Sea otter studies in Glacier Bay National Park and Preserve

USGS Publications Warehouse

Bodkin, James L.; Kloecker, Kimberly A.; Esslinger, George G.; Monson, Daniel H.; DeGroot, J.D.; Doherty, J.

2002-01-01

Following translocations to the outer coast of Southeast Alaska in 1965, sea otters have been expanding their range and increasing in abundance. We began conducting surveys for sea otters in Cross Sound, Icy Strait, and Glacier Bay, Alaska in 1994, following initial reports (in 1993) of their presence in Glacier Bay. Since 1995, the number of sea otters in Glacier Bay proper has increased from around 5 to more than 1500. Between 1993 and 1997 sea otters were apparently only occasional visitors to Glacier Bay, but in 1998 long-term residence was established as indicated by the presence of adult females and their dependent pups. Sea otter distribution is limited to the Lower Bay, south of Sandy Cove, and is not continuous within that area. Concentrations occur in the vicinity of Sita Reef and Boulder Island and between Pt. Carolus and Rush Pt. on the west side of the Bay (Figure 1). We describe the diet of sea otters during 2001 in Glacier Bay based on visual observations of prey during 456 successful forage dives. In Glacier Bay, diet consisted of 62% clam, 15% mussel, 9% crab, 7% unidentified, 4& urchins, and 4% other. Most prey recovered by sea otters are commercially, socially, or ecologically important species. Species of clam include Saxidomus gigantea, Protothaca staminea, and Mya truncata. Urchins are primarily Strongylocentrotus droebachiensis and the mussel is Modiolus modiolus. Crabs include species of three genera: Cancer, Chinoecetes, and Telmessus. Although we characterize diet at broad geographic scales, we found diet to vary between sites separated by as little as several hundred meters. Dietary variation among and within sites can reflect differences in prey availability and individual specialization. We estimated species composition, density, biomass, and sizes of subtidal clams, urchins, and mussels at 9 sites in lower Glacier Bay. All sites were selected based on the presence of abundant clam siphons. Sites were not selected to allow inference to any area larger than the sampling area (approx 400 m^2). Sites were selected to achieve a broad geographic sample of dense subtidal clam beds within Glacier Bay prior to occupation and foraging by sea otters. There was no direct evidence of otter foraging at any of our clam sampling sites. We sampled 11,568 bivalves representing 14 speces of clam and 2 species of mussel. We sampled 4,981 urchins, all Strongylocentrotus droeobachiensis. Only four species of clam (littleneck clams, Protothaca staminea; butter clams, Saxidomus gigantea; soft-shell claims, Mya truncata; and Macoma sp.) accounted for 91.6% of all clams sampled. Mean total clam density (#/0.25 m^2) across the 9 sites was 62.3. Densities (and se ) of P. staminea averaged 22.6 (1.6) and ranged from 0 to 97. Densities of S. gigantea averaged 14.4 (1.0) and ranged from 0 to 63. Densities of Macoma sp. averaged 14.5 (1.2) and ranged from 0 to 78. Densities of S. droebachiensis averaged 27.3 (1.7) and ranged from 0 to 109. Mean S. droebachiensis sizes ranged from 16 to 30 mm by site. Mean P. staminea sizes ranged from 30 to 53 mm, mean S. gigantea sizes ranged from 51 to 85 mm, and mean Macoma sp. sizes ranged from 14 to 19 mm. Although not the most abundant clam, S. gigantea contributed the greatest proportion to total clam biomass (63%), followed by P. staminea (24%). Sea otters are now well established in limited areas of the lower portions of Glacier Bay. It is likely that distribution and numbers of sea otters will continue to increase in Glacier Bay in the near future. Glacier Bay supports large and diverse populations of clams that are largely unexploited by sea otters presently. It is predictable that the density and sizes of clam populations will decline in response to otter predation. This will result in fewer opportunities for human harvest, but will also trigger ecosystem level changes, as prey for other predators, such as octopus, sea stars, fishes, birds and mammals are modified. Sea ott

Laboratory investigations of the effects of predator sex and size on prey selection by the Asian crab, Hemigrapsus sanguineus.

PubMed

Brousseau, D J.; Filipowicz, A; Baglivo, J A.

2001-07-30

Laboratory studies have shown that the nonindigenous Asian shore crab, Hemigrapsus sanguineus, readily consumes three species of commercial bivalves: blue mussels, Mytilus edulis, soft-shell clams, Mya arenaria, and oysters, Crassostrea virginica. Although crabs can eat bivalves of a wide size range, they preferred the smaller prey (

Environmental Windows Associated with Dredging Operations

DTIC Science & Technology

1998-12-01

Unspecified species Mercenaria mercenaria MVR, LRL, MVS NAN Hard Clam Soft Shell Clam Mya arenaria NAE, NAB Surf Clam Spisula solidissima NAN Eastern...nearly 100 percent. This was followed closely by the North Atlantic and South Atlantic Divisions, with approximately 85 percent of all dredging projects... Atlantic Division (NAD) South Atlantic Division (SAD) Baltimore District (NAB) Charleston District (SAC) New England District (NAE) Jacksonville District

Soft shell clams Mya arenaria with disseminated neoplasia demonstrate reverse transcriptase activity

USGS Publications Warehouse

House, M.L.; Kim, C.H.; Reno, P.W.

1998-01-01

Disseminated neoplasia (DN), a proliferative cell disorder of the circulatory system of bivalves, was first reported in oysters in 1969. Since that time, the disease has been determined to be transmissible through water-borne exposure, but the etiological agent has not been unequivocally identified. In order to determine if a viral agent, possibly a retrovirus, could be the causative agent of DN, transmission experiments were performed, using both a cell-free filtrate and a sucrose gradient-purified preparation of a cell-free filtrate of DN positive materials. Additionally, a PCR-enhanced reverse transcriptase assay was used to determine if reverse transcriptase was present in tissues or hemolymph from DN positive soft shell clams Mya arenaria. DN was transmitted to healthy clams by injection with whole DN cells, but not with cell-free flitrates prepared from either tissues from DN positive clams, or DN cells. The cell-free preparations from DN-positive tissues and hemolymph having high levels of DN cells in circulation exhibited positive reactions in the PCR-enhanced reverse transcriptase assay. Cell-free preparations of hemolymph from clams having low levels of DN (<0.1% of cells abnormal), hemocytes from normal soft shell clams, and normal soft shell clam tissues did not produce a positive reaction in the PCR enhanced reverse transcriptase assay.

Maine belowground marsh destruction from the European green crab documented by computer-aided tomography

EPA Science Inventory

Invasive European green crab (Carcinus maenus) populations have exploded with devastating losses to Maine’s intertidal resources including soft-shell clams, eelgrass beds, and salt marshes. This project quantified the green crab abundance in three different marsh locations ...

Lack of detection of a putative retrovirus associated with haemic neoplasia in the soft shell clam Mya arenaria.

PubMed

AboElkhair, M; Iwamoto, T; Clark, K F; McKenna, P; Siah, A; Greenwood, S J; Berthe, F C J; Casey, J W; Cepica, A

2012-01-01

Haemic neoplasia (HN) is a leukemia-like disease that affects at least 20 species of marine bivalves including soft shell clam, Mya arenaria. Since the disease was discovered in 1969, the etiology remains unknown. A retroviral etiology has been suggested based on the detection of reverse transcriptase activity and electron microscopic observation of retroviral-like particles using negative staining. To date, however no virus isolate and no retroviral sequence from HN has been obtained. Moreover, transmission of the disease by cell-free filtrate from affected clams has not been reproduced. In the current study, we reinvestigated the association of HN with a putative retrovirus. Sucrose gradient centrifugation followed by assessment of reverse transcriptase activity, electrophoretic analysis of protein and RNA, and electron microscopic examinations of fractions corresponding to retroviral density were employed. Detection of retroviral pol sequences using degenerate RT-PCR approaches was also attempted. Our results showed visible bands at the expected density of retrovirus in HN-positive and HN-negative clam tissues and both with reverse transcriptase activity. Electron microscopy, RNA analysis, protein analysis, and PCR systems targeting the pol gene of retroviruses did not however provide clear evidence supporting presence of a retrovirus. We point out that the retrovirus etiology of HN of Mya arenaria proposed some 25 years ago should be reconsidered in the absence of a virus isolate or virus sequences. Copyright © 2011 Elsevier Inc. All rights reserved.

Intracellular pH Recovery Rates in Bivalve Hemocytes Following Exposure to Acidic Environmental Conditions

NASA Astrophysics Data System (ADS)

Croxton, A.; Wikfors, G. H.

2012-12-01

Predictions of ocean acidification effects upon carbonate shell-forming species have caused great concern for the future of shellfisheries. Nevertheless, bivalve species inhabiting an estuarine environment have evolved in these environments with fluctuating pH levels. Previous experimental studies conducted in our laboratory have demonstrated the ability of oyster hemocytes to maintain intracellular homeostasis under acidic external conditions. However, little information is known of this homeostatic mechanism in other molluscan shellfish species present in these same habitats. In the current study we propose to determine if other bivalve species of aquaculture interest also possess this intracellular regulation by applying an in vitro hemocyte pH-recovery assay, previously developed for oysters, on the northern quahog, Mercenaria mercenaria, the blue mussel, Mytilus edulis, and the softshell clam, Mya arenaria. Preliminary results from the determination of initial intracellular pH levels, the initial step in the rate recovery assay, indicated a pH range between 7.0-7.4. This range was comparable to initial values measured in oysters, and consistent with data reported in the current literature. The second step of the hemocyte pH-recovery assay involves exposing oyster hemocytes to acidic external conditions and measuring the ability of the hemocyte intracellular pH to maintain homeostasis (i.e. recovery rate). Results from the recovery rate process will be presented.

CHANGES IN THE MICROFLORA OF HADDOCK FILLETS AND SHUCKED SOFT-SHELLED CLAMS AFTER IRRADIATION WITH Co$sup 60$ GAMMA RAYS AND STORAGE TO 0 C AND 6 C

DOE Office of Scientific and Technical Information (OSTI.GOV)

Masurovsky, E.B.; Voss, J.S.; Goldblith, S.A.

1963-05-01

Microbiologic analyses were made on haddock fillets and shucked soft- shelled clams before and after treatment with doses of from 50000 to 800000 rad of Co/sup 60/ gamma rays. A decided change occurred in the constitution of the microbial populations of both products: from a mixed gram-negativegram-positive flora to a predominantly gram-positive flora immediately after irradiation. The majority of these surviving microorganisms were micrococci, spore-forming bacilli, yeasts, molds, and actinomyces. During storage at refrigeration temperatures above freezing, the microflora changed from the more radioresistant gram-positive species to the more prolific gram-negative psychrophilic species that flourish at low temperatures. Micrococci andmore » gram-positive rods declined somewhat during the rise of the actively proteolytic-lipolytic pseudomonads and related species, but still remained at high enough levels to contribute significantly to the spoilage observed at different times in storage. The eventual spoilage of haddock fillets was characterized by discoloration with water-soluble yellow, green, and red bacterial pigments; degradation of the tissue, by proteolytic and other microbial enzymes; and formation of volatile compounds that smelled putrid, rancid, and generally foul and pungent. Shucked soft-shelled clams displayed a different spoilage pattern, changing to a gelatinous mass with stale, acrid, putrid, sulfurous odor. These differences are attributable to the varied biochemical nature of the tissues involved, the Eh potential within the tissues, the time sequence of microfloral change, and the species and types of microorganisms associated with each product. Staphylococci were present in small numbers, but did not appear to be species of public health significance. Gram-negative enteric rods were also encountered, but were considered to be of doubtful public health importance. (BBB)« less

Changes in the Microflora of Haddock Fillets and Shucked Soft-Shelled Clams After Irradiation with Co60 Gamma Rays and Storage at 0 C and 6 C

PubMed Central

Masurovsky, E. B.; Voss, J. S.; Goldblith, S. A.

1963-01-01

Frequency distribution patterns of aerobic-facultative microflora, obtained by random selection of macrocolonies from samples of haddock fillets and shucked soft-shelled clams before and after treatment with doses of from 50,000 to 800,000 rad of Co60 gamma rays, are presented, with analyses and interpretation. The data showed that a decided change occurred in the constitution of the microbial populations of both products: from a mixed gram-negative—gram-positive flora to a predominantly gram-positive flora immediately after irradiation. The great majority of these surviving microorganisms were micrococci, sporeforming bacilli, and certain yeasts, molds, and actinomyces. During storage at refrigeration temperatures above freezing, the microflora changed from the descendants of the more radioresistant gram-positive species to the more prolific gram-negative psychrophilic species that flourish at these low temperatures. Micrococci and gram-positive rods declined somewhat during the rise of the actively proteolytic-lipolytic pseudomonads and related species, but still remained at high enough levels to contribute significantly to the spoilage observed at different times in storage. The eventual spoilage of haddock fillets was characterized by discoloration of the cream-white tissue with water-soluble yellow, green, and red bacterial pigments; degradation of the tissue, by proteolytic and other microbial enzymes, to a watery, flaccid mass; and formation of volatile compounds that smelled putrid, rancid, and generally foul and pungent. Shucked soft-shelled clams displayed a different spoilage pattern, changing to a variegated brown-gray and forming a matted or loose gelatinous mass from which arose stale, acrid, putrid, sulfurous odors. These differences are believed to be attributable to the varied biochemical nature of the tissues involved, the Eh potential within the tissues, the time sequence of microfloral change, and the species and types of microorganisms associated with each product. Staphylococci were present in small numbers in some of the samples tested, but did not appear to be species of public health significance. Gram-negative enteric rods were also encountered, but were considered to be of doubtful public health importance. More detailed investigations, designed to study the effects of Co60 gamma radiations on such microbes in sea foods, would be useful in assessing the problem further. PMID:13933509

Intracellular pH Recovery Rates of Hemocytes from Estuarine and Open Ocean Bivalve Species Following In vitro Acid Challenge

NASA Astrophysics Data System (ADS)

Croxton, A.; Wikfors, G.

2013-12-01

Decreasing pH in estuarine systems is a growing concern for researchers studying mollusk species. Debates continue on whether estuarine bivalve species are more or less vulnerable to ocean acidification than marine species because estuaries can present multiple environmental stressors. The aim of this study is to understand the homeostatic mechanisms of bivalve hemocytes following exposure to extracellular acid treatment. Previous measurements using fluorescent SNARF probes and flow-cytometry have determined the intracellular pH of hemocytes from several bivalve species (eastern oyster, bay scallop, northern quahog, soft-shell clam, and blue mussel) to range between 7.0-7.4. In the present study of four bivalve species, recovery rate profiles were determined for intracellular hemocyte pH following addition of acid to hemolymph in vitro. These profiles indicate that soft-shell clams and bay scallops maintained homeostasis with very little change in intracellular pH. In contrast, an initial drop in intracellular pH in northern quahogs was followed by a steady recovery of intracellular pH. Contrasting results between species appear to be unrelated to mineral shell composition (aragonite vs. calcite) or habitat location (infaunal vs. epifaunal). The next phase of this study will be to determine if offshore species (surfclams and sea scallops) will have similar responses. Results from these studies will provide a better understanding of the physiological responses of estuarine and marine species exposed to acidified environments.

Assessing Sediment Transport at Navy Facilities (User’s Guide)

DTIC Science & Technology

2007-09-01

Mytilus edulis), a soft shell clam (Mya arenaria), hairy sea cucumbers (Sclerodactyla briareus), lobsters (Homarus americanus), purple sea urchins ...Diego P. J. White CH2M HILL C. A. Jones Sea Engineering, Inc. Approved for public release; distribution is unlimited. SSC San Diego...Diego P. J. White CH2M HILL C. A. Jones Sea Engineering, Inc. Approved for public release; distribution is unlimited. SSC San Diego San

Eiders Somateria mollissima scavenging behind a lugworm boat

NASA Astrophysics Data System (ADS)

Leopold, Mardik F.

2002-02-01

The eider is one of the most important molluscivorous birds in the Wadden Sea, where it feeds mainly on blue mussels Mytilus edulis and edible cockles Cerastoderma edule. These prey species are within reach of the birds at all times. Other potential prey of suitable size that are abundantly present, such as several polychaete worms, or the clam Mya arenaria, are taken to a much lesser extent, possibly because they live buried in the sediment and digging them out would take too much effort. Mya may pose another problem because they grow to sizes that prevent eiders from swallowing them. Large Mya also live too deep down in the sediment, but young (small) specimens should be available to eiders. Yet, even these have only rarely been found as prey in eiders in the Wadden Sea. However, diet studies in relation to food abundance have been few, and may have missed prey that do not leave large shell fragments (i.e. in faeces studies). This paper describes observations on eiders taking both Mya and polychaete worms. The eiders fed on these prey in a fashion reminiscent of gulls that scavenge behind fishing vessels: some eiders have learnt to follow professional worm-digging boats that supply a bycatch of molluscs (mainly Mya arenaria) and polychaete worms (mainly Arenicola marina and Nephtys hombergii) .Mya and worms were also the main targets of the eiders that fed in a dense flock close to the boat's stern. Faeces found on the flats at low tide comprised mainly cockle shell fragments, a prey rarely taken by the eiders behind the boat. Faeces studies may thus give a highly biased impression of local eider diet.

Distribution and ecology of whistling swans in the Chesapeake Bay region

USGS Publications Warehouse

Stewart, R.E.; Manning, J.H.

1958-01-01

The Whistling Swan, Olor columbianus, is of particular significance in the Chesapeake Bay region, since major wintering and transient populations occur here regularly, constituting in some years more than half the total population of the species. Some of these concentrations are so large that they attract many bird-watchers, who often travel long distances to see them. Whistling Swans are also of concern to the local shell-fish gatherers, who claim that depredations by these birds cause considerable damage to the supply of commercially valuable long ("soft-shelled") clams. During recent years, there has been an increasing demand from some sources for an open hunting season. It has been suggested that the swan populations may be of sufficient numerical size, to withstand a limited harvest. Because of these considerations, a special effort was made to obtain more information concerning the local distribution, numerical status and ecology of Whistling Swans throughout the Chesapeake Bay region.

NW Black Sea ecosystems recovery from former severe seasonal hypoxia and effect on macrofauna

NASA Astrophysics Data System (ADS)

Gomoiu, Marian-Traian; Begun, Tatiana; Teaca, Adrian

2013-04-01

The benthos researches carried out in the last decade on the NW Black Sea shelf established the transitional process of the bottom communities, from the severe disturbed state resulted from seasonal hypoxia of high eutrophication from 1970-2000 period towards a new state. The authors, with their expertise achieved in the framework of several national and EU FP6&7 projects (SESAME, HYPOX, PERSEUS), analyzing more than 600 quantitative samples, consider the benthic associations influenced mainly by the Danube River discharge being characterized as follows: • decrease in the specific diversity (e.g. Mollusca - from 170 species in the 1960s - 1970s to 70 species in the present in NW Black Sea); • loss or diminishing of some habitat areas (typical habitat with Zostera, Phyllophora, Cystoseira, Barnea, Donacilla etc.); • increase in the numeric abundance and biomass of some specific benthic populations (Melinna, Alitta, Dipolydora etc.); • loss or reduction of some specific populations (Abra prismatica, Spisula subtruncata, Chamelia gallina etc.); • replacement of some strong and quite large benthic populations by metapopulation of small extension; • diminution of the biofilter strength by reduction of the filter - feeder populations; • qualitative and quantitative worsening of benthic biological resources, especially molluscs - forms playing an important ecological part and with great economic importance (mussel Mytilus galloprovincialis, soft-shell clam Mya arenaria, veined rapa whelk Rapana venosa); • thriving of opportunistic forms (especially worms populations causing sediment bioturbation - Melinna palmata, Heteromastus filiformis) and, temporarily, some exotic species recently pervading Black Sea (Mya, Anadara, Rapana etc.); • great quantitative fluctuations of all benthic populations; • occurrence of some weak sing of ecosystem recovery. However, recovery of the benthic ecosystem appears to be less certain although an improvement on regeneration of macrophytobenthos and macrozoobenthos is suggested by the available data. The process of recovery of the Black Sea will take a long time and will require the implementation of all measures envisaged by the Black Sea Strategic Action Plan as well as some future provisions. The process will be further complicated by the fact that scientific knowledge and information on many processes and phenomena, which are needed for policy and decision making, are missing. The opinion of authors concerning the future conservation of the Black Sea biodiversity in the context of climate change and the actual state of socio-economic system of the Black Sea Region (environment-related science and policy) is that to have in mind the following key aspects: • facts are uncertain (lack of knowledge of the impacts of some mitigation and adaptation measures on biodiversity as a whole and some habitats or taxa in particular and the transfer of "best practices" should be undertaken with caution in order to ensure their applicability to a new situation); • natural and economic values in dispute, • stakes high and decisions urgent. Keywords: Black Sea, benthos, ecological state.

Biota: sediment partitioning of aluminium smelter related PAHs and pulp mill related diterpenes by intertidal clams at Kitimat, British Columbia.

PubMed

Yunker, Mark B; Lachmuth, Cara L; Cretney, Walter J; Fowler, Brian R; Dangerfield, Neil; White, Linda; Ross, Peter S

2011-09-01

The question of polycyclic aromatic hydrocarbon (PAH) bioavailability and its relationship to specific PAH sources with different PAH binding characteristics is an important one, because bioavailability drives PAH accumulation in biota and ultimately the biochemical responses to the PAH contaminants. The industrial harbour at Kitimat (British Columbia, Canada) provides an ideal location to study the bioavailability and bioaccumulation of sediment hydrocarbons to low trophic level biota. Samples of soft shell clams (Mya arenaria) and intertidal sediment collected from multiple sites over six years at various distances from an aluminium smelter and a pulp and paper mill were analysed for 106 PAHs, plant diterpenes and other aromatic fraction hydrocarbons. Interpretation using PAH source ratios and multivariate data analysis reveals six principal hydrocarbon sources: PAHs in coke, pitch and emissions from anode combustion from the aluminium smelter, vascular plant terpenes and aromatised terpenes from the pulp and paper mill, petroleum PAHs from shipping and other anthropogenic activities and PAHs from natural plant detritus. Harbour sediments predominantly contain either pitch or pyrogenic PAHs from the smelter, while clams predominantly contain plant derived PAHs and diterpenes from the adjacent pulp mill. PAHs from the smelter have low bioavailability to clams (Biota-Sediment Accumulation Factors; BSAFs <1 for pitch and coke; <10 for anode combustion, decreasing to ∼0.1 for the mass 300 and 302 PAHs), possibly due to binding to pitch or soot carbon matrices. Decreases in PAH isomer ratios between sediments and clams likely reflect a combination of variation in uptake kinetics of petroleum PAHs and compound specific metabolism, with the importance of petroleum PAHs decreasing with increasing molecular weight. Plant derived compounds exhibit little natural bioaccumulation at reference sites, but unsaturated and aromatised diterpenes released from resins by industrial pulping processes are readily accumulated by the clams (BSAFs >500). Thus while most of the smelter associated PAHs in sediments may not be bioavailable to benthic organisms, the plant terpenes (including retene, totarol, ferruginol, manool, dehydroabietane and other plant terpenes that form the chemical defence mechanism of conifers) released by pulp mills are bioavailable and possess demonstrated toxic properties. The large scale release of plant terpenes by some of the many pulp mills located in British Columbia and elsewhere represents a largely undocumented risk to aquatic biota. Copyright © 2011 Elsevier Ltd. All rights reserved.

