that this result can be extrapolated for the entire island, giving an overall estimate of 2 million pairs. Prions have an almost ubiquitous distribution on New Island, but they are more frequent in areas with steeper slopes (excluding cliffs). Habitats dominated by introduced grass species generally hold higher densities of nests in comparison to most native formations.

Molecular barcoding of north-east Atlantic deep-water sharks: species identification and application to fisheries management and conservation

Two genera of elasmobranchii, Centrophorus and Centroscymnus, include species that represent the highest landings of deep-water sharks caught by fishing fleets operating in the north-east Atlantic. There are morphology-based identification problems among and within genera, and landings of processed shark products further prevent an objective assessment of these species. The present study is the first attempt to test the suitability of using a DNA barcode approach to discriminate accurately among the four most important commercial deep-water shark species: Centrophorus squamosus, Centrophorus granulosus, Centroscymnus coelolepis and, recently discovered in Portuguese ports, Centroscymnus owstoni. Sequence analyses of the mitochondrial DNA cytochrome c oxidase subunit I (COI) gene revealed low levels of haplotypic and genetic diversities. Higher levels of inter-specific relative to intra-specific divergences allowed discrimination among species, which form reciprocally monophyletic clades. Inclusion of published COI sequences from other species within the same genera revealed haplotype sharing among species, which calls into question the current taxonomy and accuracy of fisheries data available. Amplification of the COI gene coupled with MboI restriction digests was found to be a fast and inexpensive strategy to resolve within genera identification problems. Molecular barcoding constitutes a critical tool for the assessment and implementation of urgent management policies for this group of species.

Permanent genetic resources added to Molecular Resources Database 1 February 2012 - 31 March 2012

This article documents the addition of 171 microsatellite marker loci and 27 pairs of single nucleotide polymorphism (SNP) sequencing primers to the Molecular Ecology Resources Database. Loci were developed for the following species: Bombus pauloensis, Cephalorhynchus heavisidii, Cercospora sojina, Harpyhaliaetus coronatus, Hordeum vulgare, Lachnolaimus maximus, Oceanodroma monteiroi, Puccinia striiformis f. sp. tritici, Rhea americana, Salmo salar, Salmo trutta, Schistocephalus solidus, Sousa plumbea and Tursiops aduncus. These loci were cross‐tested on the following species: Aquila heliaca, Bulweria bulwerii, Buteo buteo, Buteo swainsoni, Falco rusticolus, Haliaeetus albicilla, Halobaena caerulea, Hieraaetus fasciatus, Oceanodroma castro, Puccinia graminis f. sp. Tritici, Puccinia triticina, Rhea pennata and Schistocephalus pungitii. This article also documents the addition of 27 sequencing primer pairs for Puffinus baroli and Bulweria bulwerii and cross‐testing of these loci in Oceanodroma castro, Pelagodroma marina, Pelecanoides georgicus, Pelecanoides urinatrix, Thalassarche chrysostoma and Thalassarche melanophrys.

Diet of Common Terns in the Azores, Northeast Atlantic

Abstract We studied the diet of the Common Tern (Sterna hirundo) in several islands of the Azores during 1994, based on the analysis of 777 food pellets. The diet of Common Terns was based on a few species of small pelagic fish. Trumpet Fish (Macroramphosus spp.) dominated the diet in terms of both frequency of occurrence (84%) and numerical frequency (69%). This species, together with Boarfish (Capros aper), Blue Jack Mackerel (Trachurus picturatus) and lantern fish (Families Myctophidae, Sternoptychidae, Diretmidae), accounted for more than 96% of the prey taken by Common Terns on all the islands. Insects occurred in 10% of all pellets analyzed and were present in almost 15% of the pellets from Corvo. Lantern fish represented an important fraction of the diet of Common Terns in the Azores and included several species previously undescribed as prey of seabirds in the region. Comparisons with dietary data obtained in subsequent years showed little inter-annual variability in the frequency of abundance of the main prey species, except for the lantern fish, which exhibited a higher frequency of occurrence in 1995.

Egg size and parental quality in thin-billed prions, Pachyptila belcheri: effects on offspring fitness

Seabirds laying a single egg per season can regulate breeding investment during prelaying through size and composition of the egg, and during postlaying by adjusting parental care. Both stages can influence offspring growth and survival. Although likely not independent, attempts to measure the relative contributions of egg size per se and parental quality to offspring fitness are rare. To unravel the effects of both variables, we performed a cross-fostering experiment in thin-billed prions, where pairs laying large or small eggs were randomly given either size of eggs to raise. Nestling growth was followed through to fledging. Hatchlings from large eggs were structurally larger and heavier. Egg size effects, for the first time shown to last throughout the nestling period, influenced chick growth parameters and fledging probability. Large-egg chicks reached a significantly higher maximum growth rate and peak mass than chicks hatched from small eggs. There was also a relationship between the size of the egg laid by the foster parents and growth of their fostered offspring. Chicks raised by high-quality parents were heavier and in better body condition shortly after hatching, when mortality is high, and were provisioned at a frequency that minimized mass fluctuations during growth. Significant year effects and year*egg size/parental quality interactions suggest that contributions of egg size and parental quality to offspring fitness are contingent on interannual environmental variability. We discussed maintenance of egg size polymorphism in this population, where egg size repeatability was found to be high.

