Population Structure and Dispersal Patterns within and between Atlantic and Mediterranean Populations of a Large-Range Pelagic Seabird

Dispersal is critically linked to the demographic and evolutionary trajectories of populations, but in most seabird species it may be difficult to estimate. Using molecular tools, we explored population structure and the spatial dispersal pattern of a highly pelagic but philopatric seabird, the Cory''s shearwater Calonectris diomedea. Microsatellite fragments were analysed from samples collected across almost the entire breeding range of the species. To help disentangle the taxonomic status of the two subspecies described, the Atlantic form C. d. borealis and the Mediterranean form C. d. diomedea, we analysed genetic divergence between subspecies and quantified both historical and recent migration rates between the Mediterranean and Atlantic basins. We also searched for evidence of isolation by distance (IBD) and addressed spatial patterns of gene flow. We found a low genetic structure in the Mediterranean basin. Conversely, strong genetic differentiation appeared in the Atlantic basin. Even if the species was mostly philopatric (97%), results suggest recent dispersal between basins, especially from the Atlantic to the Mediterranean (aprox. 10% of migrants/generation across the last two generations). Long-term gene flow analyses also suggested an historical exchange between basins (about 70 breeders/generation). Spatial analysis of genetic variation indicates that distance is not the main factor in shaping genetic structure in this species. Given our results we recommend gathering more data before concluded whether these taxa should be treated as two species or subspecies.     

Taxonomic Considerations of a Foliose Grateloupia Species from the Straits of Messina

Grateloupia turuturu Yamada is the currently accepted name for the invasive red alga that is present on coasts of the North Atlantic. Previously considered as G. doryphora (Montagne) M.A. Howe, populations of this invasive species were examined and their taxonomic position revised using molecular and morphological techniques. It was also thought that similar invasive populations in the Mediterranean should be identified as G. turuturu. This investigation used rbcL based molecular analyses to clarify the taxonomic position of Grateloupia “doryphora’ from the Straits of Messina. Our results indicate that this population is neither G. doryphora nor G. turuturu. It was placed separately in all analyses and grouped consistently with other Grateloupia species from the Pacific. On the basis of molecular data from this and previous investigations, it is evident that the status of the foliose Atlantic and Mediterranean entities is still unclear and a re-evaluation of the old names connected to them should be undertaken.     

Life cycle and adaptive strategies of three non-annual,ruderalCardueae: Onopordum nervosum,Carthamus arborescens,andCirsium scabrum

The life cycle and autoecology of three Mediterranean thorny species,Onopordum nervosum (Iberian endemic),Cirsium scabrum (Western Mediterranean) andCarthamus arborescens (Iberian-North African), of potential use in agriculture as bioenergetic, forage or oil producing plants were studied. These threeCardueae spp. are good examples of ways in which Mediterranean plants adapt their typical annual cycle to avoid summer droughts.O. nervosum is a perennial, monocarpic, heliophilous species which flowers in early summer and grows even under the extreme xeric conditions of the Mediterranean summers. It is a basiphilous plant usually found in sandy-loamy and sandy-clayey-loamy soils with a marked geographical variability in its seed germination.C. scabrum is a perennial, monocarpic species which has a long life cycle, flowering in summer and growing only during the wet months. It is not well-adapted to droughts and is usually restricted to acid soils.C. arborescens is a perennial, polycarpic species which flowers in spring and dries up in summer. It is usually found in basic loamy-sandy or sandy-loamy soils poor in organic matter.     

Invasive rats and seabirds after 2,000 years of an unwanted coexistence on Mediterranean islands

In the Mediterranean, the survival of endemic long-lived seabirds despite the long-standing introduction of one of the most damaging alien predator, the ship rat (Rattus rattus), on most islands constitutes an amazing conservation paradox. A database gathering information on approximately 300 Western Mediterranean islands was analyzed through generalized linear models to identify the factors likely to influence ship rat presence and to account for how ship rat presence and island characteristics may have driven the presence and abundance of seabirds. Our review showed that few Mediterranean islands remain rat-free. At the regional scale, rat presence was only a limiting factor in the abundance of the smallest seabird, the storm petrel (Hydrobates pelagicus), while the distribution and abundance of the three shearwaters were more influenced by island characteristics. We hypothesized that the long-term persistence of these seabirds may have been facilitated by the various biogeographical contexts of Mediterranean islands, likely to provide intra-island refuges.     