Vibrio cholerae Colonization of Soft-Shelled Turtles

PubMed Central

Wang, Jiazheng; Yan, Meiying; Gao, He; Lu, Xin

2017-01-01

ABSTRACT Vibrio cholerae is an important human pathogen and environmental microflora species that can both propagate in the human intestine and proliferate in zooplankton and aquatic organisms. Cholera is transmitted through food and water. In recent years, outbreaks caused by V. cholerae-contaminated soft-shelled turtles, contaminated mainly with toxigenic serogroup O139, have been frequently reported, posing a new foodborne disease public health problem. In this study, the colonization by toxigenic V. cholerae on the body surfaces and intestines of soft-shelled turtles was explored. Preferred colonization sites on the turtle body surfaces, mainly the carapace and calipash of the dorsal side, were observed for the O139 and O1 strains. Intestinal colonization was also found. The colonization factors of V. cholerae played different roles in the colonization of the soft-shelled turtle's body surface and intestine. Mannose-sensitive hemagglutinin (MSHA) of V. cholerae was necessary for body surface colonization, but no roles were found for toxin-coregulated pili (TCP) or N-acetylglucosamine-binding protein A (GBPA). Both TCP and GBPA play important roles for colonization in the intestine, whereas the deletion of MSHA revealed only a minor colonization-promoting role for this factor. Our study demonstrated that V. cholerae can colonize the surfaces and the intestines of soft-shelled turtles and indicated that the soft-shelled turtles played a role in the transmission of cholera. In addition, this study showed that the soft-shelled turtle has potential value as an animal model in studies of the colonization and environmental adaption mechanisms of V. cholerae in aquatic organisms. IMPORTANCE Cholera is transmitted through water and food. Soft-shelled turtles contaminated with Vibrio cholerae (commonly the serogroup O139 strains) have caused many foodborne infections and outbreaks in recent years, and they have become a foodborne disease problem. Except for epidemiological investigations, no experimental studies have demonstrated the colonization by V. cholerae on soft-shelled turtles. The present studies will benefit our understanding of the interaction between V. cholerae and the soft-shelled turtle. We demonstrated the colonization by V. cholerae on the soft-shelled turtle's body surface and in the intestine and revealed the different roles of major V. cholerae factors for colonization on the body surface and in the intestine. Our work provides experimental evidence for the role of soft-shelled turtles in cholera transmission. In addition, this study also shows the possibility for the soft-shelled turtle to serve as a new animal model for studying the interaction between V. cholerae and aquatic hosts. PMID:28600312

Vibrio cholerae Colonization of Soft-Shelled Turtles.

PubMed

Wang, Jiazheng; Yan, Meiying; Gao, He; Lu, Xin; Kan, Biao

2017-07-15

Vibrio cholerae is an important human pathogen and environmental microflora species that can both propagate in the human intestine and proliferate in zooplankton and aquatic organisms. Cholera is transmitted through food and water. In recent years, outbreaks caused by V. cholerae -contaminated soft-shelled turtles, contaminated mainly with toxigenic serogroup O139, have been frequently reported, posing a new foodborne disease public health problem. In this study, the colonization by toxigenic V. cholerae on the body surfaces and intestines of soft-shelled turtles was explored. Preferred colonization sites on the turtle body surfaces, mainly the carapace and calipash of the dorsal side, were observed for the O139 and O1 strains. Intestinal colonization was also found. The colonization factors of V. cholerae played different roles in the colonization of the soft-shelled turtle's body surface and intestine. Mannose-sensitive hemagglutinin (MSHA) of V. cholerae was necessary for body surface colonization, but no roles were found for toxin-coregulated pili (TCP) or N -acetylglucosamine-binding protein A (GBPA). Both TCP and GBPA play important roles for colonization in the intestine, whereas the deletion of MSHA revealed only a minor colonization-promoting role for this factor. Our study demonstrated that V. cholerae can colonize the surfaces and the intestines of soft-shelled turtles and indicated that the soft-shelled turtles played a role in the transmission of cholera. In addition, this study showed that the soft-shelled turtle has potential value as an animal model in studies of the colonization and environmental adaption mechanisms of V. cholerae in aquatic organisms. IMPORTANCE Cholera is transmitted through water and food. Soft-shelled turtles contaminated with Vibrio cholerae (commonly the serogroup O139 strains) have caused many foodborne infections and outbreaks in recent years, and they have become a foodborne disease problem. Except for epidemiological investigations, no experimental studies have demonstrated the colonization by V. cholerae on soft-shelled turtles. The present studies will benefit our understanding of the interaction between V. cholerae and the soft-shelled turtle. We demonstrated the colonization by V. cholerae on the soft-shelled turtle's body surface and in the intestine and revealed the different roles of major V. cholerae factors for colonization on the body surface and in the intestine. Our work provides experimental evidence for the role of soft-shelled turtles in cholera transmission. In addition, this study also shows the possibility for the soft-shelled turtle to serve as a new animal model for studying the interaction between V. cholerae and aquatic hosts. Copyright © 2017 American Society for Microbiology.

Spatial and overwinter changes in clam populations of San Pablo Bay, a semiarid estuary with highly variable freshwater inflow

USGS Publications Warehouse

Poulton, V.K.; Lovvorn, J.R.; Takekawa, John Y.

2004-01-01

In many estuaries worldwide, climate trends together with human diversion of fresh water have dramatically impacted the benthos. Such impacts have sometimes been complicated by exotic species, whose invasion and persistence can be mediated by wide variations in freshwater inflow. Monitoring such changes usually involves periodic samples at a few sites; but sampling that does not recognize variation at a range of spatial and seasonal scales may not reveal important benthic trends. San Pablo Bay, in northern San Francisco Bay, has extreme fluctuations in freshwater inflow. This bay also experienced a major benthic change with introduction of the Asian clam (Potamocorbula amurensis) in 1986. This species initially displaced the former community, but later appeared to vary in abundance depending on site and freshwater inflow. To investigate such patterns and provide guidelines for research and monitoring, we took 1746 core samples at six sites around San Pablo Bay from 19 October to 17 December 1999 and from 6 March to 19 April 2000. Most biomass consisted of the clams P. amurensis,Macoma balthica and Mya arenaria. Potamocorbula amurensis dominated the benthos at most sites in the fall and recruited a new cohort during winter, while there was weak recruitment in M. balthica and none in M. arenaria. At most but not all sites, densities of P. amurensis and M. arenaria declined dramatically over winter while M. balthica declined only slightly. The dominant clams had patch diameters >5 m at most but not all sites, and some showed inconsistent patch structure at scales of 100–1400 m. In this semiarid estuary with highly variable freshwater inflow, samples for research and monitoring should include multiple sites and seasons, and samples within sites should be ≥5 m apart to account for between-patch variation. Species abundance in winter 1999–2000 appeared to be affected by high freshwater inflows in 1997–1999, while spatial patterns were probably most affected by post-settlement dispersal and mortality.

Comparative kinematics of the forelimb during swimming in red-eared slider (Trachemys scripta) and spiny softshell (Apalone spinifera) turtles.

PubMed

Pace, C M; Blob, R W; Westneat, M W

2001-10-01

Softshell turtles (Family Trionychidae) possess extensive webbing between the digits of the manus, suggesting that the forelimb may serve as an effective thrust generator during aquatic locomotion. However, the hindlimb has previously been viewed as the dominant propulsive organ in swimming freshwater turtles. To evaluate the potential role of the forelimb in thrust production during swimming in freshwater turtles, we compared the forelimb morphology and three-dimensional forelimb kinematics of a highly aquatic trionychid turtle, the spiny softshell Apalone spinifera, and a morphologically generalized emydid turtle, the red-eared slider Trachemys scripta. Spiny softshells possess nearly twice as much forelimb surface area as sliders for generating drag-based thrust. In addition, although both species use drag-based propulsion, several aspects of forelimb kinematics differ significantly between these species. During the thrust phase of the forelimb cycle, spiny softshells hold the elbow and wrist joints significantly straighter than sliders, thereby further increasing the surface area of the limb that can move water posteriorly and increasing the velocity of the distal portion of the forelimb. These aspects of swimming kinematics in softshells should increase forelimb thrust production and suggest that the forelimbs make more substantial contributions to forward thrust in softshell turtles than in sliders. Spiny softshells also restrict forelimb movements to a much narrower dorsoventral and anteroposterior range than sliders throughout the stroke, thereby helping to minimize limb movements potentially extraneous to forward thrust production. These comparisons demonstrate considerable diversity in the forelimb kinematics of turtles that swim using rowing motions of the limbs and suggest that the evolution of turtle forelimb mechanics produced a variety of contrasting solutions for aquatic specialization.

Sea otter studies in Glacier Bay National Park and Preserve: Aerial surveys, foraging observations, and intertidal clam sampling

USGS Publications Warehouse

Bodkin, James L.; Kloecker, Kimberly A.; Esslinger, George G.; Monson, Daniel H.; DeGroot, J.D.

2001-01-01

Following translocations to the outer coast of Southeast Alaska in 1965, sea otters have been expanding their range and increasing in abundance. We began conducting surveys for sea otters in Cross Sound, Icy Strait and Glacier Bay, Alaska in 1994, following initial reports of their presence in Glacier Bay in 1993. Since 1995, the number of sea otters in Glacier Bay proper has increased from about 5 to more than 500. Between 1993 and 1997 sea otters were apparently only occasional visitors to Glacier Bay, but in 1998 long-term residence was established as indicated by the presence of adult females and their dependent pups. Sea otter distribution is limited to the Lower Bay, south of Sandy Cove, and is not continuous within that area. Concentration occur in the vicinity of Sita Reef and Boulder Island and between Pt. Carolus and Rush Pt. on the west side of the Bay (Figure 1). We describe the diet of sea otters in Glacier Bay and south Icy Strait through visual observations of prey during >4,000 successful forage dives. In 2,399 successful foraging dives observed in Glacier Bay proper, diet consisted of 40% clam, 21% urchins, 18% mussel, 4% crab, 5% other and 12% unidentified. Most prey recovered by sea otters are commercially, socially, or ecological important species. Species of clam are primarily Saxidomus gigantea, Protothaca staminea, and Serripes groenlandicus. Urchins are primarily Strongylocentrotus droebachiensis while both mussles, Modiolus modiolus and Mytilus trossulus, are taken. Crabs include species of Cancer, Chinoecetes, Paralithodes, and Telmessus. Although we characterize diet at broad geographic scales, we found diet to vary between sites separated by as little as several hundred meters. Dietary variation among and within sites can reflect differences in prey availability and individual choice.We estimated species composition, density, biomass, and sizes of intertidal clams at 59 sites in Glacier Bay, 14 sites in Idaho Inlet, 12 sites in Port Althorp and 2 sites in Dundas Bay. There is no direct evidence of otter foraging at any of our clam sampling sites except at Port Althorp where sea otters have been present for >20 years and regularly forage intertidally. There is some indication of intertidal foraging in Idaho Inlet, based on reduced mean size of preferred clam species. Sea otters have been present in Idaho Inlet for at least 12 years. We sampled 48 systematically selected sites to allow inference throughout Glacier Bay intertidal areas and 12 preferred habitat intertidal sites to estimate maximum clam densities in the Bay. We also sampled 14 and 12 random sites in Idaho Inlet and Port Althorp, respectively, to provide contrast between sites with and without sea otters. Densities and biomass of intertidal clams were greater in the Lower Bay than either the East or West Arms. Mean densities (#/0.25m2) of all species of clams > 10.0 mm total length were 96.5 at preferred sites, 32.8 in the Lower Bay, 12.2 in the East Arm, 6.6 in the West Arm, 11.32 at Port Althorp and 27.1 at Idaho Inlet. Clam densities were lower in the Upper Arms of Glacier Bay, compared to the Lower Bay and were similar to densities at Port Althorp. In the Lower Bay, clam densities were nearly twice as high at preferred clam sites compared to those systematically sampled. Species of Macoma were the numerically dominant intertidal clam at most sites in Glacier Bay, while Protothaca staminea was dominant at Idaho Inlet and Port Althorp. Biomas (g/0.25m2) was higher in the Lower Bay (23.5) than either Arm (2.1 and .91) and higher at preferred sites (73.4) than systematically selected sites in Glacier Bay. Biomass estimates at Port Althorp were 5.2 and 9.7 at Idaho Inlet. Biomass estimates were dominated by species of Saxidomus, Protothaca and Mya in Glacier Bay and by Protothaca and Saxidomus at Idaho Inlet and Port Althrop. We suspect differences in density and biomass relate to habitat differences between areas within Glacier Bay

Long-term effects of mechanical harvesting of lugworms Arenicola marina on the zoobenthic community of a tidal flat in the Wadden Sea

NASA Astrophysics Data System (ADS)

Beukema, J. J.

More than half of the annual catch of about 30 million lugworms Arenicola marina from the Dutch Wadden Sea originates from digging machines which make 40-cm deep guilles in a few restricted tidal-flat areas (Texel, Balgzand) in the westernmost part of the Wadden Sea. Four successive years (1978-1982) of frequent disturbance by a lugworm dredge of one of the 15 sampling stations involved in a long-term study of the dynamics of the macrozoobenthos on Balgzand allowed a study of long-term effects of mechanical lugworm digging. Within an area of about 1 km 2, a near-doubling of the annual lugworm mortality rate resulted in a gradual and substantial decline of the local lugworm stock from more than twice the overall Balgzand mean at the start of the 4-year digging period to a value close to this mean at the end of the period (when the dredge moved to a richer area). Simultaneously, total zoobenthic biomass declined even more by the almost complete extinction of the population of larger gaper clams Mya arenaria that initially comprised half of the total biomass. Of the other, mostly short-lived, species only Heteromastus filiformis showed a clear reduction during the dredging period. Recovery of the biomass of the benthos took several years, particularly by the slow re-establishment of a Mya population with a normal size and age structure.

Sea otter studies in Glacier Bay National Park and Preserve: annual report 2002

USGS Publications Warehouse

Bodkin, James L.; Kloecker, Kimberly A.; Esslinger, George G.; Monson, Daniel H.; Coletti, Heather A.; Doherty, Janet

2003-01-01

Since 1995, the number of sea otters in Glacier Bay proper has increased from around 5 to more than 1200. Sea otter distribution is mostly limited to the Lower Bay, south of Sandy Cove, and is not continuous within that area. Concentrations occur in the vicinity of Sita Reef and Boulder Island and between Pt. Carolus and Rush Pt. on the west side of the Bay, although there have been occasional sightings north of Sandy Cove (Figure 1). Large portions of the Bay remain unoccupied by sea otters, but recolonization is occurring rapidly. Most prey recovered by sea otters in Glacier Bay are ecologically, commercially, or socially important species. In 2002 sea otter diet consisted of 35% clam, 26% mussel, 3% crab, 3.0% snail, 2% starfish, 11% urchins, 2% other, and 20% unidentified. Dominant clam species include the butter clam, Saxidomus gigantea, the Greenland cockle, Serripes groenlandicus, and the littleneck clam, Protothaca staminea. Urchins are primarily green urchins, Strongylocentrotus droebachiensis, and the mussel is Modiolus modiolus. Crabs observed in 2002 include the Dungeness, Cancer magister, the kelp crab Pugettia gracilis, and the helmet crab, Telmessus cherigonus. Although we characterize diet at broad geographic scales, we have previously found diet to vary between sites separated by as little as several hundred meters. Dietary variation among and within sites can reflect differences in prey availability as well as individual specialization. We estimated species composition, density, biomass, and sizes of subtidal clams, urchins, and mussels at 13 sites in Glacier Bay and 5 sites in nearby Port Althorp, where sea otters have been present for at least 20 years. All sites were selected based on the presence of abundant clam siphons and the absence of sea otters (Glacier Bay) or abundant shell litter and the presence of sea otters (Port Althorp). Glacier Bay sites were selected to achieve a broad geographic sample of dense subtidal clam beds within Glacier Bay prior to occupation and foraging by sea otters. Port Althorp sites were chosen to achieve a representative sample of subtidal clam beds already under prolonged foraging pressure by sea otters. There was no direct evidence of otter foraging at any of our Glacier Bay sampling sites. In Glacier Bay, we sampled 15,338 bivalves (average of 1,180/site) representing 14 species of clam, 2 species of mussel, and a single scallop and we sampled 6,917 urchins (average of 513/site). In Port Althorp, we sampled 1,034 bivalves (average of 207/site) representing 14 species of clam. We found only 5 urchins, all S. droebachiensis. Mean densities and biomass of all subtidal clams were significantly greater in Glacier Bay (59.2 and 99/0.25m2 compared to Port Althorp (10.3 and 5.8/0.25m2 (p Our contrasts of subtidal clam populations between Glacier Bay and Port Althorp suggest that clam densities will likely decline by about a factor of six and that clam biomass estimates will decline by more than a factor of ten. Numerically dominant species of clams, P. staminea, S. gigantea, Macoma sp. and Mya sp. were all significantly greater in density and biomass in Glacier Bay, while C. nutalli density was low but significantly higher in Port Althorp. Subtidal clam species diversity was significantly greater in Port Althorp compared to Glacier Bay, although this may simply reflect habitat differences. Sea urchin densities were high in Glacier Bay, while in Port Althorp urchins were virtually absent. Sea otters are now well established in limited areas of the lower portions of Glacier Bay. It is likely that distribution and numbers of sea otters will continue to increase in Glacier Bay in the near future. Glacier Bay supports large and diverse populations of clams that are largely unexploited by sea otters at present. It is predictable that the density and sizes of clam populations will decline in response to otter predation. This will result in fewer opportunities for human harvest, but will also trigger ecosystem level changes, as prey for other predators, such as octopus, sea stars, fishes, birds and mammals are modified. Sea otters will also modify benthic habitats through excavation of sediments required to extract burrowing infauna such as clams. Effects of sediment disturbance by foraging sea otters are not understood. Glacier Bay also supports large populations of other preferred sea otter prey, such as king (Paralithodes sp.), tanner (Chionoecetes sp.) and dungeness (Cancer magister) crabs and green sea urchins (S. droebachiensis). As the colonization of Park waters by sea otters continues, it is also likely that dramatic changes will occur in the species composition, abundance, and size class distribution of many components of the nearshore marine ecosystem. Many of the changes will occur as a direct result of predation by sea otters. Others will result from indirect or cascading effects of sea otter foraging, such as increased kelp production and modified prey availability for other nearshore predators. Without recognizing and quantifying the extent of change initiated by the colonization of Glacier Bay by sea otters, management of nearshore resources will be severely constrained for many decades.

ESTIMATING THE DISTRIBUTION OF HARVESTED ...

EPA Pesticide Factsheets

Habitat suitability models are used to forecast how environmental change may affect the abundance or distribution of species of interest. The development of habitat suitability models may be used to estimate the vulnerability of this valued ecosystem good to natural or anthropogenic stressors. Using natural history information, rule-based habitat suitability models were constructed in a GIS for two recreationally harvested bivalve species (cockles Clinocardium nuttallii; softshells Mya arenaria) common to NE Pacific estuaries (N. California to British Columbia). Tolerance limits of each species were evaluated with respect to four parameters that are easy to sample: salinity, depth, sediment grain size, and the presence of bioturbating burrowing shrimp and were determined through literature review. Spatially-explicit habitat maps were produced for Yaquina and Tillamook estuaries (Oregon) using environmental data from multiple studies ranging from 1960 to 2012. Suitability of a given location was ranked on a scale of 1-4 (lowest to highest) depending on the number of variables that fell within a bivalve’s tolerance limits. The models were tested by comparison of the distribution of each suitability class to the observed distribution of bivalves reported in benthic community studies (1996-2012). Results showed that the areas of highest habitat suitability (value=4) within our model contained the greatest proportion of bivalve observations and highest popula

Immunocompetence of bivalve hemocytes as evaluated by a miniaturized phagocytosis assay.

PubMed

Blaise, C; Trottier, S; Gagné, F; Lallement, C; Hansen, P-D

2002-01-01

Immune function in bivalves can be adversely affected by long-term exposure to environmental contaminants. Investigating alterations in immunity can therefore yield relevant information about the relationship between exposure to environmental contaminants and susceptibility to infectious diseases. We have developed a rapid, cost-effective, and miniaturized immunocompetence assay to evaluate the phagocytic activity, viability, and concentration of hemocytes in freshwater and marine bivalves. Preliminary experiments were performed to optimize various aspects of the assay including 1) the time required for adherence of hemocytes to polystyrene microplate wells, 2) the time required for internalization of fluorescent bacteria, 3) the ratio of hemocytes to fluorescent bacteria in relation to phagocytosis, 4) hemolymph plasma requirements, and 5) the elimination of fluorescence from (noninternalized) bacteria adhering to the external surface of hemocytes. The results of these experiments showed the optimal adherence time for hemocytes in microplate wells to be 1 h, that phagocytosis required at least 2 h of contact with fluorescently labeled E. coli cells, that the number of fluorescent E. coli cells had a positive effect on phagocytic activity, that at least 2.5 million cells/mL were required to measure a significant intake, and that a linear increase in uptake of bacteria (R = 0.91; p < 0.01) could be obtained with concentrations of up to 1.3 x 10(6) hemocytes/mL. Afterward, the assay was used in two field studies to identify sites having the potential to affect the immunocompetence of bivalves. The first study was conducted on Mya arenaria clams collected at selected contaminated sites in the Saguenay River (Quebec, Canada), and the second examined Elliptio complanata freshwater bivalves that had been exposed to a municipal effluent plume in the St. Lawrence River (Quebec, Canada). In the Saguenay River field study a significant increase in phagocytosis was observed at sites closest to polluted areas. Phagocytotic activity varied over time and was highest during the warmest months (June, July, and August), closely paralleling the spawning period of Mya arenaria clams. In contrast, a drop in phagocytic activity was observed in Elliptio complanata mussels exposed to surface water 4 km downstream of a major municipal effluent plume, with a concomitant increase in the number of hemocytes in the hemolymph. It appears that both immunosuppressive and immunostimulative effects are likely to occur in the field and that responses will be influenced by the type and intensity of contaminants at play. Copyright 2002 Wiley Periodicals, Inc.

Gene flow between Atlantic and Pacific Ocean basins in three lineages of deep-sea clams (Bivalvia: Vesicomyidae: Pliocardiinae) and subsequent limited gene flow within the Atlantic

NASA Astrophysics Data System (ADS)

LaBella, Abigail Leavitt; Van Dover, Cindy L.; Jollivet, Didier; Cunningham, Clifford W.