Anonymous Nuclear Loci in the White-Faced Storm-Petrel Pelagodroma marina and Their Applicability to Other Procellariiform Seabirds

Procellariiform seabirds are among the avian species with the fastest rates of extinction due to interactions with fisheries and introduction of alien predators to the breeding colonies. Conservation and management policies targeting populations of these species must include information on colony demographics and levels of isolation and genetic markers go a long way toward providing reliable estimates of these parameters. To this end, we report isolation and characterization of 14 anonymous nuclear loci, with average length of 657 bp, in the pelagic seabird White-faced Storm-petrel Pelagodroma marina, a species for which there is virtually no genetic information available. These loci, initially isolated from a genomic library built from P. marina, were further tested, for a range of conditions, in 7 other species representing all Procellariiform families. We found high levels of cross-species amplification success, varying between 79% and 86% in representatives of Diomedeidae, Procellariidae, Pelecanoididae, and other Hydrobatidae. We also sequenced 11 loci for 22 P. marina individuals and report higher levels of anonymous genetic variation (π = 0.002), with an average of 1 single nucleotide polymorphism every 100 bp surveyed, relative to the levels found on a typically variable intron in avian species. These markers will be a valuable tool in future population genetics and phylogenetic studies, particularly of nonmodel seabird species.

Understanding the mechanisms of antitropical divergence in the seabird White-faced Storm-petrel (Procellariiformes: Pelagodroma marina) using a multilocus approach

Analytical methods that apply coalescent theory to multilocus data have improved inferences of demographic parameters that are critical to understanding population divergence and speciation. In particular, at the early stages of speciation, it is important to implement models that accommodate conflicting gene trees, and benefit from the presence of shared polymorphisms. Here, we employ eleven nuclear loci and the mitochondrial control region to investigate the phylogeography and historical demography of the pelagic seabird White‐faced Storm‐petrel (Pelagodroma marina) by sampling subspecies across its antitropical distribution. Groups are all highly differentiated: global mitochondrial ΦST = 0.89 (P < 0.01) and global nuclear ΦST varies between 0.22 and 0.83 (all P < 0.01). The complete lineage sorting of the mitochondrial locus between hemispheres is corroborated by approximately half of the nuclear genealogies, suggesting a long‐term antitropical divergence in isolation. Coalescent‐based estimates of demographic parameters suggest that hemispheric divergence of P. marina occurred approximately 840 000 ya (95% HPD 582 000–1 170 000), in the absence of gene flow, and divergence within the Southern Hemisphere occurred 190 000 ya (95% HPD 96 000–600 000), both probably associated with the profound palaeo‐oceanographic changes of the Pleistocene. A fledgling sampled in St Helena (tropical South Atlantic) suggests recent colonization from the Northern Hemisphere. Despite the great potential for long‐distance dispersal, P. marina antitropical groups have been evolving as independent, allopatric lineages, and divergence is probably maintained by philopatry coupled with asynchronous reproductive phenology and local adaptation.

Mechanisms of global diversification in the marine species Madeiran Storm-petrel Oceanodroma castro and Monteiro's Storm-petrel O. monteiroi: Insights from a multi-locus approach.

The evolutionary mechanisms underlying the geographic distribution of gene lineages in the marine environment are not as well understood as those affecting terrestrial groups. The continuous nature of the pelagic marine environment may limit opportunities for divergence to occur and lineages to spatially segregate, particularly in highly mobile species. Here, we studied the phylogeography and historical demography of two tropically distributed, pelagic seabirds, the Madeiran Storm-petrel Oceanodroma castro, sampled in the Azores, Madeira, Galapagos and Japan, and its sister species Monteiros Storm-petrel O. monteiroi (endemic to the Azores), using a multi-locus dataset consisting of 12 anonymous nuclear loci and the mitochondrial locus control region. Both marker types support the existence of four significantly differentiated genetic clusters, including the sampled O. monteiroi population and three populations within O. castro, although only the mitochondrial locus suggests complete lineage sorting. Multi-locus coalescent analyses suggest that most divergence events occurred within the last 200,000years. The proximity in divergence times precluded robust inferences of the species tree, in particular of the evolutionary relationships of the Pacific populations. Despite the great potential for dispersal, divergence among populations apparently proceeded in the absence of gene flow, emphasizing the effect of non-physical barriers, such as those driven by the paleo-oceanographical environments, philopatry and local adaptation, as important mechanisms of population divergence and speciation in highly mobile marine species. In view of the predicted climate change impacts, future changes in the demography and evolutionary dynamics of marine populations might be expected.