Halophilic archaea in the human intestinal mucosa

The human gastrointestinal tract microbiota, despite its key roles in health and disease, remains a diverse, variable and poorly understood entity. Current surveys reveal a multitude of undefined bacterial taxa and a low diversity of methanogenic archaea. In an analysis of the microbiota in colonic mucosal biopsies from patients with inflammatory bowel disease we found 16S rDNA sequences representing a phylogenetically rich diversity of halophilic archaea from the Halobacteriaceae (haloarchaea), including novel phylotypes. As the human colon is not considered a salty environment and haloarchaea are described as extreme halophiles, we evaluated and further discarded the possibility that these sequences originated from pre‐colonoscopy saline lavage solutions. Furthermore, aerobic enrichment cultures prepared from a patient biopsy at low salinity (2.5% NaCl) yielded haloarchaeal sequence types. Microscopic observation after fluorescence in situ hybridization provided evidence of the presence of viable archaeal cells in these cultures. These results prove the survival of haloarchaea in the digestive system and suggest that they may be members of the mucosal microbiota, even if present in low numbers in comparison with methanogenic archaea. Investigation of a potential physiological basis of this association may lead to new insights into gastrointestinal health and disease.     

Genetic diversity of Philaenus spumarius and P. tesselatus (Hemiptera,Aphrophoridae): implications for evolution and taxonomy

The meadow spittlebugs Philaenus spumarius and P. tesselatus are closely related taxa with uncertain taxonomic position in the light of previous morphological, ecological, cytological and molecular research. Despite morphological homogeneity of P. spumarius (with the exception of high colour and pattern polymorphism) across its wide Holarctic range, it is possible that additional taxa (species or subspecies) exist. Philaenus spumarius is a potentially important pest in parts of its range where it was introduced. We used DNA markers to describe the genetic diversity of P. spumarius and P. tesselatus and to verify the taxonomic status of P. tesselatus and remote populations of the former species. The mitochondrial (cytochrome B) data showed that there are two main groups encompassing a northeastern (Asia and north‐central Europe) and a southwestern (Mediterranean area and western Europe, including North American specimens) clade. According to the elongation factor‐1α gene, there are three main clades: northeastern (Eurasiatic clade, E1), southeastern (east Mediterranean – Caucasus clade, E2) and southwestern (Iberian clade, E3). These two or three mitochondrial and nuclear clades could be considered as separate taxonomic units. On the other hand, all studied individuals of both species possessed the same internal transcribed spacer 2 haplotype. American specimens most probably originated from some western European populations. All studied specimens of P. tesselatus belong to the southwestern clade and western Mediterranean cluster. Therefore, together with cytological data, its species status is doubtful. To definitively solve the taxonomic status of P. tesselatus and populations of P. spumarius, further research using more samples and more genetic markers are needed.     

Detrimental effects of two widespread invasive ant species on weight and survival of colonial nesting seabirds in the Hawaiian Islands

Invasive ants are a significant conservation concern and can have far-reaching effects in ecosystems they invade. We used the experimental control of ant numbers on two pairs of small (<5 ha) offshore islets dominated by either the big-headed ant, Pheidole megacephala or the tropical fire ant, Solenopsis geminata to investigate the influence of these species on seabird hatching success, fledging success and weight. Limited unpublished observations of both ant species attacking nesting seabirds exist, but the frequency of attacks or how they affect seabird growth and survival are unknown. Island-wide treatments with hydramethylnon resulted in the eradication of P. megacephala and the temporary reduction of S. geminata densities. No difference in hatching success, growth, or fledging success of Wedge-tailed Shearwaters (Puffinus pacificus), a common colonial nesting seabird in the Hawaiian Islands was observed on the pair of islets dominated by P. megacephala. On islets dominated by S. geminata, ant control resulted in a temporary increase in fledging success. Injury frequency increased dramatically on the untreated islet (8.3–100%) while remaining the same on the treated islet (27–38%). Severely injured chicks (i.e., chicks that lost >20% of tissue on their feet) weighed significantly less than uninjured chicks and did not fledge. It is unclear if the chicks were being preyed upon or stung in defense of nearby ant colonies. Radical changes in invasive ant populations have been noted, and booming ant populations could cause short-term, but widespread damage to seabird colonies. The negative effects of invasive ants on seabirds may be difficult to detect, and therefore unknown or underestimated throughout the world where the two groups overlap.     