2017-03-01

Pliocardiin (vesicomyid) clams rely on microbial symbionts for nutrition and are obligate inhabitants of deep-sea chemosynthetic ecosystems. Unlike many other invertebrate hosts of chemosynthetic microbes, pliocardiin clams are found in every ocean in a variety of reducing habitats, including hydrothermal vents, cold seeps, organic falls and deep-sea fans. The global distribution of pliocardiin clams suggests historical gene flow between ocean basins. We focus on 3 pliocardiin genera-'Pliocardia' I, Calyptogena and Abyssogena-each of which has a pair of sister clades in the Atlantic and Pacific. Our work tests the hypothesis that historical gene flow between the Atlantic and Pacific Oceans within these genera was interrupted by the closure of the Panamanian seaway and tests whether isolation between the ocean basins is the result of vicariance or past colonization. These questions are investigated in the context of fossil evidence, biogeography and phylogenetics. This study revealed a set of substitution rates consistent with other invertebrate studies (μ=0.8%/My/lineage), and a set consistent with much lower rates often attributed to deep-sea organisms (μ=0.3%/My/lineage). Among the Pacific/Atlantic sister pairs, 'Pliocardia' I COI divergence per lineage is intermediate (2.5%), Calyptogena is the highest (6.1%) and Abyssogena the lowest (0.8%). The substitution rates suggest that 'Pliocardia' I and Calyptogena have histories of at least 2.8 My in the Atlantic, with Calyptogena likely older. The slower rate, however, is inconsistent with both the maximum age of the family and several well studied fossils: leaving the faster rate preferred. With the faster rate, the Abyssogena southwardae clade diverged from its Pacific sister clade around 1 Mya, which likely post-dates the closure of the Isthmus of Panama and the opening of the Bering Strait. In light of this recent divergence, we test the previously proposed hypothesis that there is a high level of ongoing gene flow between Atlantic populations of A. southwardae. A. southwardae has colonized a broad geographic range of seep sites including the West Florida Escarpment, the Barbados Accretionary Prism, the Lobes of Congo, and the Mid-Atlantic Ridge north and south of the Romanche Transform Fault. Coalescent methods detect gene flow between Barbados and the Mid-Atlantic ridge; and between the West Florida Escarpment and the Lobes of Congo. All other comparisons failed to detect gene flow, contrary to prevailing interpretations of connectivity across the entire Atlantic Basin.

Phylogenetic relationships and divergence dates of softshell turtles (Testudines: Trionychidae) inferred from complete mitochondrial genomes.

PubMed

Li, H; Liu, J; Xiong, L; Zhang, H; Zhou, H; Yin, H; Jing, W; Li, J; Shi, Q; Wang, Y; Liu, J; Nie, L

2017-05-01

The softshell turtles (Trionychidae) are one of the most widely distributed reptile groups in the world, and fossils have been found on all continents except Antarctica. The phylogenetic relationships among members of this group have been previously studied; however, disagreements regarding its taxonomy, its phylogeography and divergence times are still poorly understood as well. Here, we present a comprehensive mitogenomic study of softshell turtles. We sequenced the complete mitochondrial genomes of 10 softshell turtles, in addition to the GenBank sequence of Dogania subplana, Lissemys punctata, Trionyx triunguis, which cover all extant genera within Trionychidae except for Cyclanorbis and Cycloderma. These data were combined with other mitogenomes of turtles for phylogenetic analyses. Divergence time calibration and ancestral reconstruction were calculated using BEAST and RASP software, respectively. Our phylogenetic analyses indicate that Trionychidae is the sister taxon of Carettochelyidae, and support the monophyly of Trionychinae and Cyclanorbinae, which is consistent with morphological data and molecular analysis. Our phylogenetic analyses have established a sister taxon relationship between the Asian Rafetus and the Asian Palea + Pelodiscus + Dogania + Nilssonia + Amyda, whereas a previous study grouped the Asian Rafetus with the American Apalone. The results of divergence time estimates and area ancestral reconstruction show that extant Trionychidae originated in Asia at around 108 million years ago (MA), and radiations mainly occurred during two warm periods, namely Late Cretaceous-Early Eocene and Oligocene. By combining the estimated divergence time and the reconstructed ancestral area of softshell turtles, we determined that the dispersal of softshell turtles out of Asia may have taken three routes. Furthermore, the times of dispersal seem to be in agreement with the time of the India-Asia collision and opening of the Bering Strait, which provide evidence for the accuracy of our estimation of divergence time. Overall, the mitogenomes of this group were used to explore the origin and dispersal route of Trionychidae and have provided new insights on the evolution of this group. © 2017 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2017 European Society For Evolutionary Biology.

Acute cold stress improved the transcription of pro-inflammatory cytokines of Chinese soft-shelled turtle against Aeromonas hydrophila.

PubMed

Zhang, Zuobing; Chen, Bojian; Yuan, Lin; Niu, Cuijuan

2015-03-01

Chinese soft-shelled turtle, Pelodiscus sinensis, is widely cultured in East and Southeast Asian countries. It frequently encounters the stress of abrupt temperature changes, which leads to mass death in most cases. However, the mechanism underlying the stress-elicited death remains unknown. We have suspected that the stress impaired the immune function of Chinese soft-shelled turtle, which could result in the mass death, as we noticed that there was a clinical syndrome of infection in dead turtles. To test our hypothesis, we first performed bioinformatic annotation of several pro-inflammatory molecules (IL-1β, TNFα, IL-6, IL-12β) of Chinese soft-shelled turtle. Then, we treated the turtles in six groups, injected with Aeromonas hydrophila before acute cold stress (25 °C) and controls, after acute cold stress (15 °C) and controls as well as after the temperature was restored to 25 °C and controls, respectively. Subsequently, real-time PCR for several pro-inflammatory cytokines (IL-1β, TNFα, IL-6, IL-12β, IL-8 and IFNγ) was performed to assess the turtle immune function in spleen and intestine, 24 hours after the injection. We found that the mRNA expression levels of the immune molecules were all enhanced after acute cold stress. This change disappeared when the temperature was restored back to 25 °C. Our results suggest that abrupt temperature drop did not suppress the immune function of Chinese soft-shelled turtle in response to germ challenge after abrupt temperature drop. In contrast, it may even increase the expression of various cytokines at least, within a short time after acute cold stress. Copyright © 2014 Elsevier Ltd. All rights reserved.

Decline of red-eared sliders (Trachemys scripta elegans) and Texas spiny softshells (Apalone spinifera emoryi) in the Lower Rio Grande Valley of Texas

Treesearch

Donald J. Brown; Amanda D. Schultz; James R. Dixon; Brian E. Dickerson; Michael R. J. Forstner

2012-01-01

In 2009, we repeated a freshwater turtle survey first conducted in 1976 in the Lower Rio Grande Valley (LRGV) of Texas to determine whether the abundance of freshwater turtles in the LRGV has changed over the past three decades. We captured significantly fewer red-eared sliders (Trachemys scripta elegans) and Texas spiny softshells (Apalone spinifera emoryi) in 2...

Estimation of divergence times in litostomatean ciliates (Ciliophora: Intramacronucleata), using Bayesian relaxed clock and 18S rRNA gene.

PubMed

Vďačný, Peter

2015-08-01

The class Litostomatea comprises a diverse assemblage of free-living and endosymbiotic ciliates. To understand diversification dynamic of litostomateans, divergence times of their main groups were estimated with the Bayesian molecular dating, a technique allowing relaxation of molecular clock and incorporation of flexible calibration points. The class Litostomatea very likely emerged during the Cryogenian around 680 Mya. The origin of the subclass Rhynchostomatia is dated to about 415 Mya, while that of the subclass Haptoria to about 654 Mya. The order Pleurostomatida, emerging about 556 Mya, was recognized as the oldest group within the subclass Haptoria. The order Spathidiida appeared in the Paleozoic about 442 Mya. The three remaining haptorian orders evolved in the Paleozoic/Mesozoic periods: Didiniida about 419 Mya, Lacrymariida about 269 Mya, and Haptorida about 194 Mya. The subclass Trichostomatia originated from a spathidiid ancestor in the Mesozoic about 260 Mya. A further goal of this study was to investigate the impact of various settings on posterior divergence time estimates. The root placement and tree topology as well as the priors of the rate-drift model, birth-death process and nucleotide substitution rate, had no significant effect on calculation of posterior divergence time estimates. However, removal of calibration points could significantly change time estimates at some nodes. Copyright © 2015 Elsevier GmbH. All rights reserved.

"Soft-shelled" monothalamid foraminifers as a modern analogue of early life

NASA Astrophysics Data System (ADS)

Kitazato, Hiroshi; Ohkawara, Nina; Gooday, Andrew

2017-04-01

According to the fossil record, the earliest undoubted foraminifers are found in the Early Cambrian, where they are represented by tubular agglutinated forms, thought to be the most primitive foraminiferal morphotypes. The numerous foraminifers with single-chambered, organic-walled tests (i.e. 'soft-shelled' monothalamids) exist in the deep sea and are difficult to preserve as fossils. Molecular phylogenetic data tell us that these 'primitive' taxa include the deepest foraminiferal clades, originating around 600 - 900 Ma. We found many soft-shelled monothalamids in sediment samples from deep trenches, including the Challenger Deep (Marianas Trench) and the Horizon Deep (Tonga Trench). Both deeps exceed 10,000 m water depth, well below the carbonate compensation depth, which represents an environmental barrier for calcareous foraminifera. The foraminifera at these extreme hadal sites include tubular and globular forms with organic walls, among which species of the genera Nodellum and Resigella are particularly abundant. Some forms selectively agglutinate minute flakes of clay minerals on the surface of the organic test. Many soft-shelled monothalamids, including most of those in deep tranches, contain stercomata, the function of which is currently unknown. Gromiids (a rhizarian group related to foraminifera) also accumulate stercomata in their sack-shaped tests. This suggests the possibility that the function of these waste particles is to add bulk, like the filling of soft bags or pillows. We suggest that the monothalamid foraminifera that dominate small-sized eukaryotes in extreme hadal settings may provide clues to understanding the biology and ecology of early life in Neoproterozoic sedimented habitats.

Division of Chinese soft-shelled turtle intestine with molecular markers is slightly different from the morphological and histological observation.

PubMed

Zhang, Zuobing; Song, Ruxin; Xing, Xiao; Wang, Lan; Niu, Cuijuan

2018-01-01

The Chinese soft-shelled turtle (Pelodiscus sinensis) is a commercially important species in Asian countries. Knowledge of its nutritional requirements and physiology is essential for determining the appropriate content of the feed for this animal. However, the lack of functional characterization of the intestine of this turtle limits the understanding of its absorption and utilization of nutritional materials. To solve this problem, this work utilized anatomical and histological methods to characterize 9 segments sampled along the anterior-posterior axis of the intestine. Furthermore, 9 genes, which have been well documented in the intestine division of mammals and fish, were employed to functionally characterize the 9 sampled segments. Our results suggest that regions covering from the starting site to S3 (position at 29.9% of the total length from the starting of the intestine) are the equivalent of mammalian dedumonen, and those covering S4 (40.2%) and S5 (65.4%), posterior to S8 (92.7%), are the equivalent of the mammalian ileum and the large intestine, respectively. As to the region spaning S6 (81.3%) and S7 (87.3%), its functional equivalent (small intestine or large intestine) may be variable and depends on the functional genes. This molecular characterization in relation to the division of the intestine of Chinese soft-shelled turtle may contribute to the understanding of the nutritional physiology of the turtle, and promote Chinese soft-shelled turtle production. © 2017 International Society of Zoological Sciences, Institute of Zoology/Chinese Academy of Sciences and John Wiley & Sons Australia, Ltd.

Effect of dietary fermented mushroom bed on egg production in laying hens.

PubMed

Yoshida, Shu; Mitani, Hiroaki; Kamata, Masato; Ohtsuka, Akira; Otomaru, Konosuke; Obi, Takeshi; Kanouchi, Hiroaki

2017-11-01

Egg productivity is declined by stress. It has been reported that some food supplements can improve the egg productivity due to a reduction of environmental stress. We evaluated the effect of fermented waste mushroom bed (FWMB) as a dietary additive on egg productivity. Hens were fed control food (control group, n = 100) or 3% FWMB-added food (FWMB group, n = 100) for 16 months. The number of eggs, soft-shelled eggs, and broken eggs were recorded for 15 months. We also evaluated stress-related markers (ovotransferrin, lipid peroxide, and the heterophil-to-lymphocyte ratio). The FWMB group had slightly increased egg production compared with control hens. The FWMB group produced significantly less broken and soft-shelled eggs than the control group. All stress-related markers were significantly lower in the FWMB group than in the control group. Gut flora was also affected by FWMB feeding. The increased egg production and decreased proportion of broken and soft-shelled eggs might be related to the prevention of stressful conditions by FWMB.

Oral Administration of a Hot Water Extract of the Softshell Turtle (Trionyx sinensis) Improves Exercise Performance

PubMed Central

Harwanto, Dicky; Lee, Gong-Hyeon; Park, Sun-Mee; Choi, Jae-Suk; Kim, Mi-Ryung; Hong, Yong-Ki

2015-01-01

Freshwater softshell turtle (Trionyx sinensis) extract has been used traditionally as a tonic soup, and to recover from physical fatigue. To support these claims, the forelimb grip strength of mice was measured after feeding a soft-shell turtle extract for 7 days. The T. sinensis extract significantly increased the grip strength to 1.25±0.07 N (P<0.01), which is 16.8% higher than the force on day 0. After exercising, the blood glucose levels in extract-fed mice were 202% higher and urea levels were 73% lower, which were both significantly different than the levels observed after control treatment. Lactate dehydrogenase was significantly higher by 314%, and glutathione peroxidase increased by 165%. In addition, the obesity markers, serum triglyceride and cholesterol, decreased to 62% and 49%, respectively, after mice were fed the extract. These data show that the T. sinensis extract provided more energy for forelimb exercise, prevented protein catabolism and muscle fatigue, and decreased the oxidative stress caused by an exhaustive workout. PMID:26176001

Ancient Clam Gardens Increased Shellfish Production: Adaptive Strategies from the Past Can Inform Food Security Today

PubMed Central

Groesbeck, Amy S.; Rowell, Kirsten; Lepofsky, Dana; Salomon, Anne K.

2014-01-01

Maintaining food production while sustaining productive ecosystems is among the central challenges of our time, yet, it has been for millennia. Ancient clam gardens, intertidal rock-walled terraces constructed by humans during the late Holocene, are thought to have improved the growing conditions for clams. We tested this hypothesis by comparing the beach slope, intertidal height, and biomass and density of bivalves at replicate clam garden and non-walled clam beaches in British Columbia, Canada. We also quantified the variation in growth and survival rates of littleneck clams (Leukoma staminea) we experimentally transplanted across these two beach types. We found that clam gardens had significantly shallower slopes than non-walled beaches and greater densities of L. staminea and Saxidomus giganteus, particularly at smaller size classes. Overall, clam gardens contained 4 times as many butter clams and over twice as many littleneck clams relative to non-walled beaches. As predicted, this relationship varied as a function of intertidal height, whereby clam density and biomass tended to be greater in clam gardens compared to non-walled beaches at relatively higher intertidal heights. Transplanted juvenile L. staminea grew 1.7 times faster and smaller size classes were more likely to survive in clam gardens than non-walled beaches, specifically at the top and bottom of beaches. Consequently, we provide strong evidence that ancient clam gardens likely increased clam productivity by altering the slope of soft-sediment beaches, expanding optimal intertidal clam habitat, thereby enhancing growing conditions for clams. These results reveal how ancient shellfish aquaculture practices may have supported food security strategies in the past and provide insight into tools for the conservation, management, and governance of intertidal seascapes today. PMID:24618748

Clam-associated vibriosis, USA, 1988-2010.

PubMed

Slayton, R B; Newton, A E; Depaola, A; Jones, J L; Mahon, B E

2014-05-01

Infections with Vibrio spp. have frequently been associated with consumption of bivalve molluscs, especially oysters, but illness associated with clams has also been well documented. We describe the 2312 domestically acquired foodborne Vibrio infections reported to the Cholera and Other Vibrio Illness Surveillance system from 1988 to 2010. Clams were associated with at least 4% (93 persons, 'only clams') and possibly as many as 24% (556 persons, 'any clams') of foodborne cases. Of those who consumed 'only clams', 77% of infections were caused by V. parahaemolyticus. Clam-associated illnesses were generally similar to those associated with other seafood consumption. Clams associated with these illnesses were most frequently harvested from the Atlantic coastal states and eaten raw. Our study describes the contribution of clams to the overall burden of foodborne vibriosis and indicates that a comprehensive programme to prevent foodborne vibriosis need to address the risks associated with clams.

Effects of predation by sea ducks on clam abundance in soft-bottom intertidal habitats

USGS Publications Warehouse

Lewis, Tyler; Esler, Daniel N.; Boyd, W. Sean

2007-01-01

Recent studies have documented strong, top-down predation effects of sea ducks on mussel populations in rocky intertidal communities. However, the impact of these gregarious predators in soft-bottom communities has been largely unexplored. We evaluated effects of predation by wintering surf scoters Melanitta perspicillata and white-winged scoters M. fusca on clam populations in soft-bottom intertidal habitats of the Strait of Georgia, British Columbia. Specifically, we documented spatial and temporal variation in clam density (clams m–2), scoter diet composition, and the consequences of scoter predation on clam abundance. Of the 3 most numerous clams, Manila clams Venerupis philippinarum and varnish clams Nuttallia obscurata were the primary prey items of both scoter species, while clams of the genus Macoma were rarely consumed by scoters. Between scoter arrival in the fall and departure in the spring, Manila clams decreased in density at most sample sites, while varnish clam densities did not change or declined slightly. Our estimates of numbers of clams consumed by scoters accounted for most of the observed declines in combined abundance of Manila and varnish clams, despite the presence of numerous other vertebrate and invertebrate species known to consume clams. For Macoma spp., we detected an over-winter increase in density, presumably due to growth of clams too small to be retained by our sieve (<5 mm) during fall sampling, in addition to the lack of predation pressure by scoters. These results illustrate the strong predation potential of scoters in soft-bottom intertidal habitats, as well as their potentially important role in shaping community structure.

New polymorphic microsatellite markers derived from hemocyte cDNA library of Manila clam Ruditapes philippinarum challenged by the protozoan parasite Perkinsus olseni

NASA Astrophysics Data System (ADS)

Kang, Hyun-Sil; Hong, Hyun-Ki; Park, Kyung-Il; Cho, Moonjae; Youn, Seok-Hyun; Choi, Kwang-Sik

2017-03-01

Manila clam Ruditapes philippinarum is one of the most important benthic animals in the coastal north Pacific region, where clam populations have been mixed genetically through trade and aquaculture activities. Accordingly, identification of the genetically different clam populations has become one of the most important issues to manage interbreeding of the local and introduced clam populations. To identify genetically different populations of clam populations, we developed 11 expressed sequence tag (EST)-microsatellite loci (i.e., simple sequence repeat, SSR) from 1,128 clam hemocyte cDNA clones challenged by the protozoan parasite Perkinsus olseni. Genotype analysis using the markers developed in this study demonstrated that clams from a tidal flat on the west coast contained 6 to 19 alleles per locus, and a population from Jeju Island had 4 to 20 alleles per locus. The expected heterozygosity of the 2 clam populations ranged from 0.472 to 0.919 for clams from the west coast, and 0.494 to 0.919 for clams from Jeju Island, respectively. Among the 11 loci discovered in this study, 7 loci significantly deviated from the Hardy-Weinberg equilibrium after Bonferroni correction. The 5 loci developed in this study also successfully amplified the SSRs of R. variegatus, a clam species taxonomically very close to R. philippinarum, from Hong Kong and Jeju Island. We believe that the 11 novel polymorphic SSR developed in this study can be utilized successfully in Manila clam genetic diversity analysis, as well as in genetic discrimination of different clam populations.

A second transmissible cancer in Tasmanian devils

PubMed Central

Pye, Ruth J.; Pemberton, David; Tovar, Cesar; Tubio, Jose M. C.; Dun, Karen A.; Fox, Samantha; Darby, Jocelyn; Hayes, Dane; Knowles, Graeme W.; Kreiss, Alexandre; Siddle, Hannah V. T.; Swift, Kate; Lyons, A. Bruce; Murchison, Elizabeth P.; Woods, Gregory M.

2016-01-01

Clonally transmissible cancers are somatic cell lineages that are spread between individuals via the transfer of living cancer cells. There are only three known naturally occurring transmissible cancers, and these affect dogs, soft-shell clams, and Tasmanian devils, respectively. The Tasmanian devil transmissible facial cancer was first observed in 1996, and is threatening its host species with extinction. Until now, this disease has been consistently associated with a single aneuploid cancer cell lineage that we refer to as DFT1. Here we describe a second transmissible cancer, DFT2, in five devils located in southern Tasmania in 2014 and 2015. DFT2 causes facial tumors that are grossly indistinguishable but histologically distinct from those caused by DFT1. DFT2 bears no detectable cytogenetic similarity to DFT1 and carries a Y chromosome, which contrasts with the female origin of DFT1. DFT2 shows different alleles to both its hosts and DFT1 at microsatellite, structural variant, and major histocompatibility complex (MHC) loci, confirming that it is a second cancer that can be transmitted between devils as an allogeneic, MHC-discordant graft. These findings indicate that Tasmanian devils have spawned at least two distinct transmissible cancer lineages and suggest that transmissible cancers may arise more frequently in nature than previously considered. The discovery of DFT2 presents important challenges for the conservation of Tasmanian devils and raises the possibility that this species is particularly prone to the emergence of transmissible cancers. More generally, our findings highlight the potential for cancer cells to depart from their hosts and become dangerous transmissible pathogens. PMID:26711993

A second transmissible cancer in Tasmanian devils.

PubMed

Pye, Ruth J; Pemberton, David; Tovar, Cesar; Tubio, Jose M C; Dun, Karen A; Fox, Samantha; Darby, Jocelyn; Hayes, Dane; Knowles, Graeme W; Kreiss, Alexandre; Siddle, Hannah V T; Swift, Kate; Lyons, A Bruce; Murchison, Elizabeth P; Woods, Gregory M

2016-01-12

Clonally transmissible cancers are somatic cell lineages that are spread between individuals via the transfer of living cancer cells. There are only three known naturally occurring transmissible cancers, and these affect dogs, soft-shell clams, and Tasmanian devils, respectively. The Tasmanian devil transmissible facial cancer was first observed in 1996, and is threatening its host species with extinction. Until now, this disease has been consistently associated with a single aneuploid cancer cell lineage that we refer to as DFT1. Here we describe a second transmissible cancer, DFT2, in five devils located in southern Tasmania in 2014 and 2015. DFT2 causes facial tumors that are grossly indistinguishable but histologically distinct from those caused by DFT1. DFT2 bears no detectable cytogenetic similarity to DFT1 and carries a Y chromosome, which contrasts with the female origin of DFT1. DFT2 shows different alleles to both its hosts and DFT1 at microsatellite, structural variant, and major histocompatibility complex (MHC) loci, confirming that it is a second cancer that can be transmitted between devils as an allogeneic, MHC-discordant graft. These findings indicate that Tasmanian devils have spawned at least two distinct transmissible cancer lineages and suggest that transmissible cancers may arise more frequently in nature than previously considered. The discovery of DFT2 presents important challenges for the conservation of Tasmanian devils and raises the possibility that this species is particularly prone to the emergence of transmissible cancers. More generally, our findings highlight the potential for cancer cells to depart from their hosts and become dangerous transmissible pathogens.

Characteristics of vesicomyid clams and their environment at the Blake Ridge cold seep, South Carolina, USA

USGS Publications Warehouse

Heyl, Taylor P.; Gilhooly, William P.; Chambers, Randolph M.; Gilchrist, George W.; Macko, Stephen A.; Ruppel, Carolyn D.; Van Dover, Cindy L.