Searching for a breeding population of Swinhoe’s Storm-petrel at Selvagem Grande, NE Atlantic, with a molecular characterization of occurring birds and relationships within the Hydrobatinae

Long-distance dispersal plays a critical role in population dynamics, particularly in species that occupy fragmented habitats, but it is seldom detected and investigated. The pelagic seabird Swinhoe’s Storm-petrel, Oceanodroma monorhis, breeds exclusively in the NW Pacific. Individuals have been regularly observed in the Atlantic Ocean since the 1980s, but breeding has never been confirmed. In this study, we searched for evidence of breeding of Swinhoe’s Storm-petrels on Selvagem Grande Island, NE Atlantic, between 2007 and 2013. During this period, six individuals were captured, sexed and characterized molecularly for two mitochondrial loci, cytochrome oxydase I and the control region, to confirm species identity, survey genetic diversity and estimate evolutionary relationships within the Hydrobatinae. These individuals were confirmed to be Swinhoe’s Storm-petrels, and all except one are females. Phylogenetic analyses suggest sister relationship with Matsudaira’s Storm-petrel and dismiss misidentifications with other dark rump species. Patterns of genetic variation suggest that dispersal occurred likely by more than a single female. Despite the record of a pair duetting in a burrow, breeding could not be confirmed. Swinhoe’s Storm-petrels are regularly occurring at Selvagem Grande, but capture/recapture patterns suggest that a possible breeding population is small and likely not self-sustaining. In seabirds, long-distance dispersal events may facilitate colonization of new habitats created in the context of predicted climate change impacts on the marine ecosystems.ZusammenfassungAuf der Suche nach einer Brutpopulation des Swinhoewellenläufers (Oceanodroma monorhis) auf Selvagem Grande im Nordost-Atlantik mithilfe molekularer Charakterisierung dort vorkommender Vögel und ihres Verwandtschaftsgrads innerhalb der Hydrobatinae-Unterfamilie Verbreitung über weite Entfernungen spielt in der Populationsdynamik eine herausragende Rolle, besonders bei Arten, die voneinander getrennte Habitate besetzen; dennoch wird diese Verbreitung nur selten beobachtet und untersucht. Der pelagisch lebende Swinhoewellenläufer (Oceanodroma monorhis) brütet ausschließlich im Nordwest-Pazifik, einzelne Individuen wurden aber seit den 1980er Jahren regelmäßig auch im Atlantik beobachtet, wobei ein Brüten jedoch nie bestätigt werden konnte. Wir suchten von 2007 bis 2013 auf Selvagem Grande, einer Insel im Nordost-Atlantik, nach Nachweisen für brütende Swinhoewellenläufer. In dieser Zeit fingen wir sechs Einzeltiere, machten eine Geschlechtsbestimmung und charakterisierten sie molekular anhand zweier mitochondrialer Loci, Cytochrome Oxydase I und einer Kontrollregion, um ihre Art zu bestimmen, Aussagen über ihre genetische Vielfalt machen zu können und ihren evolutionären Verwandtschaftsgrad mit den Hydrobatinen einzuschätzen. Alle Tiere waren Swinhoewellenläufer und bis auf eines allesamt Weibchen. Phylogenetische Analysen zeigten eine Geschwisterverwandtschaft mit den Matsudaraiwellenläufern und schlossen eine mögliche Fehl-Identifizierung als andere Art mit dunklem Rumpf aus. Die Muster der genetischen Variationen wiesen darauf hin, dass die Verbreitung vermutlich auf mehr als einem einzigen Weibchen beruhte. Trotz des aufgezeichneten Duettgesangs eines Pärchens in einem Erdloch konnte jedoch keine Brut festgestellt werden. Swinhoewellenläufer tauchen regelmäßig auf Selvagem Grande auf, die Muster der Widerfänge weisen aber darauf hin, dass eine mögliche Brutpopulation nur klein und nicht selbsterhaltend sein kann. Bei Meeresvögeln mag eine Verbreitung über weite Entfernungen hinweg die Kolonisierung neuer Habitate erleichtern, die sich im Zusammenhang mit den vorhergesagten Klimaänderungen und deren Auswirkungen auf die marinen Ökosysteme bilden.

Barcoding deep-water chondrichthyans from mainland Portugal

Most deep-water chondrichthyans occurring off mainland Portugal are distributed worldwide. There are many closely related species with similar morphology, and the lack of diagnostic characters that unambiguously allow species discrimination has led to extensive identification problems. Here, DNA barcodes were used to evaluate the suitability of cytochrome c oxidase I (COI) to identify deep-water chondrichthyans and to further contribute to the worldwide molecular databases currently in use. The sample was composed of 40 individuals from the families Chimaeridae, Centrophoridae, Somniosidae, Etmopteridae, Oxynotidae, Dalatiidae, Scyliorhinidae, Mitsukurinidae, Chlamydoselachidae and Hexanchidae. COI proved to be adequate for species identification, with almost all putative species recovered as well supported monophyletic clades, with low intraspecific variation. Sequence matches against the BOLD database provided evidence for the existence of identification problems particularly within the genera Hydrolagus, Galeus and Centrophorus. Present results suggest that three different Centrophorus species occur off the Portuguese mainland, C. squamosus, C. granulosus and C. uyato. The sample also included an albino Deania calcea and a C. squamosus specimen without dermal denticles. This study updates the current knowledge on diversity and distribution of deep-water chondrichthyans occurring along the Portuguese coast, and provides an essential tool for species identification and consistency of taxonomic designations worldwide.