Isolation and characterisation of bacteria from the Eastern Mediterranean deep sea

The Eastern Mediterranean deep sea is one of the most oligotrophic regions in the world’s ocean. With the aim to classify bacteria from this special environment we isolated 107 strains affiliating to the Gammaproteobacteria, Alphaproteobacteria, Firmicutes, Actinobacteria and Bacteroidetes from sediments of the Eastern Mediterranean Sea. As determined by 16S rRNA gene sequence analysis, Actinobacteria and Firmicutes, in particular members of the genus Bacillus, were dominant and represented a remarkable diversity with 27 out of a total of 33 operational taxonomic units obtained from the untreated sediment. The considerable percentage of operational taxonomic units (42%) which may be considered to be new species underlines the uniqueness of the studied environment. In order to selectively enrich bacteria which are adapted to the deep-sea conditions and tolerate broad pressure ranges, enrichments were set up with a sediment sample under in situ pressure and temperature (28 MPa, 13.5°C) using N-acetyl-d-glucosamine as substrate. Interestingly Gammaproteobacteria were significantly enriched and dominant among the strains isolated after pressure pre-incubation. Obviously, Gammaproteobacteria have a selective advantage under the enrichment conditions applied mimicking nutrient supply under pressure conditions and cope well with sudden changes of hydrostatic pressure. However, under the continued low nutrient situation in the Eastern Mediterranean deep-sea sediments apparently Firmicutes and Actinobacteria have a clear adaptative advantage.     

Molecular phylogeny and biogeographic history of the European Maja spider crabs (Decapoda, Majidae)

We have assessed for the first time the phylogenetic relationships and biogeographic history of the crabs of the genus Maja that inhabit European coasts: M. brachydactyla, M. crispata, M. goltziana and M. squinado. Using mitochondrial markers, we have recovered a well-resolved phylogenetic tree that supports a single origin for the European species, most likely from an Indo-West Pacific ancestor during the Early Miocene. In this phylogeny, M. goltziana appears as the basal European species, with a sister lineage bifurcating into an Eastern Atlantic (M. brachydactyla) and a Mediterranean (M. crispata and M. squinado) clade. We propose the Tethyan Seaway as the initial colonization route, although an entrance through South Africa cannot be discounted. The Eastern Atlantic/Mediterranean split seems to predate the Messinian salinity crisis, which, in turn, could have promoted the recent divergence within the Mediterranean. In addition, Pleistocene glaciations could explain the current diversity in the Eastern Atlantic Ocean, where a unique mitochondrial lineage is found. According to this, the genetic profile of South African crabs appears to belong to M. brachydactyla, questioning the validity of the putative species M. capensis.     

Distribution patterns and microhabitat segregation in gastrointestinal helminths of Sorex shrews

We studied the distribution patterns and microhabitat use in gastrointestinal helminths of the shrews Sorex araneus and S. caecutiens in Finland. The distribution of species prevalences was bimodal, and in S. araneus the abundance (mean intensity) was positively associated with commonness (prevalence), as assumed by the core-satellite species hypothesis (Hanski 1982). However, the positive correlation between prevalence and intensity was observed only when the effects of helminth body size and taxonomic group (cestodes vs nematodes) on intensity were controlled for. The nematodes of the genus Longistriata occurred predictably as core species, whereas the identity of the core cestodes was more variable between host species and regions. Helminth body size and taxonomic group were not related to the degree of aggregation in shrew populations, but helminth body size seemed to explain the differences in the distribution patterns of helminths between shrews and voles. The core species did not show more segregation in microhabitat use than randomly selected species. In fact, the two core nematodes showed largely overlapping intestinal distributions. We conclude that linear intestinal space is not a key resource for shrew nematodes, but it may be for shrew cestodes.     

Polymorphic microsatellites in the black‐legged kittiwake Rissa tridactyla

We isolated seven microsatellite sequences from a library of recombinant clones in Rissa tridactyla (Laridae). We investigated their polymorphism in one population from France. Preliminary results indicate that these markers should prove valuable tools for the study of mating systems, population genetic structure and dispersal abilities in this seabird species. We present the results of cross‐species amplification for two seabird species: Uria aalge (Alcidae) and Stercorarius parasiticus (Stercorariidae). Some of the microsatellites isolated in R. tridactyla might be useful for studies on other seabird species.     

Feeding Habits of Percnon gibbesi (H. Milne Edwards, 1853) in the Sicily Strait

The subtropical grapsid crab Percnon gibbesi (H. Milne Edwards, 1853) is one of the most recent alien decapods found in the Mediterranean, where it was discovered at Linosa (Pelagie Islands, Sicily Strait) in summer 1999. At present, the invasion of this species has been recorded in several other insular localities. We studied the feeding habits of the crab in an attempt to understand its success in the Mediterranean. The morphological characteristics of the chela, the feeding adaptations of the gastric mill and the analysis of stomach contents indicate that P. gibbesi is a strictly herbivorous species, a characteristic not shared with any other large-sized infralittoral Mediterranean crab.     

The seashore sedges of the Russian Kola Peninsula: How many species?