2007-01-01

Spatial distributions and patchiness of dominant megafaunal invertebrates in deep-sea seep environments may indicate heterogeneities in the flux of reduced chemical compounds. At the Blake Ridge seep off South Carolina, USA, the invertebrate assemblage includes dense populations of live vesicomyid clams (an undescribed species) as well as extensive clam shell beds (i.e. dead clams). In the present study, we characterized clam parameters (density, size-frequency distribution, reproductive condition) in relation to sulfur chemistry (sulfide and sulfate concentrations and isotopic compositions, pyrite and elemental sulfur concentrations) and other sedimentary metrics (grain size, organic content). For clams >5 mm, clam density was highest where the total dissolved sulfide concentration at 10 cm depth (ΣH2S10cm) was 0.4 to 1.1 mmol l–1; juvenile clams (2S10cm was lowest. Clams were reproductively capable across a broad range of ΣH2S10cm (0.1 to 6.4 mmol l–1), and females in the sampled populations displayed asynchronous gametogenesis. Sulfide concentrations in porewaters at the shell–sediment interface of cores from shell beds were high, 3.3 to 12.1 mmol l–1, compared to –1 sulfide concentrations at the clam–sediment interface in live clam beds. Concentration profiles for sulfide and sulfate in shell beds were typical of those expected where there is active microbial sulfate reduction. In clam beds, profiles of sulfide and sulfate concentrations were also consistent with rapid uptake of sulfide by the clams. Sulfate in shell beds was systematically enriched in 34S relative to that in clam beds due to microbial fractionation during sulfate reduction, but in clam beds, sulfate δ34S matched that of seawater (~20‰). Residual sulfide values in clam and shell beds were correspondingly depleted in 34S. Based on porewater sulfide concentrations in shell beds at the time of sampling, we suggest that clam mortality may have been due to an abrupt increase in sulfide concentration and sulfide toxicity, but other alternatives cannot be eliminated.

50 CFR 648.72 - Minimum surf clam size.

Code of Federal Regulations, 2010 CFR

2010-10-01

... Atlantic Surf Clam and Ocean Quahog Fisheries § 648.72 Minimum surf clam size. (a) Minimum length. The minimum length for surf clams is 4.75 inches (12.065 cm). (b) Determination of compliance. No more than 50... 50 Wildlife and Fisheries 8 2010-10-01 2010-10-01 false Minimum surf clam size. 648.72 Section 648...

Biogeographic history of Pistacia (Anacardiaceae), emphasizing the evolution of the Madrean-Tethyan and the eastern Asian-Tethyan disjunctions.

PubMed

Xie, Lei; Yang, Zhi-Yun; Wen, Jun; Li, De-Zhu; Yi, Ting-Shuang

2014-08-01

Pistacia L. exhibits a disjunct distribution in Mediterranean Eurasia and adjacent North Africa, eastern Asia, and North to Central America. The spatio-temporal diversification history of Pistacia was assessed to test hypotheses on the Madrean-Tethyan and the Eurasian Tethyan disjunctions through phylogenetic and biogeographic analyses. Maximum parsimony and Bayesian methods were employed to analyze sequences of multiple nuclear and plastid loci of Pistacia species. Bayesian dating analysis was conducted to estimate the divergence times of clades. The likelihood method LAGRANGE was used to infer ancestral areas. The New World species of Pistacia formed a clade sister to the Old World clade in all phylogenetic analyses. The eastern Asian Pistacia weinmannifolia-P. cucphuongensis clade was sister to a clade of the remaining Old World species, which were further resolved into three subclades. Pistacia was estimated to have originated at 37.60 mya (with 95% highest posterior density interval (HPD): 25.42-48.51 mya). A vicariance event in the early Miocene (19.79 mya with 95% HPD: 10.88-30.36 mya) was inferred to account for the intercontinental disjunction between the New World and the Old World species, which is consistent with the Madrean-Tethyan hypothesis. The two Old World eastern Asian-Tethyan disjunctions are best explained by one vicariance event in the early Miocene (15.87 mya with 95% HPD: 8.36-24.36 mya) and one dispersal event in late Miocene (5.89 mya with 95% HPD: 2.68-9.16 mya). The diversification of the Old World Pistacia species was significantly affected by extensive geological and climatic changes in the Qinghai-Tibetan plateau (QTP) and in the Mediterranean region. Copyright © 2014 Elsevier Inc. All rights reserved.

A spatially resolved model of seasonal variations in phytoplankton and clam ( Tapes philippinarum) biomass in Barbamarco Lagoon, Italy

NASA Astrophysics Data System (ADS)

Spillman, C. M.; Hamilton, D. P.; Hipsey, M. R.; Imberger, J.

2008-08-01

Barbamarco Lagoon (area = 7 km 2) is in the Po River Delta, adjoining the Northern Adriatic Sea, and supports a commercially valuable clam ( Tapes philippinarum) fishery. This study investigated interactions of the lagoon with adjacent coastal waters and inland riverine inputs by modelling both the lagoon and the Northern Adriatic Sea, using a coupled three-dimensional (3D) hydrodynamic-ecological model (ELCOM-CAEDYM) adapted to include the clam population. The clam model accounted for carbon (C), nitrogen (N) and phosphorus (P) biomass in the benthos through parameterisations for filtration, excretion, egestion, respiration, mortality, and harvesting. Multiple clam size classes were included in a new population dynamics sub-model. Output from the coupled model was validated against hydrodynamic and water quality data from intensive field sampling and routine monitoring. Time scales of tidal flushing, primary production and clam grazing were investigated with the model to demonstrate that food supply to clam populations is dominated by phytoplankton inputs from the Northern Adriatic Sea. Effects of clam cultivation on nutrient concentrations and phytoplankton biomass in Barbamarco Lagoon were primarily localised, with strong tidal flushing minimising impacts of clam filtration on lagoon-wide nutrient concentrations at current clam stocking levels. Clam populations were found to alter the cycling of nutrients in the system, causing the lagoon to become a net sink for particulate organic matter and to export dissolved organic matter to the adjacent sea via tidal flushing. Ecosystem health and sensitivity of nutrient cycles to clam cultivation are important considerations for the long term sustainable management and potential expansion of the fishery.

Morula-like cells in photo-symbiotic clams harboring zooxanthellae.

PubMed

Nakayama, K; Nishijima, M; Maruyama, T

1998-06-01

Symbiosis is observed between zooxanthellae, symbiotic dinoflagellates, and giant clams and related clams which belong to the families Tridacnidae and Cardiidae. We have previously shown that a photo-symbiotic clam Tridacna crocea has three types of hemocytes, the eosinophilic granular hemocyte with phagocytic activity, the agranular cell with electron lucent granules, and the morula-like cell with large (ca. 2 mum in diameter) colorless granules. The function of the morula-like cell is not clear, but it has not been reported in any other bivalves except photo-symbiotic clams T. crocea and Tridacna maxima. In order to clarify whether it is specific to photo-symbiotic clams or not, we studied hemocytes in the photo-symbiotic clams Tridacna derasa (Tridacnidae), Hippopus hippopus (Tridacnidae) and Corculum cardissa (Cardiidae), and a closely related non-symbiotic clam Fulvia mutica (Cardiidae). The eosinophilic granular hemocytes and the agranular cells were found in all of the clams examined. However, the morula-like cells which were packed with many large electron dense granules (ca. 2 mum in diameter), were observed only in the photo-symbiotic clams. In F. mutica, a closely related non-symbiotic clam, this type of hemocyte was not found. Instead a hemocyte with vacuoles and a few large granules containing peroxidase activity was observed. The large granules of F. mutica varied in size from ca. 1-9 mum in diameter. Present data suggests that the presence of morula-like cells is restricted to photo-symbiotic clams and that the hemocytes associated with the morula-like cells may have some functional relationship to symbiosis with zooxanthellae.

Factors Affecting Moulting Patterns of Atlantic Lobster (Homarus americanus) in the East Coast of Canada

NASA Astrophysics Data System (ADS)

Vanderstichel, R.; Thakur, K. K.; Revie, C. W.; Lavallée, J.

2016-02-01

In recent years, there has been a significant increase in the proportion of soft-shelled lobsters caught in Atlantic Canada. Soft-shelled lobsters pose a severe economic challenge to the lobster industry due to low meat yield and poor survivability during holding and transportation. The objectives of this study were to describe the moulting patterns of lobster in Atlantic Canada and to identify factors associated with soft-shelled lobsters. We used routinely collected data by the Atlantic Lobster Moult and Quality monitoring project from a range of locations within two lobster fishing areas in southwestern Nova Scotia. We incorporated environmental (sea surface temperature) and geographical (depth) variables before applied logistic and time-series regression methods to analyze the data. The analyses included more than 119,000 samples from 2004 to 2014. The proportion of soft-shelled lobsters ranged from 9 to 38% during these years. The logistic model demonstrated that stage of moulting, sex of the lobster, level of hemolymph concentration and median depth of the fishing locations were highly associated with the shell hardness of lobsters. This model further indicated that the shell quality was significantly influenced by month of sampling and the fishing areas from which the lobsters were caught, suggesting seasonal and regional differences. Additionally, significant inter-year variability in the shell quality indicated potential impact of climatic variation during these years. This hypothesis is supported by our initial analysis suggesting that the hemolymph concentration is associated with changes in sea surface temperature and ongoing work which evaluates the impact of temperature fluctuation on shell quality will be presented. Findings from this study will be of value to the lobster industry in helping to determine optimal fishing areas and periods, to improve the shell quality of landed lobsters and therefore to increase economic returns.

Millennium-old farm breeding of Chinese softshell turtles (Pelodiscus spp.) results in massive erosion of biodiversity.

PubMed

Gong, Shiping; Vamberger, Melita; Auer, Markus; Praschag, Peter; Fritz, Uwe

2018-05-04

Chinese softshell turtles (Pelodiscus spp.) are widely distributed, ranging from the Amur and Ussuri Rivers in the Russian Far East through the Korean Peninsula, Japan, and eastern, central, and southern China to southern Vietnam. In East and Southeast Asia, Chinese softshell turtles are traditionally exploited for food and have been farm-bred in China since the Spring and Autumn Period, more than 2400 years ago. Currently, the annual production of Pelodiscus amounts to 340,000 t in China alone. Using mitochondrial DNA (2428 bp) and five nuclear loci (3704 bp), we examined broad sampling of wild and farm-bred Pelodiscus to infer genetic and taxonomic differentiation. We discovered four previously unknown mitochondrial lineages, all from China. One lineage from Jiangxi is deeply divergent and sister to the mitochondrial lineage of Pelodiscus axenaria. The nuclear loci supported species status for P. axenaria and the new lineage from Jiangxi. Pelodiscus maackii and P. parviformis, both harboring distinct mitochondrial lineages, were not differentiated from P. sinensis in the studied nuclear markers. The same is true for two new mitochondrial lineages from Zhejiang, China, represented by only one individual each, and another new lineage from Anhui, Guangdong, Jiangxi and Zhejiang, China. However, Vietnamese turtles yielding a mitochondrial lineage clustering within P. sinensis were distinct in nuclear markers, suggesting that these populations could represent another unknown species with introgressed mitochondria. Its species status is also supported by the syntopic occurrence with P. sinensis in northern Vietnam and by morphology. In addition, we confirmed sympatry of P. axenaria and P. parviformis in Guangxi, China, and found evidence for sympatry of P. sinensis and the new putative species from Jiangxi, China. We also discovered evidence for hybridization in turtle farms and for the occurrence of alien lineages in the wild (Zhejiang, China), highlighting the risk of genetic pollution of native stock. In the face of the large-scale breeding of Pelodiscus, we claim that the long-term survival of distinct genetic lineages and species can only be assured when an upscale market segment for pure-bred softshell turtles is established, making the breeding of pure lineages lucrative for turtle farms. Our findings underline that the diversity of Pelodiscus is currently underestimated and threatened by anthropogenic admixture. We recommend mass screening of genetic and morphological variation of Chinese softshell turtles as a first step to understand and preserve their diversity.

Millennium-old farm breeding of Chinese softshell turtles ( Pelodiscus spp.) results in massive erosion of biodiversity

NASA Astrophysics Data System (ADS)

Gong, Shiping; Vamberger, Melita; Auer, Markus; Praschag, Peter; Fritz, Uwe

2018-06-01

Chinese softshell turtles ( Pelodiscus spp.) are widely distributed, ranging from the Amur and Ussuri Rivers in the Russian Far East through the Korean Peninsula, Japan, and eastern, central, and southern China to southern Vietnam. In East and Southeast Asia, Chinese softshell turtles are traditionally exploited for food and have been farm-bred in China since the Spring and Autumn Period, more than 2400 years ago. Currently, the annual production of Pelodiscus amounts to 340,000 t in China alone. Using mitochondrial DNA (2428 bp) and five nuclear loci (3704 bp), we examined broad sampling of wild and farm-bred Pelodiscus to infer genetic and taxonomic differentiation. We discovered four previously unknown mitochondrial lineages, all from China. One lineage from Jiangxi is deeply divergent and sister to the mitochondrial lineage of Pelodiscus axenaria. The nuclear loci supported species status for P. axenaria and the new lineage from Jiangxi. Pelodiscus maackii and P. parviformis, both harboring distinct mitochondrial lineages, were not differentiated from P. sinensis in the studied nuclear markers. The same is true for two new mitochondrial lineages from Zhejiang, China, represented by only one individual each, and another new lineage from Anhui, Guangdong, Jiangxi and Zhejiang, China. However, Vietnamese turtles yielding a mitochondrial lineage clustering within P. sinensis were distinct in nuclear markers, suggesting that these populations could represent another unknown species with introgressed mitochondria. Its species status is also supported by the syntopic occurrence with P. sinensis in northern Vietnam and by morphology. In addition, we confirmed sympatry of P. axenaria and P. parviformis in Guangxi, China, and found evidence for sympatry of P. sinensis and the new putative species from Jiangxi, China. We also discovered evidence for hybridization in turtle farms and for the occurrence of alien lineages in the wild (Zhejiang, China), highlighting the risk of genetic pollution of native stock. In the face of the large-scale breeding of Pelodiscus, we claim that the long-term survival of distinct genetic lineages and species can only be assured when an upscale market segment for pure-bred softshell turtles is established, making the breeding of pure lineages lucrative for turtle farms. Our findings underline that the diversity of Pelodiscus is currently underestimated and threatened by anthropogenic admixture. We recommend mass screening of genetic and morphological variation of Chinese softshell turtles as a first step to understand and preserve their diversity.

High parasite burden increases the surfacing and mortality of the manila clam (Ruditapes philippinarum) in intertidal sandy mudflats on the west coast of Korea during hot summer.

PubMed

Nam, Ki-Woong; Jeung, Hee-Do; Song, Jae-Hee; Park, Kwan-Ha; Choi, Kwang-Sik; Park, Kyung-Il

2018-01-18

Over the past few decades, mass mortality events of Manila clams have been reported from several tidal flats on the west coast of Korea during hot summers. During such mortality events, once clams simultaneously surface, they fail to re-burrow, perishing within a week. The present study aimed to identify the possible causes of the mass mortality of this clam species by investigating the Perkinsus olseni parasite burden and immune parameters of surfaced clams (SC) and normal buried clams (NBCs) when sea water or sediment temperature in the study area varied from 25 °C to 34 °C from late July through mid-August 2015. We collected 2 groups of clams distributed within a 10-m 2 area when a summer clam mortality event occurred around Seonyu-do Island on the west coast of Korea in 2015. The clams were collected 2 days after they surfaced on the sediment and still looked healthy without any gaping. The clams were transported to the laboratory, and we compared P. olseni infection intensity and cell-mediated hemocyte parameters between the NBCs and SCs. SCs showed significantly higher levels of P. olseni burden, lower condition index, and lower levels of cell-mediated immune functions than those of NBCs. Our study suggests that high P. olseni infection weakens Manila clams' resistance against thermal stress, causing them to surface. We surmise that the summer mass mortality of Manila clams on the west coast of Korea is caused by the combined effects of high P. olseni infection levels and abnormally high water temperature stress.

A Climatological Oil Spill Planning Guide. Number 2. Gulf of Maine/Georges Bank,

DTIC Science & Technology

1981-06-01

95 73 Shellfish Distribution: Surf clams and soft clams . . . . . 97 74 Shellfish Distribution: Ocean Quahogs and hard clams . . . . 98 75...have been included in the analysis. - 96 - 716 709 69’ No’ 670 No’ ILI Surf Clam Distribution ..... 45’ * Soft Clam Majo Concontraitln45 44 44’ N..w...18 7 Prevailing winter and summer pressure patterns in the North Atlantic . . . . . . .. .. . . . . . . . . . . . . . . 24 8 Storm tracks, winter

PCDD/F and dioxin-like PCB bioaccumulation by Manila clam from polluted areas of Venice lagoon (Italy).

PubMed

Sfriso, Adriano; Facca, Chiara; Raccanelli, Stefano

2014-01-01

POP bioaccumulation pathways in the clam Tapes philippinarum were examined for two years from juveniles to adult size. Two polluted sites, one with sandy sediment, the other muddy were compared with a reference site characterized by low contamination levels. Juvenile clams coming from a hatchery were reared both on the sediment and in nets suspended at 30 cm from the bottom. POP changes in clam tissue were related to the concentrations recorded in sediments and in the particulate matter during the entire fattening period. Results provided interesting data on the relationships between environmental contamination and bioaccumulation. Contrary to studies on the decontamination times of the clams collected in polluted areas, this work investigates the preferential clam bioaccumulation pathways during growth under different environmental conditions. In general POP bioaccumulation resulted to be correlated to concentrations in SPM rather than in sediments and was higher in S-clams rather than in B-clams. Copyright © 2013 Elsevier Ltd. All rights reserved.

Clam-associated vibriosis, USA, 1988–2010

PubMed Central

Slayton, R. B.; Newton, A. E.; Depaola, A.; Jones, J. L.; Mahon, B. E.

2015-01-01

SUMMARY Infections with Vibrio spp. have frequently been associated with consumption of bivalve molluscs, especially oysters, but illness associated with clams has also been well documented. We describe the 2312 domestically acquired foodborne Vibrio infections reported to the Cholera and Other Vibrio Illness Surveillance system from 1988 to 2010. Clams were associated with at least 4% (93 persons, ‘only clams’) and possibly as many as 24% (556 persons, ‘any clams’) of foodborne cases. Of those who consumed ‘only clams’, 77% of infections were caused by V. parahaemolyticus. Clam-associated illnesses were generally similar to those associated with other seafood consumption. Clams associated with these illnesses were most frequently harvested from the Atlantic coastal states and eaten raw. Our study describes the contribution of clams to the overall burden of foodborne vibriosis and indicates that a comprehensive programme to prevent foodborne vibriosis need to address the risks associated with clams. PMID:23920418

The Clam Trail: Blending Science Education, Public Art, and Tourism

ERIC Educational Resources Information Center

Muscio, Cara; Flimlin, Gef; Bushnell, Rick

2011-01-01

The Barnegat Bay Shellfish Restoration's Clam Trail is an award-winning scavenger hunt that combines science education, public art, and tourism. This family adventure has participants seeking out giant painted fiberglass clams, upweller clam nurseries, and points of interest in search of science facts to record on their forms. Upon returning these…

Manila clam Venerupis philippinarum as a biomonitor to metal pollution

NASA Astrophysics Data System (ADS)

Wu, Huifeng; Ji, Chenglong; Wang, Qing; Liu, Xiaoli; Zhao, Jianmin; Feng, Jianghua

2013-01-01

The Manila clam Venerupis philippinarum is a good biomonitor/bioindicator to marine metal pollution and is frequently used in aquatic toxicology. Two dominant pedigrees (white and zebra) of clam are distributed in the Bohai Sea; however, little attention has been paid to potential biological differences between these two pedigrees. In this study, we tested the sensitivity of both pedigrees to marine metal (cadmium and zinc) pollution biomonitoring and marine environmental toxicology. Results demonstrate significant biological differences in gills of white and zebra clams based on metabolic profiles and antioxidant enzyme activities. In addition, we found that hypotaurine, malonate and homarine were relatively high in white clam gills, while alanine, arginine, glutamate, succinate, 4-aminobutyrate, taurine and betaine were high in zebra clam gills. Zebra clam gills were also more sensitive to a mixture of Cd and Zn, as shown by antioxidant enzyme activities and metabolic profiles, but white clam gills could accumulate more Zn. Therefore, we suggest that the white pedigree can be used as a biomonitor to marine Zn pollution, whereas the zebra pedigree can be used for toxicology studies on Cd and Zn mixed pollution.

The first record of a soft-shelled turtle (Testudines: Pan-Trionychidae) from southern Balkans (Pliocene, Gefira, N. Greece) and new information from bone histology

NASA Astrophysics Data System (ADS)

Vlachos, Evangelos; Cerda, Ignacio; Tsoukala, Evangelia

2015-08-01

Soft-shelled turtles (Pan-Trionychidae) are not included in the present-day chelonian fauna of Greece and have been unknown in the Greek fossil record up to now. Here, we report the first fossil occurrence of a soft-shelled turtle from Greece, originating from the Pliocene Gefira Member (Angelochori Formation), in the lower Axios valley. The corresponding specimens were discovered with several mammalian remains, most of them attributable to the mastodon of Auvergne, Anancus arvernensis. The chelonian material includes five carapacial fragments that belong to the same individual and can be attributed to Pan-Trionychidae based on the typical sculpturing on the dorsal side of the carapace. Most of these bony plates were histologically sampled and thereby provide evidence for the "plywood" structure, another characteristic of pan-trionychids. They represent the first extended sampling of trionychid plates that belong to the same individual, allowing the documentation of the variation of the relevant trionychid morphologies in the carapace. These findings expand the paleobiogeographic range of this taxon to the southern Balkans and Greece and allow a better estimation of the chelonian paleo-fauna of the area. They are also important for the temporal distribution of this clade in the Paleoarctic, as they join specimens from Italy as being the last trionychids in Europe.

Differences in Abundances of Total Vibrio spp., V. vulnificus, and V. parahaemolyticus in Clams and Oysters in North Carolina

PubMed Central

Phippen, B.; Fowler, P.; Noble, R. T.; Oliver, J. D.

2016-01-01

ABSTRACT Filter feeding shellfish can concentrate pathogenic bacteria, including Vibrio vulnificus and Vibrio parahaemolyticus, as much as 100-fold from the overlying water. These shellfish, especially clams and oysters, are often consumed raw, providing a route of entry for concentrated doses of pathogenic bacteria into the human body. The numbers of foodborne infections with these microbes are increasing, and a better understanding of the conditions that might trigger elevated concentrations of these bacteria in seafood is needed. In addition, if bacterial concentrations in water are correlated with those in shellfish, then sampling regimens could be simplified, as water samples can be more rapidly and easily obtained. After sampling of oysters and clams, either simultaneously or separately, for over 2 years, it was concluded that while Vibrio concentrations in oysters and water were related, this was not the case for levels in clams and water. When clams and oysters were collected simultaneously from the same site, the clams were found to have lower Vibrio levels than the oysters. Furthermore, the environmental parameters that were correlated with levels of Vibrio spp. in oysters and water were found to be quite different from those that were correlated with levels of Vibrio spp. in clams. IMPORTANCE This study shows that clams are a potential source of infection in North Carolina, especially for V. parahaemolyticus. These findings also highlight the need for clam-specific environmental research to develop accurate Vibrio abundance models and to broaden the ecological understanding of clam-Vibrio interactions. This is especially relevant as foodborne Vibrio infections from clams are being reported. PMID:27793822

Declining populations of the fingernail clam Musculium transversum in the upper Mississippi River

USGS Publications Warehouse

Wilson, D.M.; Naimo, T.J.; Weiner, J.G.; Anderson, R.V.; Sandheinrich, M.B.; Sparks, Richard E.

