Revision of the Antillocaprinidae Mac Gillavry (Hippuritida,Bivalvia) and their position within the Caprinoidea d’Orbigny

The rudist bivalve family Antillocaprinidae Mac Gillavry is revised following a study of nearly all available material in museum collections. Based on differences in their myocardinal arrangements, three subfamilies are recognized: the Titanosarcolitinae nov. subfam., the Antillocaprininae Mac Gillavry, and the Parasarcolitinae nov. subfam. Fifteen genera are described, of which ten are new: Eosarcolites nov. gen., Caenosarcolites nov. gen., Clinocaprina nov. gen., Rotacaprina nov. gen., Rudicaprina nov. gen., Stellacaprina nov. gen., Oligosarcolites nov. gen., Polysarcolites nov. gen., Alencasteria nov. gen., and Sawkinsonia nov. gen. Genera, which are placed in monophyletic radiations, are differentiated on minor differences in myocardinal arrangements, morphotype, and presence or absence of tubes. Six new species are described: Eosarcolites radiatus nov. gen., nov. sp., Caenosarcolites scholaris nov. gen., nov. sp., Rudicaprina planus nov. gen., nov. sp., Sawkinsonia maldonensis nov. gen., nov. sp., Alencasteria macrotubularis nov. gen., nov. sp., and Stellacaprina gunteri nov. gen., nov. sp. Cladistic analysis was performed on selected genera from the Caprinoidea, justifing the division of the Antillocaprinidae into three subfamilies, although extensive paraphyletic groupings exist in the lower part of the strict consensus tree. Weighting myocardinal characters produces a strict consensus tree largely consistent with current subfamily- and family-rank taxonomy, and is consistent with the order of appearance of taxa in the fossil record. The Antillocaprinidae show a major evolutionary radiation reaching a first peak in the middle Campanian, a decline in the late Campanian, and a second peak just before the rudist extinction at the end of the Cretaceous.     

Agglutinating Activity and Structural Characterization of Scalarin,the Major Egg Protein of the Snail Pomacea scalaris (d’Orbigny, 1832)

Apple snail perivitellins are emerging as ecologically important reproductive proteins. To elucidate if the protective functions of the egg proteins of Pomacea canaliculata (Caenogastropoda, Ampullariidae), involved in embryo defenses, are present in other Pomacea species we studied scalarin (PsSC), the major perivitellin of Pomacea scalaris. Using small angle X-ray scattering, fluorescence and absorption spectroscopy and biochemical methods, we analyzed PsSC structural stability, agglutinating activity, sugar specificity and protease resistance. PsSC aggluttinated rabbit, and, to a lesser extent, human B and A erythrocytes independently of divalent metals Ca²⁺ and Mg²⁺ were strongly inhibited by galactosamine and glucosamine. The protein was structurally stable between pH 2.0 to 10.0, though agglutination occurred only between pH 4.0 to 8.0 (maximum activity at pH 7.0). The agglutinating activity was conserved up to 60°C and completely lost above 80°C, in agreement with the structural thermal stability of the protein (up to 60°C). PsSC was able to withstand in vitro gastrointestinal digestion, and showed no trypsin inhibition activity. The presence of lectin activity has been reported in eggs of other Pomacea snails, but here we link for the first time, this activity to an apple snail multifunctional perivitellin. This novel role for a snail egg storage protein is different from closely related P.canaliculata defensive proteins.     

Development and characterization of microsatellite loci from the Great White Pelican (Pelecanus onocrotalus) and widespread application to other members of the Pelecanidae

We describe the isolation of 10 microsatellite loci from the Great White Pelican using an enrichment protocol. All loci were variable with the number of alleles ranging from 2 to 19, and observed heterozygosity ranging from 0.261 to 0.913. Two loci were out of Hardy–Weinberg equilibrium, although in each case this was restricted to one of the two populations screened. None of the loci were linked. Eight to 10 loci PCR-amplified in three related species: Brown, American White and Pink-backed Pelicans. These loci should prove to be widely applicable to studies of phylogeography and demography in pelicans globally.     

Characterization of nine microsatellite loci for a globally vulnerable species, Reeves’s Pheasant (Syrmaticus reevesii)

Reeves’s Pheasant, Syrmaticus reevesii, is an endemic species of China. Due to habitat loss, poaching and human disturbance, its wild population has been decreased drastically and it is listed as a globally vulnerable species by IUCN/BirdLife/WPA (IUCN 2008). Here, we report nine new polymorphic microsatellite markers isolated from the Reeves’s Pheasant. The number of alleles per locus varies between four and fourteen, with expected heterozygosity ranging from 0.349–0.776 (n  = 90). These polymorphic loci provide a valuable tool for future population studies that relate to the conservation of this pheasant.     