A necessary basis for environmental protection is thorough knowledge of the biodiversity to be protected. Setting conservation priorities in taxonomically complex groups is an especially difficult task. The seashore sedges of the Carex salina group (Cyperaceae) of the Russian White and Barents Seas form important parts of the coastal ecosystems and include species listed as rare and endangered. However, their taxonomy is poorly understood and supposed to be blurred by hybridization, also including the closely related C. aquatilis and possibly other species of sect. Phacocystis (C. bigelowii, C. nigra s. lat.). We address the taxonomic situation in the C. salina group in the Kola Peninsula with emphasis on taxa of supposed hybrid origin (C. salina and C. recta coll.). We analyzed 92 plants from 28 sites for 101 amplified fragment length polymorphisms (AFLPs) and 10 morphological characters. The plants referred to three supposedly “pure” species (C. aquatilis, C. paleacea and C. subspathacea) formed different extreme parts of the morphological and molecular variation. These species could be discriminated by a combination of morphological characters. The two taxa of proposed hybrid origin had extremely variable morphology and could not be clearly distinguished from each other or from the supposedly “pure” species. Our results demonstrate extensive gene flow between all taxa, suggesting that the entire C. salina group including C. aquatilis acts as a single large biological species.     

Comparing fish assemblages and trophic ecology of permanent and intermittent reaches in a Mediterranean stream

Mediterranean streams are characterised by seasonal droughts, the frequency and intensity of which vary spatially and are expected to increase with global change. We studied the potential effects of drought and climate change on the fish assemblage and its trophic ecology in a Mediterranean stream by comparing an intermittent tributary with two more permanent neighbouring reaches. Although the three sites were dominated by the same two fish species, Mediterranean barbel (Barbus meridionalis) and chub (Squalius laietanus), the intermittent tributary had a lower overall fish density and fewer eel (Anguilla anguilla). The intermittent tributary had macroinvertebrates with lower density, smaller taxa and higher diversity. Fish in the intermittent tributary had significantly lower biomasses in their gut contents (adjusted for fish length) and more negative electivities than those in the permanent reaches, as well as significantly lower taxonomic diversity. These results indicate that there was reduced resource availability in the intermittent tributary, which resulted in significantly lower condition and gonadal weight (adjusted for length) of barbel and chub. The data obtained in this Mediterranean stream support the observation that reduced water flow may affect fish at both individual and assemblage levels.     

Isoasparagine as a marker amino acid in the taxonomy of Characeae

Fourteen species of Characeae were analyzed for their free amino acids. This study, in combination with previous results (Sakanoet al., 1984) showed that all the species that belong to the generaChara (6 species),Lamprothamnium (1 species),Nitellopsis (1 species),Lychnothammus (1 species) and 5Nitella species of the members of the subsectionAnarthrodactylae contained a large amount of isoasparagine. In contrast, no isoasparagine was found in the species belonging toTolypella (3 species) and otherNitella (7 species). Presence of isoasparagine in some species of Characeae (N. flexillis andNitellopsis obtusa) was found to be independent of their localities (Japan, Canada and England). Species lacking isoasparagine (N. oligogyra and N. axilliformis) did not produce isoasparagine even under the condition that induced a great increase of this amino acid in the species that contained it (C. corallina andN. flexilis). These results indicate that isoasparagine is a distinct taxonomic marker and suggest that theNitella species of the subsectionAnarthrodactylae are the most primitive group inNitelleae in that they share synthesis and accumulation of isoasparagine withChareae and, hence, support the view (Kasaki, 1964) that the subsection may be treated as an independent genus.     

Patterns of ecological,chorological and taxonomic diversity at both sides of the Strait of Gibraltar

Abstract. Diversity relations in Mediterranean heathlands and the understorey of oak woodlands on sandstone-derived substrates were studied at both sides of the Strait of Gibraltar. Trends in species composition and cover were analysed by Detrended Correspondence Analysis; the first axis, assumed to reflect a main environmental gradient, was used to analyse the patterns of three aspects of community diversity. Species richness, i.e. number of species along a 100-m transect, shows a humpbacked trend along the gradient, with the highest values in the understorey of evergreen Quercus suber woodlands, associated with soils of intermediate fertility and moisture status. The number of endemic species is highest in open heathlands, associated with more extreme conditions of acid, infertile soils on exposed ridges. The taxonomic singularity, as measured by the inverse of the average number of species per genus at each site, is highest at the most fertile and moist sites occupied by semideciduous Q. canariensis woodlands. A comparison between northern (Spanish) and southern (Moroccan) sides of the Strait of Gibraltar shows a general concordance of the trends of woody plant communities along the main environmental gradient. However, significant differences of the southern samples are: (1) lack of some differential, habitat-specific species and greater abundance of widespread generalists; and (2) a general reduction in species diversity, number of endemics and taxonomic singularity. We interpret these differences as affected partly by the smaller extent and fragmentation of sandstone areas in the south, and partly by the higher impact of slashing and grazing there.     