1995-01-01

We examined recent temporal trends in the abundance of fingernail clams Musculium transversum (formerly Sphaerium transversum) in the upper Mississippi River. Historical data on densities of fingernail clams were obtained from regional scientists and published literature. We also sampled benthos in six navigation pools in summer 1991, finding very few fingernail clams. The combined data set, including historical data and sampling results, extended from 1973 to 1992 and was sufficient to statistically evaluate trends in densities of fingernail clams in eight pools. Populations of fingernail clams declined significantly in five of the eight pools examined (Pools 2, 5, 7, 9, and 19), which spanned a 700-km reach of river from St. Paul, Minnesota, to Keokuk, Iowa. Densities in Pool 19, which had the longest historical record on fingernail clam abundance, averaged 30 000 m super(-2) in 1985 and progressively declined to zero in 1990. Combined data from all eight pools showed a significant decline in abundance of fingernail clams. An evaluation of potential causal factors led us to hypothesize that the population declines in Pools 2 to 9 were linked to point-source pollution rather than to dredging activity or commercial navigation traffic. In Pool 19, the declines of fingernail clams may have resulted from low-flow conditions during drought periods, but the causal mechanisms by which low flow influences fingernail clam abundance are unclear. The decrease in fingernail clam populations may adversely affect certain fish and wildlife, such as migrating lesser scaup Aythya affinis, which feed heavily on the small mollusk. Moreover, the decreases in populations of this pollution-sensitive mollusk may signal a large-scale deterioration in the health of this riverine ecosystem.

Differences in Abundances of Total Vibrio spp., V. vulnificus, and V. parahaemolyticus in Clams and Oysters in North Carolina.

PubMed

Froelich, B A; Phippen, B; Fowler, P; Noble, R T; Oliver, J D

2017-01-15

Filter feeding shellfish can concentrate pathogenic bacteria, including Vibrio vulnificus and Vibrio parahaemolyticus, as much as 100-fold from the overlying water. These shellfish, especially clams and oysters, are often consumed raw, providing a route of entry for concentrated doses of pathogenic bacteria into the human body. The numbers of foodborne infections with these microbes are increasing, and a better understanding of the conditions that might trigger elevated concentrations of these bacteria in seafood is needed. In addition, if bacterial concentrations in water are correlated with those in shellfish, then sampling regimens could be simplified, as water samples can be more rapidly and easily obtained. After sampling of oysters and clams, either simultaneously or separately, for over 2 years, it was concluded that while Vibrio concentrations in oysters and water were related, this was not the case for levels in clams and water. When clams and oysters were collected simultaneously from the same site, the clams were found to have lower Vibrio levels than the oysters. Furthermore, the environmental parameters that were correlated with levels of Vibrio spp. in oysters and water were found to be quite different from those that were correlated with levels of Vibrio spp. in clams. This study shows that clams are a potential source of infection in North Carolina, especially for V. parahaemolyticus These findings also highlight the need for clam-specific environmental research to develop accurate Vibrio abundance models and to broaden the ecological understanding of clam-Vibrio interactions. This is especially relevant as foodborne Vibrio infections from clams are being reported. Copyright © 2016 American Society for Microbiology.

Inactivation of Vibrio parahaemolyticus in hard clams (Mercanaria mercanaria) by high hydrostatic pressure (HHP) and the effect of HHP on the physical characteristics of hard clam meat.

PubMed

Mootian, Gabriel K; Flimlin, George E; Karwe, Mukund V; Schaffner, Donald W

2013-02-01

Shellfish may internalize dangerous pathogens during filter feeding. Traditional methods of depuration have been found ineffective against certain pathogens. The objective was to explore high hydrostatic pressure (HHP) as an alternative to the traditional depuration process. The effect of HHP on the survival of Vibrio parahaemolyticus in live clams (Mercanaria mercanaria) and the impact of HHP on physical characteristics of clam meat were investigated. Clams were inoculated with up to 7 log CFU/g of a cocktail of V. parahaemolyticus strains via filter feeding. Clams were processed at pressures ranging from 250 to 552 MPa for hold times ranging between 2 and 6 min. Processing conditions of 450 MPa for 4 min and 350 MPa for 6 min reduced the initial concentration of V. parahaemolyticus to a nondetectable level (<10(1) CFU/g), achieving >5 log reductions. The volume of clam meat (processed in shell) increased with negligible change in mass after exposure to pressure at 552 MPa for 3 min, while the drip loss was reduced. Clams processed at 552 MPa were softer compared to those processed at 276 MPa. However, all HHP processed clams were found to be harder compared to unprocessed. The lightness (L*) of the meat increased although the redness (a*) decreased with increasing pressure. Although high pressure-processed clams may pose a significantly lower risk from V. parahaemolyticus, the effect of the accompanied physical changes on the consumer's decision to purchase HHP clams remains to be determined. Shellfish may contain dangerous foodborne pathogens. Traditional methods of removing those pathogen have been found ineffective against certain pathogens. The objective of this research was to determine the effect of high hydrostatic pressure on V. parahaemolyticus in clams. Processing conditions of 450 MPa for 4 min and 350 MPa for 6 min reduced the initial concentration of V. parahaemolyticus to a nondetectable level, achieving >5 log reductions. © 2013 Institute of Food Technologists®

Muscle oxygenation and glycolysis in females with trapezius myalgia during stress and repetitive work using microdialysis and NIRS.

PubMed

Sjøgaard, Gisela; Rosendal, Lars; Kristiansen, Jesper; Blangsted, Anne K; Skotte, Jørgen; Larsson, Britt; Gerdle, Björn; Saltin, Bengt; Søgaard, Karen

2010-03-01

The aim of this investigation was to study female workers active in the labour market for differences between those with trapezius myalgia (MYA) and without (CON) during repetitive pegboard (PEG) and stress (STR) tasks regarding (1) relative muscle load, (2) trapezius muscle blood flow, (3) metabolite accumulation, (4) oxygenation, and (5) pain development. Among 812 female employees (age 30-60 years) at 7 companies with high prevalence of neck/shoulder complaints, clinical examination identified 43 MYA and 19 CON. At rest, during PEG, and STR the trapezius muscle was measured using (1) EMG and MMG, (2) microdialysis, and (3) NIRS. Further, subjective pain ratings were scored (VAS). EMGrms in %MVE (Maximal Voluntary EMG-activity), was significantly higher among MYA than CON during PEG (11.74 +/- 9.09 vs. 7.42 +/- 5.56%MVE) and STR (5.47 +/- 5.00 vs. 3.28 +/- 1.94%MVE). MANOVA showed a group and time effect regarding data from the microdialysis: for MYA versus CON group differences demonstrated lower muscle blood flow and higher lactate and pyruvate concentrations. Potassium and glucose only showed time effects. NIRS showed similar initial decreases in oxygenation with PEG in both groups, but only in CON a significant increase back to baseline during PEG. VAS score at rest was highest among MYA and increased during PEG, but not for CON. The results showed significant differences between CON and MYA regarding muscle metabolism at rest and with PEG and STR. Higher relative muscle load during PEG and STR, insufficient muscle blood flow and oxygenation may account for the higher lactate, pyruvate and pain responses among MYA versus CON.

Classification of soft-shell materials for leisure outdoor jackets by clo defined from thermal properties testing

NASA Astrophysics Data System (ADS)

Tesinova, P.; Steklova, P.; Duchacova, T.

2017-10-01

Materials for outdoor activities are produced in various combinations and lamination helps to combine two or more components for gaining high comfort properties and lighten the structure. Producers can choose exact suitable material for construction of part or set of so called layered clothing for expected activity. Decreasing the weight of materials when preserving of high quality of water-vapour permeability, wind resistivity and hydrostatic resistivity and other comfort and usage properties is a big task nowadays. This paper is focused on thermal properties as an important parameter for being comfort during outdoor activities. Softshell materials were chosen for testing and computation of clo. Results compared with standardised clo table helps us to classify thermal insulation of the set of fabrics when defining proper clothing category.

Insights from the Shell Proteome: Biomineralization to Adaptation

PubMed Central

Arivalagan, Jaison; Yarra, Tejaswi; Marie, Benjamin; Sleight, Victoria A.; Duvernois-Berthet, Evelyne; Clark, Melody S.; Marie, Arul; Berland, Sophie

2017-01-01

Bivalves have evolved a range of complex shell forming mechanisms that are reflected by their incredible diversity in shell mineralogy and microstructures. A suite of proteins exported to the shell matrix space plays a significant role in controlling these features, in addition to underpinning some of the physical properties of the shell itself. Although, there is a general consensus that a minimum basic protein tool kit is required for shell construction, to date, this remains undefined. In this study, the shell matrix proteins (SMPs) of four highly divergent bivalves (The Pacific oyster, Crassostrea gigas; the blue mussel, Mytilus edulis; the clam, Mya truncata, and the king scallop, Pecten maximus) were analyzed in an identical fashion using proteomics pipeline. This enabled us to identify the critical elements of a “basic tool kit” for calcification processes, which were conserved across the taxa irrespective of the shell morphology and arrangement of the crystal surfaces. In addition, protein domains controlling the crystal layers specific to aragonite and calcite were also identified. Intriguingly, a significant number of the identified SMPs contained domains related to immune functions. These were often are unique to each species implying their involvement not only in immunity, but also environmental adaptation. This suggests that the SMPs are selectively exported in a complex mix to endow the shell with both mechanical protection and biochemical defense. PMID:27744410

Evolution and biogeographic diversification of the witch-hazel genus (Hamamelis L., Hamamelidaceae) in the Northern Hemisphere.

PubMed

Xie, Lei; Yi, Ting-Shuang; Li, Rong; Li, De-Zhu; Wen, Jun

2010-08-01

The evolution of the eastern Asian and eastern North American disjunction of the witch-hazel genus Hamamelis L. (Hamamelidaceae) was examined through phylogenetic and biogeographic analyses. Phylogenetic relationships of all Hamamelis species were reconstructed using parsimony and Bayesian analyses of sequence data from six plastid (trnL-F, psaA-ycf3, rps16, matK, atpB-rbcL, and psbA-trnH) and two nuclear (ITS and ETS) DNA regions. The phylogeny was then used to infer the biogeographic origin and subsequent diversification using both event-based (DIVA) and maximum likelihood (LAGRANGE) methods incorporating fossil data. The times of divergence within Hamamelis were estimated with the Bayesian approach using the program BEAST. A very low level of molecular variation was detected in both the plastid and the nuclear DNA regions within Hamamelis. The combined analyses resulted in a phylogeny of the genus with higher resolution and support values. Hamamelis was supported to be monophyletic with H. mollis from eastern China diverged first in the genus. All North American species formed a clade and was sister to the eastern Asian H. japonica. Within the North American clade, H. mexicana was sister to H. vernalis, and the recently described species H. ovalis was found to be closely related to the widespread species H. virginiana. The stem age of Hamamelis was estimated to be at the Eocene (51.2 mya, with 95% HDP: 49.0-54.6 mya), and the crown age of the genus was dated to be at the late Miocene (9.7 mya, with 95% HDP: 3.6-18.1 mya, or 10.6 mya, with 95% HDP: 4.2-19.6 mya). The disjunction between the eastern Asian and the eastern North American species was dated to be 7.1 mya (95% HDP: 3.1-13.6 mya) or 7.7 mya (95% HDP: 3.4-13.6 mya). Biogeographic analyses incorporating fossils resulted in more equally possible solutions at the stem lineage of Hamamelis than those including extant species only. Eastern Asia is inferred to be the most-likely area for the origin of Hamamelis. The current disjunction was due to the extinction in western North America and Europe from Eocene to late Miocene, and later migration from eastern Asia into North America. The Bering land bridge was hypothesized to have played an important role in the evolution of this disjunction. The current species diversity of the genus was the result of relatively recent diversification events during the late Miocene rather than long accumulation of lineages from the early Tertiary. Published by Elsevier Inc.

The Case of the Soft-Shelled Egg.

ERIC Educational Resources Information Center

Cocanour, Barbara; Bruce, Alease S.

1986-01-01

Offers suggestions for activities that demonstrate the principles of osmosis. Explains how decalcified chicken eggs can be used to give students practice with measurement, experimental procedures, and science principles. (ML)

Great Lakes clams find refuge from zebra mussels in restored, lake-connected marsh (Ohio)

USGS Publications Warehouse

Nichols, S. Jerrine; Wilcox, Douglas A.

2004-01-01

Since the early 1990s, more than 95 percent of the freshwater clams once found in Lake Erie have died due to the exotic zebara mussel (Dreissena polymorpha). Zebra mussels attach themselves to native clams in large numbers, impeding the ability of the clams to eat and burrow. However, in 1996, we discovered a population of native clams in Metzger Marsh in western Lake Erie (about 50 miles [80 km] east of Toledo) that were thriving despite the longtime presence of zebra mussel in surrounding waters. At that time, Metzger Marsh was undergoing extensive restoration, including construction of a dike to replace the eroded barrier beach and of a water-control structure to maintain hydrologic connections with the lake (Wilcox and Whillans 1999). The restoration plan called for a drawdown of water levels to promote plant growth from the seedbank -- a process that would also destroy most of the clam population. State and federal resource managers recommended removing as many clams as possible to a site that was isolated from zebra mussels, and then returning them to the marsh after it was restored. We removed about 7,000 native clams in 1996 and moved them back to Metzger Marsh in 1999.

Hemocyte responses of Manila clams, Ruditapes philippinarum, with varying parasite, Perkinsus olseni, severity to toxic-algal exposures.

PubMed

Hégaret, Hélène; da Silva, Patricia Mirella; Wikfors, Gary H; Lambert, Christophe; De Bettignies, Thibaut; Shumway, Sandra E; Soudant, Philippe

2007-10-30

This study assessed the possible combined effects of harmful algae and parasite infection on hemocyte and hemolymph parameters of a bivalve mollusc. Manila clams Ruditapes philippinarum, were exposed for 1 week, under controlled laboratory conditions, to bloom concentrations of two cultured dinoflagellates: Karenia selliformis, and Karenia mikimotoi, with demonstrated, sub-lethal, pathological effects upon these bivalves. Each dinoflagellate treatment was added to a basal diet of Chaetoceros neogracile; controls consisted of clams fed only C. neogracile. Hemocyte characteristics measured with flow-cytometric analyses, and agglutination titer, condition index, and prevalence and intensity of Perkinsus olseni, were assessed for individual clams before and after 3 and 6 days of microalgal exposure. Multifactor analysis of variance tests were conducted to determine possible effects of the harmful algae, time of exposure, and P. olseni intensity, as well as interactions between these three factors, upon each physiological variable measured. There was no relationship between P. olseni intensity and hemolymph measures. Both Karenia species, however, had a significant effect upon hemocyte profiles of the clams, and this effect was dependent upon duration of exposure; 3 days of exposure to the dinoflagellates generally was sufficient to resolve the effects on the clams. K. selliformis had a stronger effect than K. mikimotoi, which was intermediate between K. selliformis and clams fed the non-toxic control, C. neogracile. Total hemocyte counts increased in clams exposed to the harmful algae, while the percentage of dead hemocytes, as well as hemocyte size and complexity, decreased. Furthermore, these immunomodulating effects of K. selliformis were significantly more extreme in clams with a high parasite burden, compared with lightly infected clams. This report is, to our knowledge, the first study assessing the combined effects of harmful algae and parasite infection on a physiological function (hemocyte and hemolymph parameters) of a bivalve mollusc. These findings demonstrate that clams maintain hemocyte function when infected with P. olseni, that the clam immune system responds to harmful or toxic algal exposure, and that this response is modified by parasite infection.

Embryo growth, testa permeability, and endosperm weakening are major targets for the environmentally regulated inhibition of Lepidium sativum seed germination by myrigalone A

PubMed Central

2012-01-01

Myrigalone A (MyA) is a rare flavonoid in fruit leachates of Myrica gale, a deciduous shrub adapted to flood-prone habitats. As a putative allelochemical it inhibits seed germination and seedling growth. Using Lepidium sativum as a model target species, experiments were conducted to investigate how environmental cues modulate MyA’s interference with key processes of seed germination. Time course analyses of L. sativum testa and endosperm rupture under different light conditions and water potentials were combined with quantifying testa permeability, endosperm weakening, tissue-specific gibberellin (GA) and abscisic acid (ABA) contents, as well as embryo growth and apoplastic superoxide production important for cell expansion growth. Lepidium sativum testa permeability and early water uptake by imbibition is enhanced by MyA. During late germination, MyA inhibits endosperm weakening and embryo growth, both processes required for endosperm rupture. Inhibition of embryo cell expansion by MyA depends on environmental cues, which is evident from the light-modulated severity of the MyA-mediated inhibition of apoplastic superoxide accumulation. Several important key weakening and growth processes during early and late germination are targets for MyA. These effects are modulated by light conditions and ambient water potential. It is speculated that MyA is a soil seed bank-destroying allelochemical that secures the persistence of M. gale in its flood-prone environment. PMID:22821938

Identification of clam plasma proteins that bind its pathogen Quahog Parasite Unknown.

PubMed

Hartman, Rachel; Pales Espinosa, Emmanuelle; Allam, Bassem

2018-06-01

The hard clam (Mercenaria mercenaria) is among the most economically-important marine species along the east coast of the United States, representing the first marine resource in several Northeastern states. The species is rather resilient to infections and the only important disease of hard clams results from an infection caused by Quahog Parasite Unknown (QPX), a protistan parasite that can lead to significant mortality events in wild and aquacultured clam stocks. Though the presence of QPX disease has been documented since the 1960s, little information is available on cellular and molecular interactions between the parasite and the host. This study examined the interactions between the clam immune system and QPX cells. First, the effect of clam plasma on the binding of hemocytes to parasite cells was evaluated. Second, clam plasma proteins that bind QPX cells were identified through proteomic (LC-MS/MS) analyses. Finally, the effect of prior clam exposure to QPX on the abundance of QPX-reactive proteins in the plasma was evaluated. Results showed that plasma factors enhance the attachment of hemocytes to QPX. Among the proteins that specifically bind to QPX cells, several lectins were identified, as well as complement component proteins and proteolytic enzymes. Furthermore, results showed that some of these lectins and complement-related proteins are inducible as their abundance significantly increased following QPX challenge. These results shed light on plasma proteins involved in the recognition and binding of parasite cells and provide molecular targets for future investigations of factors involved in clam resistance to the disease, and ultimately for the selection of resistant clam stocks. Copyright © 2018 Elsevier Ltd. All rights reserved.

Distribution and winter survival health of Asian clams, Corbicula fluminea, in the St. Clair River, Michigan

USGS Publications Warehouse

French, John R. P.; Schloesser, Don W.

1996-01-01

We studied the distribution and winter survival of the Asian clam, Corbicula fluminea, in the St. Clair River from the fall of 1988 to the spring of 1990. Between fall of 1988 and spring of 1989, distribution of Corbicula was extended from 5.5 to 11.5 km downstream from an electric power plant. However, total abundance of clams decreased during the winter. By fall of 1989, Corbicula was found 14.5 km from the power plant, and the mean density of clams was 27 individuals/m2. Between fall of 1989 and spring of 1990, distribution was reduced to 7.5 km from the power plant and abundance decreased 97%. During the winter of 1988-1989, we collected clams monthly from one station 2.2 km from the power plant, and we observed that clams survived the harsh winter for two months after the water temperature dropped about 1.5°C below the reported lethal level for Corbicula in midwinter. During the winer of 1989-1990, we held clams at the sediment-water interface in enclosures, and we observed that condition indices (dry body weight; dry shell weight) of clams remained stable (mean = 0.05 ± 0.01) in December and January and then declined significantly (p < 0.05) to 0.04 ± 0.01 in February. All clams perished by late March. The deteriorating physiological state of clams, as indicated by declining condition index, seemingly is a factor in late winter mortalities of Corbicula in the St. Clair River. In contrast to the rapid geographic spread and population increases in the southern United States, Corbicula likely will not spread rapidly throughout the Great Lakes beyond shoreline thermal refugia of heated-water discharge plumes from power plants.

21 CFR 172.255 - Polyacrylamide.

Code of Federal Regulations, 2012 CFR

2012-04-01

..., Films and Related Substances § 172.255 Polyacrylamide. Polyacrylamide containing not more than 0.2 percent of acrylamide monomer may be safely used as a film former in the imprinting of soft-shell gelatin...

21 CFR 172.255 - Polyacrylamide.

Code of Federal Regulations, 2011 CFR

2011-04-01

..., Films and Related Substances § 172.255 Polyacrylamide. Polyacrylamide containing not more than 0.2 percent of acrylamide monomer may be safely used as a film former in the imprinting of soft-shell gelatin...

21 CFR 172.255 - Polyacrylamide.

Code of Federal Regulations, 2013 CFR

2013-04-01

..., Films and Related Substances § 172.255 Polyacrylamide. Polyacrylamide containing not more than 0.2 percent of acrylamide monomer may be safely used as a film former in the imprinting of soft-shell gelatin...

21 CFR 172.255 - Polyacrylamide.

Code of Federal Regulations, 2010 CFR

2010-04-01

..., Films and Related Substances § 172.255 Polyacrylamide. Polyacrylamide containing not more than 0.2 percent of acrylamide monomer may be safely used as a film former in the imprinting of soft-shell gelatin...

Efficacy of domestic cooking inactivation of human hepatitis A virus in experimentally infected manila clams (Ruditapes philippinarum).

PubMed

Pascoli, F; Pezzuto, A; Buratin, A; Piovesana, A; Fortin, A; Arcangeli, G; Toffan, A

2016-10-01

The aim of this work was to evaluate the efficacy of domestic cooking in inactivating Manila clams experimentally infected with human hepatitis A virus (HAV). Electronic temperature probes were positioned to measure the internal temperature of Manila clams during domestic cooking. Two batches were infected with 10(7) and 10(5) TCID50  ml(-1) of HAV. The infected whole-in-shell clams were divided into three replicates and cooked on a conventional stove both singularly and in group and removed from the pan at fixed intervals. Pools of three digestive glands were examined by virus isolation for three blind passages and cell culture supernatant tested with real-time PCR. Results showed that 2-min cooking by a traditional domestic method at a temperature close to 100°C, after the opening up of the valves of all the clams, can completely devitalize the HAV in high viral load-infected clams. This is the first study on inactivation of HAV in experimentally infected Manila clams subjected to domestic cooking. At present, labelling all lagoon products as 'requiring cooking before consumption' is highly recommended, but no specifications are given on how long and at what temperature they should be cooked. Considering the high commercial value of Manila clams, our results can provide both the producers and the consumer with useful indications on how to cook clams to prevent the risk of HAV foodborne illness. © 2016 The Society for Applied Microbiology.

Host specificity of Pisidium coreanum (Bivalvia: Sphaeriidae) to larval infection with a human intestinal fluke Echinostoma cinetorchis (Trematoda: Echinostomatidae) in Korea.