Characterization of eight microsatellite loci in the Galápagos endemic land snail Bulimulus reibischi, and their cross-species amplification

Variation in and amplification conditions for eight polymorphic microsatellite loci initially identified from Bulimulus akamatus, a pulmonate land snail from Galápagos, are described. Intraspecific polymorphism and heterozygosity of the eight markers were studied in 19 populations of Bulimulus reibischi, a closely related species of B. akamatus. Furthermore, the eight loci were also cross-amplified in six other closely related bulimulid species. The number of alleles across populations of B. reibischi at six loci is moderate (three to 10), but considerable for two other loci (19 and 20). There is no strong evidence for linkage among any of the loci examined.     

Characterization of microsatellite loci from the Malagasy endemic,Tina striata Radlk. (Sapindaceae)

We isolated and characterized 12 polymorphic microsatellite loci in the Malagasy endemic, Tina striata Radlk. (Sapindaceae). The number of alleles per locus ranged from 2 to 6 (N = 28 individuals). Polymorphic information content ranged from 0.132 to 0.767 and observed heterozygosity from 0.154 to 0.800. These markers will be valuable in estimating outcrossing rates and genetic variation in populations of T. striata, and aid in the conservation of populations of T. striata and other closely related species in the Malagasy Sapindaceae.     

Spatial and temporal variability in intertidal assemblages dominated by the mussel Brachidontes rodriguezii (d’Orbigny, 1846)

The aim of this study is to examine the impact of man’s interventions on the present day distribution of fish in a mountain area in southern Norway, the Atna river system. River Atna originates in the Rondane mountains at altitudes of nearly 1600 m a.s.l., and joins River Glomma at 300 m a.s.l. There are 98 lakes in the watercourse (701–1565 m a.s.l.). Lake Atnsjøen is the largest lake (5.0 km²). Data on the occurrence, origin and status of fish in lakes were obtained by means of interviews, questionnaires and written sources. Occurrence in rivers and streams was surveyed by electrofishing. While the lower reaches of River Glomma contain most of the freshwater fish species found in Norway, the Atna watercourse has a poor fish fauna. Physical conditions, e.g. steep river gradients and several impassable waterfalls have prevented fish from reaching most lakes and river stretches after the deglaciation some 6000 years ago. Five species of fish are regarded as native to the area; brown trout (Salmo trutta), Arctic charr (Salvelinus alpinus), grayling (Thymallus thymallus), Siberian sculpin (Cottus poecilopus) and European minnow (Phoxinus phoxinus). Although only native species are found in the area, the present distribution of these species within the watercourse is to a very large extent a result of human interventions during the past 100–130 years. Brown trout were originally found in the main branch of the river, including Lake Atnsjøen and a few small lakes (n<5) further upstream, but it is now found in 65 lakes. Arctic charr were native only to Lake Atnsjøen, but now inhabit 20 lakes. Grayling remains restricted to River Atna below the waterfall at the outlet of Lake Atnsjøen. The natural distribution of Siberian sculpin is restricted to the main river below Liafossen waterfall (14 km above Lake Atnsjøen). During the 1890s, this species was accidentally introduced to Lake Setningsjøen, and subsequently spread to another three lakes further upstream. The European minnow was native only to the River Atna below Lake Atnsjøen, but was accidentally introduced to seven lakes in the course of this century. There are 24 fishless lakes in the watershed, mainly mountain lakes between 1033 and 1587 m a.s.l.     

Isolation and charaterization of 12 dinucleotide microsatellite loci from Belenger’s jewfish (Johnius belengerii Cuvier 1830)

We describe the first isolation of 12 polymorphic microsatellite markers from Belenger’s jewfish (Johnius belengnerii Cuvier 1830). From a (GT)n-enriched genomic library, 54 microsatellites were selected for designing microsatellite primers, of which 36 gave working primer pairs. 12 of these loci were polymorphic in a test population of 21 individuals with alleles ranging from 3 to 18, and expected and observed heterozygosities from 0.5772 to 0.9449 and from 0.4286 to 0.9231, respectively. No significant linkage disequilibrium between pairs of loci was found, however, loci Jobe24 significantly deviated from Hardy–Weinberg equilibrium after Bonferroni correction. These polymorphic microsatellite loci should provide sufficient level of genetic diversity to investigate population structure in Belenger’s jewfish.     