The history of the genusHomo

The genusHomo was established by Carolus Linnaeus in 1758. During the course of the past 150 years, the addition of fossil species to the genusHomo has resulted in a genus that, according to the taxonomic interpretation, could span as much time as 2.5 Myr, and include as many as ten species. This paper reviews the fossil evidence for each of the species involved, and sets out the case for their inclusion inHomo. It suggests that while the case for the inclusion of some species in the genus (e.g.Homo erectus) is well-supported, in the case of two of the species,Homo habilis andHomo rudolfensis, the case for their inclusion is much weaker. Neither the cladistic evidence, nor evidence about adaptation suggest a particularly close relationship with laterHomo.     

Cryptic speciation and genetic structure of widely distributed brittle stars (Ophiuroidea) in Europe

Pérez‐Portela, R., Almada, V. & Turon, X. (2012). Cryptic speciation and genetic structure of widely distributed brittle stars (Ophiuroidea) in Europe. —Zoologica Scripta, 00, 000–000. The development of molecular techniques has led to the detection of numerous cases of cryptic speciation within widely distributed marine invertebrate species and important taxonomic revisions in all the major marine taxa. In this study, we analysed a controversial marine species complex in the genus Ophiothrix, a widespread taxon in European waters traditionally assigned to two nominal species, Ophiothrix fragilis and O. quinquemaculata. These species are important components of the rocky shores and deep marine benthos along the North Atlantic and Mediterranean littoral. Their status (including variants of both species) has remained contentious due to overlapping variability in morphological characters. In this study, we analysed the genetic and morphological differences of Ophiothrix lineages along the Atlantic and Mediterranean coasts. We also assessed population genetic structure in the Atlantic and Mediterranean basins by sequencing two mitochondrial genes, the 16S rRNA gene and COI gene, of 221 specimens from 13 locations. Phylogenetic analyses demonstrated the existence of two genetically distinct lineages, attributable to two different species although unrelated to previous taxonomic distinctions. Morphological differences could also be detected between these lineages. Samples from the Northeast Atlantic and one from the deep Mediterranean grouped within Lineage I, whereas Lineage II pooled together the southern Atlantic and rocky shallow Mediterranean samples. In the northern region of the Iberian Peninsula and at a deep locality in the Mediterranean, both lineages overlap. Speciation processes likely happened during the Mio–Pliocene transition (about 4.8–7.5 million years ago), when marine‐level oscillations led to the blockage of major marine corridors in Europe and promoted genetic isolation by vicariance. Secondary contact between lineages following sea‐level increases and recolonization during the refilling of the Mediterranean after the Miocene salinity crisis could explain the present‐day distribution of genetic variability. No barriers to gene flow along the Atlanto‐Mediterranean area were detected for Lineage II, and the lack of genetic structure could be caused by a mixture of several factors, such as wide dispersal potential, recent demographic expansion and large population size.     

Metagenomic study of red biofilms from Diamante Lake reveals ancient arsenic bioenergetics in haloarchaea

Arsenic metabolism is proposed to be an ancient mechanism in microbial life. Different bacteria and archaea use detoxification processes to grow under high arsenic concentration. Some of them are also able to use arsenic as a bioenergetic substrate in either anaerobic arsenate respiration or chemolithotrophic growth on arsenite. However, among the archaea, bioenergetic arsenic metabolism has only been found in the Crenarchaeota phylum. Here we report the discovery of haloarchaea (Euryarchaeota phylum) biofilms forming under the extreme environmental conditions such as high salinity, pH and arsenic concentration at 4589 m above sea level inside a volcano crater in Diamante Lake, Argentina. Metagenomic analyses revealed a surprisingly high abundance of genes used for arsenite oxidation (aioBA) and respiratory arsenate reduction (arrCBA) suggesting that these haloarchaea use arsenic compounds as bioenergetics substrates. We showed that several haloarchaea species, not only from this study, have all genes required for these bioenergetic processes. The phylogenetic analysis of aioA showed that haloarchaea sequences cluster in a novel and monophyletic group, suggesting that the origin of arsenic metabolism in haloarchaea is ancient. Our results also suggest that arsenite chemolithotrophy likely emerged within the archaeal lineage. Our results give a broad new perspective on the haloarchaea metabolism and shed light on the evolutionary history of arsenic bioenergetics.