PubMed

Park, Y K; Soh, C T; Park, G M; Hwang, M K; Chung, P R

2006-10-01

The fingernail clam, Pisidium coreanum, has been traditionally consumed raw as a so-called drug therapy by patients with bone fractures in Korea. The present study was designed to determine the possible occurrence and, if present, the prevalence of Echinostoma cinetorchis in P. coreanum collected at a local site, and to determine the susceptibility of the clams in the laboratory to infection with miracidia and cercariae of E. cinetorchis. No cercariae or metacercariae of E. cinetorchis were observed in field-collected P. coreanum clams. In susceptibility experiments with laboratory-reared clams, individuals exposed to miracidia of E. cinetorchis did not release cercariae by 20 days after exposure; necropsy of exposed clams failed to show development of any sporocysts or rediae. To confirm the possibility of these clams serving as an experimental second intermediate host of E. cinetorchis, 20 of them were exposed to E. cinetorchis cercariae from experimentally infected Segmentina hemisphaerula that had been previously exposed to miracidia of E. cinetorchis; all exposed clams became infected. Metacercariae from clams at 14 days postinfection were fed to rats, and adult worms were recovered from the ileocecal regions. This is the first report of P. coreanum serving as second intermediate host of E. cinetorchis.

21 CFR 172.255 - Polyacrylamide.

Code of Federal Regulations, 2014 CFR

2014-04-01

... PERMITTED FOR DIRECT ADDITION TO FOOD FOR HUMAN CONSUMPTION Coatings, Films and Related Substances § 172.255... film former in the imprinting of soft-shell gelatin capsules when the amount used is not in excess of...

Size-related and seasonal diet of the manila clam (Ruditapes philippinarum), as determined using dual stable isotopes

NASA Astrophysics Data System (ADS)

Suh, Yeon Jee; Shin, Kyung-Hoon

2013-12-01

Stable isotope ratios of lab-cultured Manila clams (Ruditapes philippinarum) and those from natural tidal flats of Seonjae Island in Korea were investigated in terms of their dietary uptake patterns in relation to body size and season. The smallest size group of wild Manila clams revealed significantly depleted δ15N based on the results of a one-way ANOVA. There was significant seasonal change in the proportional contribution of food sources, especially in winter, from benthic particulate organic matter (BPOM) to pelagic particulate organic matter (POM). Laboratory-cultured Manila clams showed growth rates of 6.02-37.75 mm/yr, and smaller-sized clams did not fully utilise the microalgal diets that were provided constantly. Instead, they derived most of their energy from detritus or dead microalgae that had settled on the bottom. Bigger clams, however, exhibited well-balanced source contributions, converting the microalgal diets into biomass. This demonstrates intra-specific differences in the growth rates and preferred diet uptakes of Manila clams, even under similar environmental conditions.

Spatial distribution and bioaccumulation patterns in three clam populations from a low contaminated ecosystem

NASA Astrophysics Data System (ADS)

Velez, Cátia; Figueira, Etelvina; Soares, Amadeu; Freitas, Rosa

2015-03-01

When consuming bivalves, special concern should be taken to the total element burden. In order to assess this issue the present study aimed to measure the element levels in the sediments of different harvesting areas and relate them with clam accumulation; to assess the elements body burden, their availability for trophic transfer and relate it with total accumulation in clams, comparing the native (Ruditapes decussatus and Venerupis corrugata) and the invasive (Ruditapes philippinarum) species; to evaluate the human risk associated with the consumption of different clam species. The results showed that the element burden in clams does not reflect the sediment contamination and BAF values were higher in the less contaminated areas. Comparison of Maximum Levels (MLs) from international organizations with the concentration of elements in clams showed that As exceeded standard levels. The ingestion of less than 1 Kg per week of clams would result in exceeding the PTWI threshold for As. Furthermore, the results showed that, when comparing to other elements, As and Hg are more easily available to be transferred trophically.

Phylogeny and Biogeography of the Carnivorous Plant Family Sarraceniaceae

PubMed Central

Ellison, Aaron M.; Butler, Elena D.; Hicks, Emily Jean; Naczi, Robert F. C.; Calie, Patrick J.; Bell, Charles D.; Davis, Charles C.

2012-01-01

The carnivorous plant family Sarraceniaceae comprises three genera of wetland-inhabiting pitcher plants: Darlingtonia in the northwestern United States, Sarracenia in eastern North America, and Heliamphora in northern South America. Hypotheses concerning the biogeographic history leading to this unusual disjunct distribution are controversial, in part because genus- and species-level phylogenies have not been clearly resolved. Here, we present a robust, species-rich phylogeny of Sarraceniaceae based on seven mitochondrial, nuclear, and plastid loci, which we use to illuminate this family's phylogenetic and biogeographic history. The family and genera are monophyletic: Darlingtonia is sister to a clade consisting of Heliamphora+Sarracenia. Within Sarracenia, two clades were strongly supported: one consisting of S. purpurea, its subspecies, and S. rosea; the other consisting of nine species endemic to the southeastern United States. Divergence time estimates revealed that stem group Sarraceniaceae likely originated in South America 44–53 million years ago (Mya) (highest posterior density [HPD] estimate = 47 Mya). By 25–44 (HPD = 35) Mya, crown-group Sarraceniaceae appears to have been widespread across North and South America, and Darlingtonia (western North America) had diverged from Heliamphora+Sarracenia (eastern North America+South America). This disjunction and apparent range contraction is consistent with late Eocene cooling and aridification, which may have severed the continuity of Sarraceniaceae across much of North America. Sarracenia and Heliamphora subsequently diverged in the late Oligocene, 14–32 (HPD = 23) Mya, perhaps when direct overland continuity between North and South America became reduced. Initial diversification of South American Heliamphora began at least 8 Mya, but diversification of Sarracenia was more recent (2–7, HPD = 4 Mya); the bulk of southeastern United States Sarracenia originated co-incident with Pleistocene glaciation, <3 Mya. Overall, these results suggest climatic change at different temporal and spatial scales in part shaped the distribution and diversity of this carnivorous plant clade. PMID:22720090

Phylogeny and biogeography of the carnivorous plant family Sarraceniaceae.

PubMed

Ellison, Aaron M; Butler, Elena D; Hicks, Emily Jean; Naczi, Robert F C; Calie, Patrick J; Bell, Charles D; Davis, Charles C

2012-01-01

The carnivorous plant family Sarraceniaceae comprises three genera of wetland-inhabiting pitcher plants: Darlingtonia in the northwestern United States, Sarracenia in eastern North America, and Heliamphora in northern South America. Hypotheses concerning the biogeographic history leading to this unusual disjunct distribution are controversial, in part because genus- and species-level phylogenies have not been clearly resolved. Here, we present a robust, species-rich phylogeny of Sarraceniaceae based on seven mitochondrial, nuclear, and plastid loci, which we use to illuminate this family's phylogenetic and biogeographic history. The family and genera are monophyletic: Darlingtonia is sister to a clade consisting of Heliamphora+Sarracenia. Within Sarracenia, two clades were strongly supported: one consisting of S. purpurea, its subspecies, and S. rosea; the other consisting of nine species endemic to the southeastern United States. Divergence time estimates revealed that stem group Sarraceniaceae likely originated in South America 44-53 million years ago (Mya) (highest posterior density [HPD] estimate = 47 Mya). By 25-44 (HPD = 35) Mya, crown-group Sarraceniaceae appears to have been widespread across North and South America, and Darlingtonia (western North America) had diverged from Heliamphora+Sarracenia (eastern North America+South America). This disjunction and apparent range contraction is consistent with late Eocene cooling and aridification, which may have severed the continuity of Sarraceniaceae across much of North America. Sarracenia and Heliamphora subsequently diverged in the late Oligocene, 14-32 (HPD = 23) Mya, perhaps when direct overland continuity between North and South America became reduced. Initial diversification of South American Heliamphora began at least 8 Mya, but diversification of Sarracenia was more recent (2-7, HPD = 4 Mya); the bulk of southeastern United States Sarracenia originated co-incident with Pleistocene glaciation, <3 Mya. Overall, these results suggest climatic change at different temporal and spatial scales in part shaped the distribution and diversity of this carnivorous plant clade.

Feasibility Study of Contamination Remediation at Naval Weapons Station, Concord, California. Volume 1. Remedial Action Alternatives.

DTIC Science & Technology

1988-09-01

laboratory contaminants. The surface water sampling program was augmented by clam bioaccumulation 0 studies. In these studies, clams were placed in...water and clam bioaccumulation data indicate that several of the metals found in the contaminated surface soils are also ele- vated in the surface...waters and are potentially bioavailable to aquatic organ- isms and may currently impair water quality in these areas. However, clam bioaccumulation data

Selenium and stable isotopes of carbon and nitrogen in the benthic clam Corbula amurensis from Northern San Francisco Bay, California: May 1995-February 2010

USGS Publications Warehouse

Kleckner, Amy E.; Stewart, A. Robin; Luoma, Samuel N.

2010-01-01

The clam-based food webs of San Francisco Bay, California efficiently bioaccumlate selenium and thus provide pathways for exposure to predators important to the estuary. This study documents changes in monthly selenium concentrations for the clam Corbula amurensis, a keystone species of the estuary, at five locations in northern San Francisco Bay from 1995 through 2010. Samples were collected from designated U.S. Geological Survey stations and prepared and analyzed by U.S. Geological Survey methods. Stable isotopes of carbon and nitrogen in soft tissues of clams also were measured as an indicator of sources of selenium for the clams. These monitoring data indicate that clam selenium concentrations ranged from a low of 2 to a high of 22 micrograms per gram dry weight with strong spatial and seasonal variation over the period of study.

Using the Asian clam as an indicator of microplastic pollution in freshwater ecosystems.

PubMed

Su, Lei; Cai, Huiwen; Kolandhasamy, Prabhu; Wu, Chenxi; Rochman, Chelsea M; Shi, Huahong

2018-03-01

Bioindicators play an important role in understanding pollution levels, bioavailability and the ecological risks of contaminants. Several bioindicators have been suggested for understanding microplastic in the marine environment. A bioindicator for microplastics in the freshwater environment does not exist. In our previous studies, we found a high frequency of microplastic pollution in the Asian clam (Corbicula fluminea) in Taihu Lake, China. In the present study, we conducted a large-scale survey of microplastic pollution in Asian clams, water and sediment from 21 sites in the Middle-Lower Yangtze River Basin from August to October of 2016. The Asian clam was available in all sites, which included diverse freshwater systems such as lakes, rivers and estuaries. Microplastics were found at concentrations ranging from 0.3-4.9 items/g (or 0.4-5.0 items/individual) in clams, 0.5-3.1 items/L in water and 15-160 items/kg in sediment. Microfibers were the most dominant types of microplastics found, accounting for 60-100% in clams across all sampling sites. The size of microplastics ranged from 0.021-4.83 mm, and microplastics in the range of 0.25-1 mm were dominant. The abundance, size distribution and color patterns of microplastics in clams more closely resembled those in sediment than in water. Because microplastic pollution in the Asian clam reflected the variability of microplastic pollution in the freshwater environments, we demonstrated the Asian clam as an bioindicator of microplastic pollution in freshwater systems, particularly for sediments. Copyright © 2017 Elsevier Ltd. All rights reserved.

Bioconversion of D-psicose to D-tagatose and D-talitol by Mucoraceae fungi.

PubMed

Yoshihara, Kazutoshi; Shinohara, Yoshihiro; Hirotsu, Takahiro; Izumori, Ken

2006-03-01

Rhizopus oryzae MYA-2483, which cannot utilize D-psicose as a sole source of carbon, converted D-psicose to two other compounds. These compounds were identified by NMR and IR as D-tagatose and D-talitol. In this study, we describe for the first time the bioconversion of D-psicose to D-tagatose. Various strains of Mucoraceae fungi, to which R. oryzae MYA-2483 belongs, exhibited conversion activity similar to that of R. oryzae MYA-2483. There is the possibility that a considerable number of fungi belonging to Mucoraceae possess such D-psicose conversion activity.

Polyploid Evolution of the Brassicaceae during the Cenozoic Era[C][W][OPEN

PubMed Central

Kagale, Sateesh; Robinson, Stephen J.; Nixon, John; Xiao, Rong; Huebert, Terry; Condie, Janet; Kessler, Dallas; Clarke, Wayne E.; Edger, Patrick P.; Links, Matthew G.; Sharpe, Andrew G.; Parkin, Isobel A.P.

2014-01-01

The Brassicaceae (Cruciferae) family, owing to its remarkable species, genetic, and physiological diversity as well as its significant economic potential, has become a model for polyploidy and evolutionary studies. Utilizing extensive transcriptome pyrosequencing of diverse taxa, we established a resolved phylogeny of a subset of crucifer species. We elucidated the frequency, age, and phylogenetic position of polyploidy and lineage separation events that have marked the evolutionary history of the Brassicaceae. Besides the well-known ancient α (47 million years ago [Mya]) and β (124 Mya) paleopolyploidy events, several species were shown to have undergone a further more recent (∼7 to 12 Mya) round of genome multiplication. We identified eight whole-genome duplications corresponding to at least five independent neo/mesopolyploidy events. Although the Brassicaceae family evolved from other eudicots at the beginning of the Cenozoic era of the Earth (60 Mya), major diversification occurred only during the Neogene period (0 to 23 Mya). Remarkably, the widespread species divergence, major polyploidy, and lineage separation events during Brassicaceae evolution are clustered in time around epoch transitions characterized by prolonged unstable climatic conditions. The synchronized diversification of Brassicaceae species suggests that polyploid events may have conferred higher adaptability and increased tolerance toward the drastically changing global environment, thus facilitating species radiation. PMID:25035408

Polyploid evolution of the Brassicaceae during the Cenozoic era.

PubMed

Kagale, Sateesh; Robinson, Stephen J; Nixon, John; Xiao, Rong; Huebert, Terry; Condie, Janet; Kessler, Dallas; Clarke, Wayne E; Edger, Patrick P; Links, Matthew G; Sharpe, Andrew G; Parkin, Isobel A P

2014-07-01

The Brassicaceae (Cruciferae) family, owing to its remarkable species, genetic, and physiological diversity as well as its significant economic potential, has become a model for polyploidy and evolutionary studies. Utilizing extensive transcriptome pyrosequencing of diverse taxa, we established a resolved phylogeny of a subset of crucifer species. We elucidated the frequency, age, and phylogenetic position of polyploidy and lineage separation events that have marked the evolutionary history of the Brassicaceae. Besides the well-known ancient α (47 million years ago [Mya]) and β (124 Mya) paleopolyploidy events, several species were shown to have undergone a further more recent (∼7 to 12 Mya) round of genome multiplication. We identified eight whole-genome duplications corresponding to at least five independent neo/mesopolyploidy events. Although the Brassicaceae family evolved from other eudicots at the beginning of the Cenozoic era of the Earth (60 Mya), major diversification occurred only during the Neogene period (0 to 23 Mya). Remarkably, the widespread species divergence, major polyploidy, and lineage separation events during Brassicaceae evolution are clustered in time around epoch transitions characterized by prolonged unstable climatic conditions. The synchronized diversification of Brassicaceae species suggests that polyploid events may have conferred higher adaptability and increased tolerance toward the drastically changing global environment, thus facilitating species radiation. © 2014 American Society of Plant Biologists. All rights reserved.

Effects of Fishing and Fishing Closures on Beach Clams: Experimental Evaluation across Commercially Fished and Non-Fished Beaches before and during Harvesting

PubMed Central

Gray, Charles A.

2016-01-01

Management responses to reconcile declining fisheries typically include closed areas and times to fishing. This study evaluated this strategy for a beach clam fishery by testing the hypothesis that changes in the densities and size compositions of clams from before to during harvesting would differ between commercially fished and non-fished beaches. Sampling was spatially stratified across the swash and dry sand habitats on each of two commercially fished and two non-fished beaches, and temporally stratified across three six-week blocks: before, early and late harvesting. Small-scale spatio-temporal variability in the densities and sizes of clams was prevalent across both habitats and the components of variation were generally greatest at the lowest levels examined. Despite this, differences in the densities and sizes of clams among individual beaches were evident, but there were few significant differences across the commercially fished versus non-fished beaches from before to during harvesting. There was no evidence of reduced densities or truncated size compositions of clams on fished compared to non-fished beaches, contrasting reports of some other organisms in protected areas. This was probably due to a combination of factors, including the current levels of commercial harvests, the movements and other local-scale responses of clams to ecological processes acting independently across individual beaches. The results identify the difficulties in detecting fishing-related impacts against inherent levels of variability in clam populations. Nevertheless, continued experimental studies that test alternate management arrangements may help refine and determine the most suitable strategies for the sustainable harvesting of beach clams, ultimately enhancing the management of sandy beaches. PMID:26731102

Effects of Fishing and Fishing Closures on Beach Clams: Experimental Evaluation across Commercially Fished and Non-Fished Beaches before and during Harvesting.

PubMed

Gray, Charles A

2016-01-01

Management responses to reconcile declining fisheries typically include closed areas and times to fishing. This study evaluated this strategy for a beach clam fishery by testing the hypothesis that changes in the densities and size compositions of clams from before to during harvesting would differ between commercially fished and non-fished beaches. Sampling was spatially stratified across the swash and dry sand habitats on each of two commercially fished and two non-fished beaches, and temporally stratified across three six-week blocks: before, early and late harvesting. Small-scale spatio-temporal variability in the densities and sizes of clams was prevalent across both habitats and the components of variation were generally greatest at the lowest levels examined. Despite this, differences in the densities and sizes of clams among individual beaches were evident, but there were few significant differences across the commercially fished versus non-fished beaches from before to during harvesting. There was no evidence of reduced densities or truncated size compositions of clams on fished compared to non-fished beaches, contrasting reports of some other organisms in protected areas. This was probably due to a combination of factors, including the current levels of commercial harvests, the movements and other local-scale responses of clams to ecological processes acting independently across individual beaches. The results identify the difficulties in detecting fishing-related impacts against inherent levels of variability in clam populations. Nevertheless, continued experimental studies that test alternate management arrangements may help refine and determine the most suitable strategies for the sustainable harvesting of beach clams, ultimately enhancing the management of sandy beaches.

Continuous low-level aquatic monitoring (CLAM) samplers for pesticide contaminant screening in urban runoff: Analytical approach and a field test case.

PubMed

Ensminger, Michael P; Vasquez, Martice; Tsai, Hsing-Ju; Mohammed, Sarah; Van Scoy, A; Goodell, Korena; Cho, Gail; Goh, Kean S

2017-10-01

Monitoring of surface waters for organic contaminants is costly. Grab water sampling often results in non-detects for organic contaminants due to missing a pulse event or analytical instrumentation limitations with a small sample size. Continuous Low-Level Aquatic Monitoring (CLAM) samplers (C.I.Agent ® Solutions) continually extract and concentrate organic contaminants in surface water onto a solid phase extraction disk. Utilizing CLAM samplers, we developed a broad spectrum analytical screen for monitoring organic contaminants in urban runoff. An intermediate polarity solid phase, hydrophobic/lipophilic balance (HLB), was chosen as the sorbent for the CLAM to target a broad range of compounds. Eighteen urban-use pesticides and pesticide degradates were targeted for analysis by LC/MS/MS, with recoveries between 59 and 135% in laboratory studies. In field studies, CLAM samplers were deployed at discrete time points from February 2015 to March 2016. Half of the targeted chemicals were detected with reporting limits up to 90 times lower than routine 1-L grab samples with good precision between field replicates. In a final deployment, CLAM samplers were compared to 1-L water samples. In this side-by-side comparison, imidacloprid, fipronil, and three fipronil degradates were detected by the CLAM sampler but only imidacloprid and fipronil sulfone were detected in the water samples. However, concentrations of fipronil sulfone and imidacloprid were significantly lower with the CLAM and a transient spike of diuron was not detected. Although the CLAM sampler has limitations, it can be a powerful tool for development of more focused and informed monitoring efforts based on pre-identified targets in the field. Copyright © 2017 Elsevier Ltd. All rights reserved.

Abundance of Vibrio cholerae, V. vulnificus, and V. parahaemolyticus in oysters (Crassostrea virginica) and clams (Mercenaria mercenaria) from Long Island sound.

PubMed

Jones, Jessica L; Lüdeke, Catharina H M; Bowers, John C; DeRosia-Banick, Kristin; Carey, David H; Hastback, William

2014-12-01

Vibriosis is a leading cause of seafood-associated morbidity and mortality in the United States. Typically associated with consumption of raw or undercooked oysters, vibriosis associated with clam consumption is increasingly being reported. However, little is known about the prevalence of Vibrio spp. in clams. The objective of this study was to compare the levels of Vibrio cholerae, Vibrio vulnificus, and Vibrio parahaemolyticus in oysters and clams harvested concurrently from Long Island Sound (LIS). Most probable number (MPN)-real-time PCR methods were used for enumeration of total V. cholerae, V. vulnificus, V. parahaemolyticus, and pathogenic (tdh(+) and/or trh(+)) V. parahaemolyticus. V. cholerae was detected in 8.8% and 3.3% of oyster (n = 68) and clam (n = 30) samples, with levels up to 1.48 and 0.48 log MPN/g in oysters and clams, respectively. V. vulnificus was detected in 97% and 90% of oyster and clam samples, with median levels of 0.97 and -0.08 log MPN/g, respectively. V. parahaemolyticus was detected in all samples, with median levels of 1.88 and 1.07 log MPN/g for oysters and clams, respectively. The differences between V. vulnificus and total and pathogenic V. parahaemolyticus levels in the two shellfish species were statistically significant (P < 0.001). These data indicate that V. vulnificus and total and pathogenic V. parahaemolyticus are more prevalent and are present at higher levels in oysters than in hard clams. Additionally, the data suggest differences in vibrio populations between shellfish harvested from different growing area waters within LIS. These results can be used to evaluate and refine illness mitigation strategies employed by risk managers and shellfish control authorities. Copyright © 2014, American Society for Microbiology. All Rights Reserved.

Bioaccumulation of hydrocarbons derived from terrestrial and anthropogenic sources in the Asian clam, Potamocorbula amurensis, in San Francisco Bay estuary

USGS Publications Warehouse

Pereira, Wilfred E.; Hostettler, Frances D.; Rapp, John B.

1992-01-01

An assessment was made in Suisun Bay, California, of the distributions of hydrocarbons in estuarine bed and suspended sediments and in the recently introduced asian clam, Potamocorbula amurensis. Sediments and clams were contaminated with hydrocarbons derived from petrogenic and pyrogenic sources. Distributions of alkanes and of hopane and sterane biomarkers in sediments and clams were similar, indicating that petroleum hydrocarbons associated with sediments are bioavailable to Potamocorbula amurensis. Polycyclic aromatic hydrocarbons in the sediments and clams were derived mainly from combustion sources. Potamocorbula amurensis is therefore a useful bioindicator of hydrocarbon contamination, and may be used as a biomonitor of hydrocarbon pollution in San Francisco Bay.