Isolation and characterization of microsatellite markers for Temminck’s Tragopan (Tragopan temminckii)

The habitat of Temminck’s Tragopan (Tragopan temminckii), a threatened species in China, has undergone severe fragmentation. Eight polymorphic microsatellite markers were isolated from Temminck’s Tragopan. Polymorphism was studied using 24 individuals collected from the wild. All the loci were polymorphic with number of alleles ranging from 6 to 21 and observed heterozygosity 0.38–0.83. These primers will be useful in studying gene flow between patches of Temminck’s Tragopan habitat and the level of genetic diversity in isolated patches.     

Development and characterization of 11 polymorphic compound tetranucleotide microsatellite loci for the Leisler’s bat, Nyctalus leisleri (Vespertilionidae, Chiroptera)

Eleven polymorphic microsatellite marker loci were developed from a Leisler’s bat (Nyctalus leisleri) genomic enriched library. Assessment of the usefulness of these markers for population genetics studies of Leisler’s bats was carried out by screening 100 specimens sampled from eight locations in Ireland and two in Northeastern France. Both moderately and highly polymorphic marker loci were identified. Five to 28 alleles were found to be segregating per locus with observed heterozygosities values ranging from 28.4 to 94%. Initial evaluation indicates that these microsatellites will be useful for genetic based studies aiming, for instance, at parentage and population structure of Leisler’s bats.     

Development of chromosome 6D-specific markers for α-gliadin genes and their use in assessing dynamic changes at the Gli-2 loci

To develop chromosome 6D-specific point mutation (PM) markers for α-gliadin genes, 79 α-gliadin sequences cloned from Aegilops tauschii and another 40 α-gliadin genes with known chromosome locations were used in multi-sequence alignment and phylogenic analysis. Additional multiple alignment adjustments were performed manually to facilitate discovery of putative chromosome 6D-specific point mutations. A total of 85 PM primers were designed to detect 68 candidate chromosome 6D-specific point mutations. Experimental tests revealed 11 chromosome 6D-specific PM markers by using genomic DNA from homoeologous group 6 nullisomic–tetrasomic lines of Chinese Spring and putative diploid and tetraploid ancestors of hexaploid wheat as PCR templates. Detection of PM markers in one synthetic hexaploid wheat and its parental lines indicated that some α-gliadin genes were lost from Gli-2 loci during the formation of hexaploid wheat by amphidiploidization of the genomes of Triticum turgidum and Ae. tauschii. Detection of these PM markers in Ae. tauschii, T. aestivum and its four subspecies indicated that at least two genetically distinct sources of Ae. tauschii contributed germplasm to the D genome of T. aestivum.     

Isolation and characterization of 12 microsatellite loci for Michelia coriacea (Magnoliaceae), a critically endangered endemic to Southeast Yunnan, China

By using a modified biotin–streptavidin capture method, a total of 12 microsatellite loci were developed and characterized for Michelia coriacea (Magnoliaceae), a critically endangered endemic to Southeast Yunnan, China. The number of alleles (A) ranged from two to six in 30 samples of this species. The ranges of observed (H _O ) and expected (H _E ) heterozygosities were 0.033–0.8000 and 0.033–0.7910, respectively. Cross-species amplification in M. yunnanensis showed that a subset of these markers holds promise for congeneric species. These polymorphic SSR markers would be useful tools for population genetics studies on M. coriacea and other congeneric species.     

Wood use in a medieval village: the contribution of wood charcoal analysis to the history of land use during the 13th and 14th centuries a.d. at Pobla d’Ifach, Calp, Alicante, Spain

Excavations on the Rock of Ifach, Alicante, Spain have revealed the remains of a medieval settlement that flourished between a.d. 1297 and 1359. Wood charcoal analysis combined with archaeological evidence and historical records allow an assessment of the local vegetation of the area during the medieval period, the obtaining and use of firewood and the commercial routes for supplying timber. Pinus halepensis and to a lesser degree various matorral taxa were used for fuel during the main occupation phases at the settlement. The resource exploitation network of the settlement expanded over the adjacent coastal area, with firewood obtained from pine woodlands there. The timbers used in the construction of the settlement were mainly from pines that originated nearby (P. halepensis) or which were transported by river from woodland areas to the north which were controlled by the Crown of Aragon (P. nigra/sylvestris, P. pinaster). The partial destruction of the village in a.d. 1359 and its gradual abandonment are reflected in changes observed in fuel supplying practices that then concentrated on the local matorral vegetation of the rock itself.     