Turtles as a Possible Reservoir of Nontyphoidal Salmonella in Shanghai, China

PubMed Central

Zhang, Jianmin; Kuang, Dai; Wang, Fei; Meng, Jianghong; Jin, Huiming; Yang, Xiaowei; Liao, Ming; Klena, John D.; Wu, Shuyu; Zhang, Yongbiao; Xu, Xuebin

2017-01-01

Terrapins and turtles are known to transmit Salmonella to humans. However, little was known about the occurrence of this pathogen in soft-shelled terrapin that is a popular delicacy in Chinese and other East Asian cuisines. We isolated and characterized 82 (24.4%) isolates of Salmonella from 336 fecal samples of soft-shelled terrapins (51 of 172; 29.7%) and pet turtles (31 of 164; 18.9%) in Shanghai. Salmonella Thompson was the most common serotype (17.1%) among others. Many isolates (84.1%) were resistant to multiple antimicrobials (≥3). Molecular analysis of Salmonella Thompson and Salmonella Typhimurium using pulsed-field gel electrophoresis unveiled a close genetic relationship between several human and terrapin isolates. Our results highlight the risk associated with the handling and consumption of turtles and their role in the spread of Salmonella in the human salmonellosis. PMID:27267492

Revision and New Species of Vasotrema Stunkard, 1926 (Digenea: Schistosomatoidea): Turtle Blood Flukes of North American Softshell Turtles (Testudines: Trionychidae: Apalone spp.).

PubMed

Roberts, Jackson R; Bullard, Stephen A

2017-10-01

Gulf Coast spiny softshell turtles, Apalone spinifera aspera (Agassiz, 1857) (Testudines: Trionychidae) from Canoe Lake (33°47'56.16″N, 86°29'25.02″W; Springville, Alabama) and Round Lake (32°41'50.91″N, 87°14'30.39″W; Perry Lakes State Park, Marion, Alabama), were infected by V. robustum Stunkard, 1928 , Vasotrema longitestis Byrd, 1939 , and Vasotrema rileyae n. sp. The new species differs from its congeners by having papillate suckers, a short testis, an ovary dextral to the oviduct, and a pre-ovarian genital pore that is lateral to the ventral sucker. We studied the newly collected specimens and museum specimens of all congeners to revise the diagnosis of Vasotrema Stunkard, 1926 and redescribe and provide an updated dichotomous key to all species of the genus.

Evaluation of Using Caged Clams to Monitor Contaminated Groundwater Exposure in the Near-Shore Environment of the Hanford Site 300 Area

DOE Office of Scientific and Technical Information (OSTI.GOV)

Larson, Kyle B.; Poston, Ted M.; Tiller, Brett L.

2008-01-31

The Asiatic clam (Corbicula fluminea) has been identified as an indicator species for locating and monitoring contaminated groundwater in the Columbia River. Pacific Northwest National Laboratory conducted a field study to explore the use of caged Asiatic clams to monitor contaminated groundwater upwelling in the 300 Area near-shore environment and assess seasonal differences in uranium uptake in relation to seasonal flow regimes of the Columbia River. Additional objectives included examining the potential effects of uranium accumulation on growth, survival, and tissue condition of the clams. This report documents the field conditions and procedures, laboratory procedures, and statistical analyses used inmore » collecting samples and processing the data. Detailed results are presented and illustrated, followed by a discussion comparing uranium concentrations in Asiatic clams collected at the 300 Area and describing the relationship between river discharge, groundwater indicators, and uranium in clams. Growth and survival, histology, and other sources of environmental variation also are discussed.« less

Recovery of intertidal hardshelled clams in Prince William Sound from Exxon Valdez oiling and shoreline treatments

DOE Office of Scientific and Technical Information (OSTI.GOV)

Houghton, J.P.; Lees, D.C.; Driskell, W.B.

1994-12-31

Native little neck (Protothaca staminea) and butter clams (Saxidomus giganteus) were quantitatively surveyed from 1989 through 1993 to evaluate effects from the Exxon Valdez oil spill. Hydraulic washing of sand and gravel beaches altered beach morphology by transporting material down slope from upper elevations, often burying the lower beach in several centimeters of sediment having a relatively low content of fines and organic carbon. Hydraulically washed beaches showed significant reductions in clam densities in 1989 and 1990. Recruitment of clams was very limited on these beaches through 1993; as a result, clam densities on these hydraulically washed beaches remain verymore » depressed compared to those on beaches that were unoiled or oiled but not washed. Littlenecks transplanted from a reference site to a heavily oiled but untreated site showed significant patterns of increased mortality, decreased growth, and increased bioaccumulation of PAH in response to a gradient in sediment PAH, This same heavily oiled site has consistently had among the highest rates of hardshelled clam recruitment of any of the sites sampled. Littlenecks also were transplanted to another heavily oiled beach that had been hydraulically washed and had little remaining hydrocarbons. These clams showed very high survival, yet this beach has had very little clam recruitment. It is hypothesized that recruitment at this site may be inhibited by the low level of finer sediments and low organic content remaining after washing.« less

Phylogeny, divergence times, and historical biogeography of the angiosperm family Saxifragaceae.

PubMed

Deng, Jia-bin; Drew, Bryan T; Mavrodiev, Evgeny V; Gitzendanner, Matthew A; Soltis, Pamela S; Soltis, Douglas E

2015-02-01

Saxifragaceae (Saxifragales) contain approximately 640 species and 33 genera, about half of which are monotypic. Due to factors such as morphological stasis, convergent morphological evolution, and disjunct distributions, relationships within Saxifragaceae have historically been troublesome. The family occurs primarily in mountainous regions of the Northern Hemisphere, with the highest generic and species diversity in western North America, but disjunct taxa are known from southern South America. Here, we integrate broad gene (56 loci) and taxon (223 species) sampling strategies, both the most comprehensive to date within Saxifragaceae, with fossil calibrations and geographical distribution data to address relationships, divergence times, and historical biogeography among major lineages of Saxifragaceae. Two previously recognized main clades, the heucheroids (eight groups+Saniculiphyllum) and saxifragoids (Saxifraga s.s.), were re-affirmed by our phylogenetic analyses. Relationships among the eight heucheroid groups, as well as the phylogenetic position of Saniculiphyllum within the heucheroids, were resolved with mostly high support. Divergence time estimates indicate that Saxifragaceae began to diversify ca. 38.37 million years ago (Mya; 95% HPD=30.99-46.11Mya) in the Mid-Late Eocene, and that the two major lineages, the heucheroids and saxifragoids, began to diversify approximately 30.04Mya (95% HPD=23.87-37.15Mya) and 30.85 Mya (95% HPD=23.47-39.33Mya), respectively. We reconstructed ancestral geographic areas using statistical dispersal-vicariance (S-DIVA). These analyses indicate several radiations within Saxifragaceae: one in eastern Asia and multiple radiations in western North America. Our results also demonstrate that large amounts of sequence data coupled with broad taxon sampling can help resolve clade relationships that have thus far seemed intractable. Copyright © 2014 Elsevier Inc. All rights reserved.

Tracing the spatio-temporal dynamics of endangered fin whales (Balaenoptera physalus) within baleen whale (Mysticeti) lineages: a mitogenomic perspective.

PubMed

Yu, Jihyun; Nam, Bo-Hye; Yoon, Joon; Kim, Eun Bae; Park, Jung Youn; Kim, Heebal; Yoon, Sook Hee

2017-12-01

To explore the spatio-temporal dynamics of endangered fin whales (Balaenoptera physalus) within the baleen whale (Mysticeti) lineages, we analyzed 148 published mitochondrial genome sequences of baleen whales. We used a Bayesian coalescent approach as well as Bayesian inferences and maximum likelihood methods. The results showed that the fin whales had a single maternal origin, and that there is a significant correlation between geographic location and evolution of global fin whales. The most recent common female ancestor of this species lived approximately 9.88 million years ago (Mya). Here, North Pacific fin whales first appeared about 7.48 Mya, followed by a subsequent divergence in Southern Hemisphere approximately 6.63 Mya and North Atlantic about 4.42 Mya. Relatively recently, approximately 1.76 and 1.42 Mya, there were two additional occurrences of North Pacific populations; one originated from the Southern Hemisphere and the other from an uncertain location. The evolutionary rate of this species was 1.002 × 10 -3 substitutions/site/My. Our Bayesian skyline plot illustrates that the fin whale population has the rapid expansion event since ~ 2.5 Mya, during the Quaternary glaciation stage. Additionally, this study indicates that the fin whale has a sister group relationship with humpback whale (Meganoptera novaeangliae) within the baleen whale lineages. Of the 16 genomic regions, NADH5 showed the most powerful signal for baleen whale phylogenetics. Interestingly, fin whales have 16 species-specific amino acid residues in eight mitochondrial genes: NADH2, COX2, COX3, ATPase6, ATPase8, NADH4, NADH5, and Cytb.

50 CFR 648.6 - Dealer/processor permits.

Code of Federal Regulations, 2011 CFR

2011-10-01

... deep-sea red crab, spiny dogfish, summer flounder, Atlantic surf clam, ocean quahog, Atlantic mackerel, squid, butterfish, scup, bluefish, tilefish, and black sea bass; Atlantic surf clam and ocean quahog... business if applying for a surf clam and ocean quahog permit), mailing address(es) and telephone number(s...

Constant Temperature Artificial Incubation of Spawned Eggs in Natural Nests from the Chinese Freshwater Soft-Shelled Turtle, Tryonyx sinensis Strauch(1862)

PubMed Central

Oh, Young Nam; Kim, Sung Han

2017-01-01

ABSTRACT On June 14, 2008 (the first experiment) and July 24, 2008 (the second experiment), the shores of the Boseong River and the sandy beaches, Seokgok-myun, Moksadong-myun, Gokseong-gun in Jeollanam Province were investigated and a total of 29 soft-shelled turtle (Tryonyx sinensis) eggs in the natural spawning nest eggs were collected (13 eggs were collected in the first experiment and 16 eggs in the second experiment). The temperatures in the natural spawning nests were 25.9-36.9±0.5℃, the depth of the eggs was 5.2-7.5±0.5 cm as the distance of the average 6.4±0.5 cm. 29 eggs were scattered at least 0.2 cm interval. Artificial incubation of 29 eggs was conducted in artificial nest boxes in thermo-plastic composition of the incubator, and then incubated at 26.5-35.5±0.5℃, and an average constant temperature was 31.2-32.1±1.0℃. The incubation days ranged from 53 to 55. In case of most turtles, incubation at 31℃ (higher temperatures) generally produces all or mostly females, while incubation at 25℃(cooler temperatures) produces all or mostly males. Exceptionally, in case of genus Trionyx, the sex ratio of female : male of T. sinensis of a freshwater soft-shelled turtle was approximately 1:1, which differs from other genera of turtles and makes T. sinensis Strauch only turtles presently known to lack temperature-dependent sex determination. PMID:28484749

Effects of habitat disturbance on survival rates of softshell turtles (Apalone spinifera) in an urban stream

USGS Publications Warehouse

Plummer, M.V.; Krementz, D.G.; Powell, L.A.; Mills, N.E.

2008-01-01

We monitored Spiny Softshell Turtles (Apalone spinifera) using mark-recapture during 1994-2005 in Gin Creek, Searcy, Arkansas. In 1997-2000 the creek bed and riparian zone were bulldozed in an effort to remove debris and improve water flow. This disturbance appeared to reduce the quantity and quality of turtle habitat. We tested for the potential effect of this habitat disturbance on the survival rates of marked turtles. We estimated annual survival rates for the population using models that allowed for variation in survival by state of maturation, year, and effects of the disturbance; we evaluated two different models of the disturbance impact. The first disturbance model incorporated a single change in survival rates, following the disturbance, whereas the second disturbance model incorporated three survival rates: pre- and postdisturbance, as well as a short-term decline during the disturbance. We used a state-transition model for our mark-recapture analysis, as softshells transition from juveniles to adults in a variable period of time. Our analysis indicated that survival varied by maturation state and was independent of a time trend or the disturbance. Annual survival rates were lower for juveniles (S?? = 0.717, SE = 0.039) than for adults (S?? = 0.836, SE = 0.025). Despite the dramatic habitat disturbance, we found no negative effects on survival rates. Our results demonstrate that, like a few other freshwater turtle species known to thrive in urban environments, populations of A. spinifera are resilient and can persist in urban environments despite periodic habitat disturbances. Copyright 2008 Society for the Study of Amphibians and Reptiles.

A first possible chameleon from the late Miocene of India (the hominoid site of Haritalyangar): a tentative evidence for an Asian dispersal of chameleons.

PubMed

Sankhyan, Anek R; Čerňanský, Andrej

2016-12-01

Miocene rare fossils from India, tentatively attributed to chameleons, are described for the first time. The material consists of a fragment of the left squamosal and an element interpreted as a posterodorsal process of the parietal. The specimens come from a late Miocene site of the Nagri Formation (Middle Siwaliks, ~ 9 Mya) at Haritalyangar, North India. This material presents a possible evidence for a chameleon dispersal to Asia. Based on molecular data, the dispersion of an Asian chamaeleonid lineage from Africa to Arabia/Asia is dated at approximately 13 Mya and its diversification in situ at around 6-8 Mya. However, till now, no Miocene-age fossil record has been described to support crown chamaeleonid presence in this area. The material described herein is very fragmented. If correctly allocated, the Haritalyangar chameleons show the oldest known occurrence of this clade in India, at least approximately 9 Mya ago.

A first possible chameleon from the late Miocene of India (the hominoid site of Haritalyangar): a tentative evidence for an Asian dispersal of chameleons

NASA Astrophysics Data System (ADS)

Sankhyan, Anek R.; Čerňanský, Andrej

2016-12-01

Miocene rare fossils from India, tentatively attributed to chameleons, are described for the first time. The material consists of a fragment of the left squamosal and an element interpreted as a posterodorsal process of the parietal. The specimens come from a late Miocene site of the Nagri Formation (Middle Siwaliks, 9 Mya) at Haritalyangar, North India. This material presents a possible evidence for a chameleon dispersal to Asia. Based on molecular data, the dispersion of an Asian chamaeleonid lineage from Africa to Arabia/Asia is dated at approximately 13 Mya and its diversification in situ at around 6-8 Mya. However, till now, no Miocene-age fossil record has been described to support crown chamaeleonid presence in this area. The material described herein is very fragmented. If correctly allocated, the Haritalyangar chameleons show the oldest known occurrence of this clade in India, at least approximately 9 Mya ago.

50 CFR Table 2d to Part 679 - Species Codes-Non-FMP Species

Code of Federal Regulations, 2011 CFR

2011-10-01

... description Code Arctic char, anadromous 521 Dolly varden, anadromous 531 Eels or eel-like fish 210 Eel, wolf... Arctic surf 812 Cockle 820 Eastern softshell 842 Pacific geoduck 815 Pacific littleneck 840 Pacific razor...

DIRECT MEASUREMENT TECHNIQUE FOR THE DETERMINING VENTILATION RATE IN THE DEPOSIT FEEDING CLAM, MACOMA NASUTA (BIVALVIA, TELLINACEAE)

EPA Science Inventory

An exposure chamber, the "clambox", was developed to measure ventilation rate, sediment processing rate, and efficiency of pollutant uptake byMacoma nasuta Conrad, a surface surface deposit-feeding clams. Clams, collected from Yaquina, Bay, Oregon, USA, were cemented into a hole ...

50 CFR 648.72 - Minimum surf clam size.

Code of Federal Regulations, 2011 CFR

2011-10-01

... Atlantic Surf Clam and Ocean Quahog Fisheries § 648.72 Minimum surf clam size. Link to an amendment... quahog specifications. (a) Establishing catch quotas. The amount of surfclams or ocean quahogs that may... paragraph (b) of this section. The amount of surfclams available for harvest annually must be specified...

Bioavailability of polycyclic aromatic hydrocarbons (PAHs) to short-neck clam (Paphia undulata) from sediment matrices in mudflat ecosystem of the west coast of Peninsular Malaysia.

PubMed

Keshavarzifard, Mehrzad; Zakaria, Mohamad Pauzi; Hwai, Tan Shau

2017-06-01

The bioaccumulation and bioavailability of polycyclic aromatic hydrocarbons (PAHs) were characterized in sediment and Paphia undulata (short-neck clam) from six mudflat areas in the west coasts of Peninsular Malaysia. The concentrations of total PAHs varied from 357.1 to 6257.1 and 179.9 ± 7.6 to 1657.5 ± 53.9 ng g -1 dry weight in sediment and short-neck clam samples, respectively. PAHs can be classified as moderate to very high level of pollution in sediments and moderate to high level of pollution in short-neck clams. The diagnostic ratios of individual PAHs and principal component analysis indicate both petrogenic and pyrogenic sources with significant dominance of pyrogenic source. The first PAHs biota-sediment accumulation factors and relative biota-sediment accumulation factors data for short-neck clam were obtained in this study, indicating a preferential accumulation of lower molecular weight PAHs. Evaluation of PAH levels in sediments and short-neck clams indicates that short-neck clam could be introduced as a good biomonitor in mudflats. The results also demonstrated that under environmental conditions, the sedimentary load of hydrocarbons appears to be one of the factors controlling their bioavailability to biota.

Immunological Profile of the Yellow Clam Mesodesma mactroides (Mesodesmatidae) from the Southern Coast of Rio Grande do Sul, Brazil.

PubMed

Silva Santos, Juan Jethro; Carvalho, Yuri Bovi; de Alcantara Lopes, Diogo Luiz; Romano, Luis Alberto

2016-03-01

The yellow clam Mesodesma mactroides (Mesodesmatidae) is a sandy beach bivalve that is distributed from Rio de Janeiro, Brazil, to the south of Buenos Aires province, Argentina. The yellow clam population has been declining in recent decades. To increase our understanding of this species, we evaluated the immunological status of yellow clams collected during different seasons from various areas in the state of Rio Grande do Sul, Brazil. We characterized the hemocytes, determined the differential hemocyte counts (DHCs), calculated the apoptotic index, and evaluated the incidence of parasites in yellow clams through histological analysis. We identified two types of hemocyte (hyaline and granular) that showed significant variation in DHCs among sampling areas during the summer and winter. The apoptotic index only exhibited significant variation during the summer. Histopathological analysis results did not significantly differ among sampling areas. This work demonstrated that environmental variation (e.g., temperature and salinity) associated with anthropogenic actions may be affecting the immune system of yellow clams. However, more studies are needed to determine the full influence of these factors on the yellow clam's immune system and thus contribute to future management and aquaculture of the species. Received May 10, 2015; accepted October 28, 2015.

Phylogeography of the South China Field Mouse (Apodemus draco) on the Southeastern Tibetan Plateau Reveals High Genetic Diversity and Glacial Refugia

PubMed Central

Liu, Yang; Liao, Lihuan; Zhang, Xiuyue; Yue, Bisong

2012-01-01

The southeastern margin of the Tibetan Plateau (SEMTP) is a particularly interesting region due to its topographic complexity and unique geologic history, but phylogeographic studies that focus on this region are rare. In this study, we investigated the phylogeography of the South China field mouse, Apodemus draco, in order to assess the role of geologic and climatic events on the Tibetan Plateau in shaping its genetic structure. We sequenced mitochondrial cytochrome b (cyt b) sequences in 103 individuals from 47 sampling sites. In addition, 23 cyt b sequences were collected from GenBank for analyses. Phylogenetic, demographic and landscape genetic methods were conducted. Seventy-six cyt b haplotypes were found and the genetic diversity was extremely high (π = 0.0368; h = 0.989). Five major evolutionary clades, based on geographic locations, were identified. Demographic analyses implied subclade 1A and subclade 1B experienced population expansions at about 0.052-0.013 Mya and 0.014-0.004 Mya, respectively. The divergence time analysis showed that the split between clade 1 and clade 2 occurred 0.26 Mya, which fell into the extensive glacial period (EGP, 0.5-0.17 Mya). The divergence times of other main clades (2.20-0.55 Mya) were congruent with the periods of the Qingzang Movement (3.6-1.7 Mya) and the Kun-Huang Movement (1.2-0.6 Mya), which were known as the most intense uplift events in the Tibetan Plateau. Our study supported the hypothesis that the SEMTP was a large late Pleistocene refugium, and further inferred that the Gongga Mountain Region and Hongya County were glacial refugia for A. draco in clade 1. We hypothesize that the evolutionary history of A. draco in the SEMTP primarily occurred in two stages. First, an initial divergence would have been shaped by uplift events of the Tibetan Plateau. Then, major glaciations in the Pleistocene added complexity to its demographic history and genetic structure. PMID:22666478

Divergence times and colonization of the Canary Islands by Gallotia lizards.

PubMed

Cox, Siobhan C; Carranza, Salvador; Brown, Richard P

2010-08-01

The Canary Islands have become a model region for evolutionary studies. We obtained 1.8 Kbp of mtDNA sequence from all known island forms of the endemic lizard genus Gallotia and from its sister taxon Psammodromus in order to reanalyze phylogenetic relationships within the archipelago, estimate lineage divergence times, and reconstruct the colonization history of this group. Well-supported phylogenies were obtained using maximum parsimony and Bayesian inference. Previous studies have been unable to establish the branching pattern at the base of the tree. We found evidence that G. stehlini (Gran Canaria) originated from the most basal Gallotia node and G. atlantica from the subsequent node. Divergence times were estimated under a global clock using Bayesian Markov Chain Monte Carlo methods implemented by three different programs: BEAST, MCMCTREE, MULTIDIVTIME. Node constraints were derived from subaerial island appearance data and were incorporated into the analyses as soft or hard maximal bounds. Posterior node ages differed slightly between programs, possibly due to different priors on divergence times. The most eastern Canary Islands first emerged just over 20 mya and their colonization appears to have taken place relatively quickly, around 17-20 mya. The subsequent node is consistent with cladogenesis due to colonization of Gran Canaria from the eastern islands about 11-13 mya. The western islands appear to have been colonized by a dispersal event from Lanzarote/Fuerteventura in the east to either La Gomera or one of the ancient edifices that subsequently formed Tenerife in the west, about 9-10 mya. Within the western islands, the most recent node that is ancestral to both the G. intermedia/G. gomerana/G. simonyi and the G.galloti/G. caesaris clades is dated at about 5-6 mya. Subsequent dispersal events between ancient Tenerife islands and La Gomera are dated at around 3 mya in both clades, although the direction of dispersal cannot be determined. Finally, we show that G. galloti is likely to have colonized La Palma more than 0.5 Ma after emergence of the island 1.77 mya, while G. caesaris from the same clade may have colonized El Hierro very soon after it emerged 1.12 mya. There are tentative indications that the large-bodied endangered G. simonyi colonized El Hierro around the same time or even later than the smaller-bodied G. caesaris. This study demonstrates the effectiveness of Bayesian dating of a phylogeny in helping reconstruct the historical pattern of dispersal across an oceanic archipelago. Copyright 2010 Elsevier Inc. All rights reserved.

Intra-specific diet shift in manila clams (Ruditapes philippinarum) as revealed by carbon and nitrogen stable isotopes and fatty acid biomarker

NASA Astrophysics Data System (ADS)

Suh, Y.; Shin, K.