Isolation and characterization of microsatellite loci in Coccoloba cereifera (Polygonaceae), an endangered species endemic to the Serra do Cipó, Brazil

Microsatellite primers were isolated from the microendemic and threatened species Coccoloba cereifera, a shrub known only from a small region in the Serra do Cipó, Brazil. Thirteen primer pairs amplifying perfect and imperfect microsatellite regions were tested in 40 individuals from the one known occurrence of the species. Number of alleles ranged from two to six and levels of observed heterozygosities ranged from 0.21 to 0.95. These markers will be useful for the analysis of questions concerning population genetic structure and will assist in providing information for future conservation management programmes.     

Life History and Production of the Western Gray Whale’s Prey,Ampelisca eschrichtii Kr?yer, 1842 (Amphipoda,Ampeliscidae)

Ampelisca eschrichtii are among the most important prey of the Western North Pacific gray whales, Eschrichtius robustus. The largest and densest known populations of this amphipod occur in the gray whale’s Offshore feeding area on the Northeastern Sakhalin Island Shelf. The remote location, ice cover and stormy weather at the Offshore area have prevented winter sampling. The incomplete annual sampling has confounded efforts to resolve life history and production of A. eschrichtii. Expanded comparisons of population size structure and individual reproductive development between late spring and early fall over six sampling years between 2002 and 2013 however, reveal that A. eschrichtii are gonochoristic, iteroparous, mature at body lengths greater than 15 mm and have a two-year life span. The low frequencies of brooding females, the lack of early stage juveniles, the lack of individual or population growth or biomass increases over late spring and summer, all indicate that growth and reproduction occur primarily in winter, when sampling does not occur. Distinct juvenile and adult size cohorts additionally indicate growth and juvenile production occurs in winter through spring under ice cover. Winter growth thus requires that winter detritus or primary production are critical food sources for these ampeliscid populations and yet, the Offshore area and the Eastern Sakhalin Shelf ampeliscid communities may be the most abundant and productive amphipod population in the world. These A. eschrichtii populations are unlikely to be limited by western gray whale predation. Whether benthic community structure can limit access and foraging success of western gray whales is unclear.     

Assessing the Contribution of Marine Protected Areas to the Trophic Functioning of Ecosystems: A Model for the Banc d’Arguin and the Mauritanian Shelf

Most modelling studies addressed the effectiveness of marine protected areas (MPA) for fisheries sustainability through single species approach. Only a few models analysed the potential benefits of MPAs at the ecosystem level, estimating the potential export of fish biomass from the reserve or analysing the trophic relationships between organisms inside and outside the MPA. Here, we propose to use food web models to assess the contribution of a MPA to the trophic functioning of a larger ecosystem. This approach is applied to the Banc d’Arguin National Park, a large MPA located on the Mauritanian shelf. The ecosystem was modeled using Ecopath with Ecosim, a model that accounts for fisheries, food web structure, and some aspects of the spatial distribution of species, for the period 1991–2006. Gaps in knowledge and uncertainty were taken into account by building three different models. Results showed that the Banc d’Arguin contributes about 9 to 13% to the total consumption, is supporting about 23% of the total production and 18% of the total catch of the Mauritanian shelf ecosystem, and up to 50% for coastal fish. Of the 29 exploited groups, 15 depend on the Banc for more than 30% of their direct or indirect consumptions. Between 1991 and 2006, the fishing pressure increased leading to a decrease in biomass and the catch of high trophic levels, confirming their overall overexploitation. Ecosim simulations showed that adding a new fleet in the Banc d’Arguin would have large impacts on the species with a high reliance on the Banc for food, resulting in a 23% decrease in the current outside MPA catches. We conclude on the usefulness of food web models to assess MPAs contribution to larger ecosystem functioning.     

Development of microsatellite markers in species of Erigeron (Asteraceae) endemic to the Juan Fernández Archipelago,Chile

• Premise of the study: Microsatellite markers were developed in Erigeron rupicola and tested by amplification in six Erigeron species endemic to the Juan Fernández Archipelago, Chile, to investigate genetic diversity and population structure. • Methods and Results: Using 454 pyrosequencing, 24 primer pairs were developed in E. rupicola, 12 of which amplified and presented polymorphism among endemic species of Erigeron in the Archipelago. Two populations from E. rupicola and E. fernandezianus were genotyped, and one to eight alleles per locus per population were detected. The expected heterozygosity ranged from 0.000 to 0.812. • Conclusions: These results indicate the utility of primers for cross-species populational studies in all endemic species of Erigeron in the Archipelago.