2011-12-01

Manila clams sampled in Seonjae Island, Korea with shell lengths (SL) below 19.76 mm in average showed a significantly depleted carbon and nitrogen isotope values (P<0.05) by 0.80~1.41 %. This size related variation can be caused by either altered carbon and nutrient source or by affected isotopic incorporation rates and discrimination factors. In order to examine size-related diet shift in manila clams, R. philippinarum with different sizes that were constantly fed on known mixed microalgae for several months were sampled from Incheon Fisheries Hacheries Research Institute (IFRI). These manila clams have shown a high intra-species variation in growth rate with a maximum difference of more or less 2.30 cm. The smallest size groups (3.68±0.17 mm and 6.88±0.21 mm) obtained their nutrition from both P. tricornutum and aggregated organic matter that consists of dead or decomposed microalgae or other detritus. Bigger size groups (10.92±0.34 mm and 14.81±0.25 mm) obtained most of their energy from P.tricorutum and also from other phytoplankton unlike the biggest size group (21.15±1.02 mm) that feeds mainly on fresh microalgae of all diets fed. This variation in diet reveals that smaller clams mostly inhale dead or decomposed microalgae that sinks on the bottom while the bigger clams uptake more fresh ones that are still alive. This variation in feeding behavior could have been caused by morphological constraints such as limited siphon length. The results suggest that manila clams greater than and below 19.76 mm in average have different feeding behavior and P. tricornutum and I. galbana were the two most preferred diets for manila clams cultured in IFHRI. The result of fatty acid composition of manila clams in relation to size or growth rate suggests that fast growing clams would have rapid metabolism of fatty acids not required by the animals and an accumulation of the essential fatty acids (PUFA). In addition, their higher energy requirement and more active state of development would further diminish lipid reserve of the species.

Structure of Manila Clam (Ruditapes philippinarum) Microbiota at the Organ Scale in Contrasting Sets of Individuals.

PubMed

Meisterhans, Guillaume; Raymond, Natalie; Girault, Emilie; Lambert, Christophe; Bourrasseau, Line; de Montaudouin, Xavier; Garabetian, Frédéric; Jude-Lemeilleur, Florence

2016-01-01

Marine invertebrate microbiota has a key function in host physiology and health. To date, knowledge about bivalve microbiota is poorly documented except public health concerns. This study used a molecular approach to characterize the microbiota associated with the bivalve Manila clam (Ruditapes philippinarum) by determining (1) the difference among organs either or not under the influence of host habitat, (2) small-scale variability of microbiota, and (3) the experimental response of the Manila clam microbiota submitted to different lateral transmissions. These questions were investigated by sampling two groups of individuals living in contrasting habitats and carrying out a transplant experiment. Manila clam microbiota (i.e., bacterial community structure) was determined at organ-scale (gills, gut, and a pool of remaining tissues) by capillary electrophoresis DNA fingerprinting (CE fingerprinting). The Manila clam microbiota structure differed among organs indicating a selection of Manila clam microbiota at organ scale. Habitat strongly influenced gill and gut microbiota. In contrast, microbiota associated with remaining tissues was similar between group individuals suggesting that these communities are mostly autochthonous, i.e., Manila clam specific. Transplant experiment showed that improving living condition did not induce any change in microbiota associated with remaining tissues. In contrast, the reduction in individual habitat quality led to individuals in declining health as strongly suggested by the increase in phagocytosis activity and decrease in condition index together with the change in internal organ microbiota. This study provides a first description of the Manila clam holobiont which can withstand disturbance and respond opportunistically to improved environmental conditions.

EFFECTS OF RECREATIONAL CLAM HARVESTING ON EELGRASS (ZOSTERA MARINA) AND ASSOCIATED INFAUNAL INVERTEBRATES: IN SITU MANIPULATIVE EXPERIMENTS

EPA Science Inventory

The effect of recreational clam harvesting on eelgrass (Zostera marina) was experimentally tested by raking or digging for clams in experimental 1-m2 plots located in a Yaquina Bay (Newport, OR) eelgrass meadow. After three monthly treatments, eelgrass measures of biomass, prima...

Purification and characterization of hemagglutinating proteins from Poker-chip Venus (Meretrix lusoria) and Corbicula clam (Corbicula fluminea).

PubMed

Cheng, Chin-Fu; Hung, Shao-Wen; Chang, Yung-Chung; Chen, Ming-Hui; Chang, Chen-Hsuan; Tsou, Li-Tse; Tu, Ching-Yu; Lin, Yu-Hsing; Liu, Pan-Chen; Lin, Shiun-Long; Wang, Way-Shyan

2012-01-01

Hemagglutinating proteins (HAPs) were purified from Poker-chip Venus (Meretrix lusoria) and Corbicula clam (Corbicula fluminea) using gel-filtration chromatography on a Sephacryl S-300 column. The molecular weights of the HAPs obtained from Poker-chip Venus and Corbicula clam were 358 kDa and 380 kDa, respectively. Purified HAP from Poker-chip Venus yielded two subunits with molecular weights of 26 kDa and 29 kDa. However, only one HAP subunit was purified from Corbicula clam, and its molecular weight was 32 kDa. The two Poker-chip Venus HAPs possessed hemagglutinating ability (HAA) for erythrocytes of some vertebrate animal species, especially tilapia. Moreover, HAA of the HAP purified from Poker-chip Venus was higher than that of the HAP of Corbicula clam. Furthermore, Poker-chip Venus HAPs possessed better HAA at a pH higher than 7.0. When the temperature was at 4°C-10°C or the salinity was less than 0.5‰, the two Poker-chip Venus HAPs possessed better HAA compared with that of Corbicula clam.

Infection by gymnophallid metacercariae enhances predation mortality of SW Atlantic stout razor clam Tagelus plebeius

NASA Astrophysics Data System (ADS)

Addino, Mariana; Lomovasky, Betina J.; Cremonte, Florencia; Iribarne, Oscar

2010-02-01

Parasite life cycles are frequently completed in different hosts, thus the parasites have its life cycle overlapped to natural trophic webs. The family Gymnophallidae (Class: Trematoda; Subclass: Digenea) includes digenetic parasites whose larval stages occur on bivalves and may affect bivalve predation by the final host of these parasites. In this work we evaluated: (a) if individuals of the razor clam Tagelus plebeius with higher parasite intensity suffer higher predation by the oystercatcher Haematopus palliatus and, (b) if there is any effect of parasite intensity on burrowing and escape behaviours of these razor clams which may enhance exposure to predators. Field experiments (oystercatcher exclusion vs. open access) showed that clams with higher parasite intensity support higher predation by oystercatchers, which suggests a higher consumption of more parasitized clams and thus, a more successful reproduction of parasites linked to the intensity of infection. However, clam burrowing and escape behaviours did not show differences related to different parasite intensity, suggesting that the commonly believed mechanisms are not responsible in this case.

Effects of tributyltin maternal and/or waterborne exposure on the embryonic development of the Manila clam, Ruditapes philippinarum.

PubMed

Inoue, Suguru; Oshima, Yuji; Usuki, Hironori; Hamaguchi, Masami; Hanamura, Yukio; Kai, Norihisa; Shimasaki, Yohei; Honjo, Tsuneo

2006-05-01

We examined the effect of tributyltin (TBT) on embryonic development of the Manila clam, Ruditapes philippinarum. In a maternal exposure test, 100 clams were exposed to TBT at measured concentrations of <0.01 (control), 0.061, 0.310, or 0.350 microg/l at 20-22 degrees C for 3 weeks, and the embryo developmental success (the ratio of normal D-larvae to all larvae) was measured. There was a significant negative correlation between embryo developmental success and TBT concentration in the female Manila clams (p < 0.001). These results indicated that TBT accumulated in the female clam decreased embryo developmental success. In a waterborne exposure test, fertilized eggs (4 h after fertilization) were exposed to TBT at measured concentrations of <0.01 (control), 0.062, 0.140, 0.320, or 0.640 microg/l for 23 h. Embryo developmental success was also significantly decreased in all TBT treatment groups compared with that in the control group. TBT accumulated in female adults and waterborne TBT clearly inhibit reproductive success of the clam.

Continuous water quality monitoring for the hard clam industry in Florida, USA.

PubMed

Bergquist, Derk C; Heuberger, David; Sturmer, Leslie N; Baker, Shirley M

2009-01-01

In 2000, Florida's fast-growing hard clam aquaculture industry became eligible for federal agricultural crop insurance through the US Department of Agriculture, but the responsibility for identifying the cause of mortality remained with the grower. Here we describe the continuous water quality monitoring system used to monitor hard clam aquaculture areas in Florida and show examples of the data collected with the system. Systems recording temperature, salinity, dissolved oxygen, water depth, turbidity and chlorophyll at 30 min intervals were installed at 10 aquaculture lease areas along Florida's Gulf and Atlantic coasts. Six of these systems sent data in real-time to a public website, and all 10 systems provided data for web-accessible archives. The systems documented environmental conditions that could negatively impact clam survival and productivity and identified biologically relevant water quality differences among clam aquaculture areas. Both the real-time and archived data were used widely by clam growers and nursery managers to make management decisions and in filing crop loss insurance claims. While the systems were labor and time intensive, we recommend adjustments that could reduce costs and staff time requirements.

Differential immune response in the hard clam (mercenaria mercenaria) against bacteria and the protistan pathogen QPX (quahog parasite unknown).

PubMed

Perrigault, Mickael; Allam, Bassem

2012-06-01

The immune response of the hard clam (quahog) Mercenaria mercenaria following challenge with live bacteria (Vibrio alginolyticus) and the protist QPX (Quahog Parasite Unknown) was investigated. The study also compared immune responses following QPX challenge in two different hard clam broodstocks exhibiting different degrees of susceptibility toward this parasite. Different immune and stress-related cellular and humoral factors were assessed including general hemocyte parameters (total and differential hemocyte counts, percentage of dead cells, reactive oxygen production, phagocytosis), parameters geared toward QPX (anti-QPX activity in plasma and hemocyte resistance to the cytotoxicity of QPX extracellular products). Two genes (ferritin and metallothionein) previously shown to be modulated following QPX exposure were molecularly characterized by rapid amplification of cDNA ends (RACE) and their transcription levels were determined in resistant and susceptible clams in response to QPX and bacterial challenge. Results indicated that both V. alginolyticus and QPX challenge triggered significant immune responses in clams with similar trends for most measured parameters. However, specific responses were observed for anti-QPX activity in plasma and hemocyte resistance to QPX products as well as ferritin and metallothionein expression according to each inoculum. Similarly, different response patterns were detected following QPX challenge in susceptible and resistant clam stocks. Resistant clams were able to elicit effective response against the parasite leading to the elimination of QPX and the restoration of constitutive immune status whereas QPX-susceptible clams triggered a strong immune modulation characterized by an acute phase response and associated acute phase protein but appeared to be less active in eliminating the parasite. These results suggest that different signaling pathways are triggered during V. alginolyticus and QPX challenge. Moreover, differences in the immune response toward QPX might be linked to the susceptibility or resistance of different clam stocks to the infection by this parasite. Copyright © 2012 Elsevier Ltd. All rights reserved.

Comparative study on the toxic effects of red tide flagellates Heterocapsa circularisquama and Chattonella marina on the short-necked clam (Ruditapes philippinarum).

PubMed

Kim, Daekyung; Choi, Kwang-Sik; Hong, Hyun-Ki; Jiang, Zedong; Zou, Yanan; Choi, Kyu-Sung; Yamasaki, Yasuhiro; Matsuyama, Yukihiko; Yamaguchi, Kenichi; Oda, Tatsuya

2011-01-01

Heterocapsa circularisquama showed much higher toxic effects on short-necked clams than Chattonella marina. Clams exposed to H. circularisquama exhibited morphological changes concomitant with an accumulation of mucus-like substances in the gills, a profound reduction in filtration activity, and lysosomal destabilization in hemocytes. Chattonella marina was less effective than H. circularisquama, and Heterocapsa triquetra was almost harmless in all these criteria. These results suggest that H. circularisquama exerted its lethal effect on short-necked clams through gill tissue damage and subsequent induction of physiological stress.

A theoretical individual-based model of Brown Ring Disease in Manila clams, Venerupis philippinarum

NASA Astrophysics Data System (ADS)

Paillard, Christine; Jean, Fred; Ford, Susan E.; Powell, Eric N.; Klinck, John M.; Hofmann, Eileen E.; Flye-Sainte-Marie, Jonathan

2014-08-01

An individual-based mathematical model was developed to investigate the biological and environmental interactions that influence the prevalence and intensity of Brown Ring Disease (BRD), a disease, caused by the bacterial pathogen, Vibrio tapetis, in the Manila clam (Venerupis (= Tapes, = Ruditapes) philippinarum). V. tapetis acts as an external microparasite, adhering at the surface of the mantle edge and its secretion, the periostracal lamina, causing the symptomatic brown deposit. Brown Ring Disease is atypical in that it leaves a shell scar that provides a unique tool for diagnosis of either live or dead clams. The model was formulated using laboratory and field measurements of BRD development in Manila clams, physiological responses of the clam to the pathogen, and the physiology of V. tapetis, as well as theoretical understanding of bacterial disease progression in marine shellfish. The simulation results obtained for an individual Manila clam were expanded to cohorts and populations using a probability distribution that prescribed a range of variability for parameters in a three dimensional framework; assimilation rate, clam hemocyte activity rate (the number of bacteria ingested per hemocyte per day), and clam calcification rate (a measure of the ability to recover by covering over the symptomatic brown ring deposit), which sensitivity studies indicated to be processes important in determining BRD prevalence and intensity. This approach allows concurrent simulation of individuals with a variety of different physiological capabilities (phenotypes) and hence by implication differing genotypic composition. Different combinations of the three variables provide robust estimates for the fate of individuals with particular characteristics in a population that consists of mixtures of all possible combinations. The BRD model was implemented using environmental observations from sites in Brittany, France, where Manila clams routinely exhibit BRD signs. The simulated annual cycle of BRD prevalence and intensity agrees with observed disease cycles in cultured clam populations from this region, with maximum disease prevalence and intensity occurring from December to April. Sensitivity analyses of modeled physiological processes showed that the level of hemocyte activity is the primary intrinsic determinant of recovery of infected clams. Simulations designed to investigate environmental effects on BRD suggested that the outcome of the host-parasite interaction is dependent on food supply (high values being favorable for the host) and temperature. Results of simulations illustrate the complex interaction of temperature effects on propagation and viability of the bacterium, on the phagocytic activity of the hemocytes, and on other physiological processes of the host clam. Simulations using 1 °C and 2 °C increases in temperature generally favored disease development, indicating that climate warming might favor the spread of BRD.

Wave actions and topography determine the small-scale spatial distribution of newly settled Asari clams Ruditapes philippinarum on a tidal flat

NASA Astrophysics Data System (ADS)

Nambu, Ryogen; Saito, Hajime; Tanaka, Yoshio; Higano, Junya; Kuwahara, Hisami

2012-03-01

There are many studies on spatial distributions of Asari clam Ruditapes philippinarum adults on tidal flats but few have dealt with spatial distributions of newly settled Asari clam (<0.3 mm shell length, indicative of settlement patterns) in relation to physical/topographical conditions on tidal flats. We examined small-scale spatial distributions of newly settled individuals on the Matsunase tidal flat, central Japan, during the low spring tides on two days 29th-30th June 2007, together with the shear stress from waves and currents on the flat. The characteristics of spatial distribution of newly settled Asari clam markedly varied depending on both of hydrodynamic and topographical conditions on the tidal flat. Using generalized linear models (GLMs), factors responsible for affecting newly settled Asari clam density and its spatial distribution were distinguished between sampling days, with "crest" sites always having a negative influence each on the density and the distribution on both sampling days. The continuously recorded data for the wave-current flows at the "crest" site on the tidal flat showed that newly settled Asari clam, as well as bottom sediment particles, at the "crest" site to be easily displaced. Small-scale spatial distributions of newly settled Asari clam changed with more advanced benthic stages in relation to the wave shear stress.

Microplastic Ingestion by Wild and Cultured Manila Clams (Venerupis philippinarum) from Baynes Sound, British Columbia.

PubMed

Davidson, Katie; Dudas, Sarah E

2016-08-01

Microplastics, plastic particles <5 mm, are an emerging concern in aquatic ecosystems. Because microplastics are small, they are available to many filter-feeding organisms, which can then be consumed by higher trophic level organisms, including humans. This study documents the quantity of microplastics present in wild and cultured Manila clams (Venerupis philippinarum). Three active shellfish farms and three reference beaches (i.e., non-shellfish farm sites) in Baynes Sound, British Columbia were chosen to examine the microplastic concentrations in wild and cultured Manila clams. Microplastics were isolated using a nitric acid digestion technique and enumerated from 54 clams (27 farmed and 27 non-farmed). Qualitative attributes, such as colour and microplastic type (fiber, fragment, or film) also were recorded. There was no significant difference (F = 1.29; df = 1,4; P = 0.289) between microplastic concentrations in cultured and wild clams. Microplastic concentrations ranged from 0.07 to 5.47 particles/g (from reference beach and shellfish farm clams, respectively). Fibers were the dominant microplastic (90 %); colourless and dark gray fibers were the most common colours observed (36 and 26 %, respectively). Although this indicates that microplastics are definitely present in seafood consumed by humans, shellfish aquaculture operations do not appear to be increasing microplastic concentrations in farmed clams in this region.

Long-Term Acclimation to Different Thermal Regimes Affects Molecular Responses to Heat Stress in a Freshwater Clam Corbicula Fluminea

NASA Astrophysics Data System (ADS)

Falfushynska, Halina I.; Phan, Tuan; Sokolova, Inna M.

2016-12-01

Global climate change (GCC) can negatively affect freshwater ecosystems. However, the degree to which freshwater populations can acclimate to long-term warming and the underlying molecular mechanisms are not yet fully understood. We used the cooling water discharge (CWD) area of a power plant as a model for long-term warming. Survival and molecular stress responses (expression of molecular chaperones, antioxidants, bioenergetic and protein synthesis biomarkers) to experimental warming (20-41 °C, +1.5 °C per day) were assessed in invasive clams Corbicula fluminea from two pristine populations and a CWD population. CWD clams had considerably higher (by ~8-12 °C) lethal temperature thresholds than clams from the pristine areas. High thermal tolerance of CWD clams was associated with overexpression of heat shock proteins HSP70, HSP90 and HSP60 and activation of protein synthesis at 38 °C. Heat shock response was prioritized over the oxidative stress response resulting in accumulation of oxidative lesions and ubiquitinated proteins during heat stress in CWD clams. Future studies should determine whether the increase in thermal tolerance in CWD clams are due to genetic adaptation and/or phenotypic plasticity. Overall, our findings indicate that C. fluminea has potential to survive and increase its invasive range during warming such as expected during GCC.

Hard clam walking: Active horizontal locomotion of adult Mercenaria mercenaria at the sediment surface and behavioral suppression after extensive sampling

PubMed Central

Europe, James R.; Tettelbach, Christian R. H.; Havelin, Jason; Rodgers, Brooke S.; Furman, Bradley T.; Velasquez, Marissa

2017-01-01

Locomotion of infaunal bivalve mollusks primarily consists of vertical movements related to burrowing; horizontal movements have only been reported for a few species. Here, we characterize hard clam walking: active horizontal locomotion of adults (up to 118 mm shell length, SL) of the commercially important species, Mercenaria mercenaria, at the sediment surface—a behavior only briefly noted in the literature. We opportunistically observed walking over a 10-yr period, at 9 different sites in the Peconic Bays, New York, USA, and tested several hypotheses for the underlying cause of this behavior through quantitative field sampling and reproductive analyses. Hard clam walking was exhibited by males and females at equal frequency, predominantly during June/July and October, when clams were in peak spawning condition. Extensive walking behavior appears to be cued by a minimum population density; we suggest it may be mediated by unidentified pheromone(s), infaunal pressure waves and/or other unidentified factors. There was no directionality exhibited by walking clams, but individuals in an area of extensive walking were highly aggregated and walking clams were significantly more likely to move toward a member of the opposite sex. Thus, we conclude that hard clam walking serves to aggregate mature individuals prior to spawning, thereby facilitating greater fertilization success. In the process of investigating this behavior, however, we apparently oversampled one population and reduced clam densities below the estimated minimum threshold density and, in so doing, suppressed extensive walking for a period of >3 years running. This not only reinforces the importance of detailed field investigations of species biology and ecology, even for those that are considered to be well studied, but also highlights the need for greater awareness of the potential for research activities to affect focal species behavior. PMID:28278288

Mechanical properties and microstructures of China low activation martensitic steel compared with JLF-1

NASA Astrophysics Data System (ADS)

Li, Y.; Huang, Q.; Wu, Y.; Nagasaka, T.; Muroga, T.

2007-08-01

The tensile and impact properties of CLAM steel are compared to those of JLF-1 steel. Tensile testing revealed that the ultimate and yield strengths of the CLAM steel are 670 MPa and 512 MPa at room temperature, and 373 MPa and 327 MPa at 873 K, respectively. These values are higher than those measured for JLF-1. The ductile-to-brittle transition temperature (DBTT) of CLAM was found to be 171 K using one-third size Charpy V-notch specimens, which is 16 K lower than that of JLF-1. Microstructural analysis by SEM and TEM indicated that the prior austenite grain size and lath width for CLAM are smaller than those for JLF-1. The finer grain and lath structure is considered to be one of the main reasons for the higher strength and lower DBTT of the CLAM steel.

Variation in benthic metabolism and nitrogen cycling across clam aquaculture sites.

PubMed

Murphy, Anna E; Nizzoli, Daniele; Bartoli, Marco; Smyth, Ashley R; Castaldelli, Giuseppe; Anderson, Iris C

2018-02-01

As bivalve aquaculture expands globally, an understanding of how it alters nitrogen is important to minimize impacts. This study investigated nitrogen cycling associated with clam aquaculture in the Sacca di Goro, Italy (Ruditapes philipinarum) and the Eastern Shore, USA (Mercenaria mercenaria). Ammonium and dissolved oxygen fluxes were positively correlated with clam biomass; R. philippinarum consumed ~6 times more oxygen and excreted ~5 times more NH 4 + than M. mercenaria. There was no direct effect of clams on denitrification or dissimilatory nitrate reduction to ammonium (DNRA); rather, nitrate availability controlled the competition between these microbial pathways. Highest denitrification rates were measured at sites where both water column nitrate and nitrification were elevated due to high densities of a burrowing amphipod (Corophium sp.). DNRA exceeded denitrification where water column nitrate was low and nitrification was suppressed in highly reduced sediment, potentially due to low hydrologic flow and high clam densities. Copyright © 2017 Elsevier Ltd. All rights reserved.

Adaptive Patterns of Mitogenome Evolution Are Associated with the Loss of Shell Scutes in Turtles.

PubMed

Escalona, Tibisay; Weadick, Cameron J; Antunes, Agostinho

2017-10-01

The mitochondrial genome encodes several protein components of the oxidative phosphorylation (OXPHOS) pathway and is critical for aerobic respiration. These proteins have evolved adaptively in many taxa, but linking molecular-level patterns with higher-level attributes (e.g., morphology, physiology) remains a challenge. Turtles are a promising system for exploring mitochondrial genome evolution as different species face distinct respiratory challenges and employ multiple strategies for ensuring efficient respiration. One prominent adaptation to a highly aquatic lifestyle in turtles is the secondary loss of keratenized shell scutes (i.e., soft-shells), which is associated with enhanced swimming ability and, in some species, cutaneous respiration. We used codon models to examine patterns of selection on mitochondrial protein-coding genes along the three turtle lineages that independently evolved soft-shells. We found strong evidence for positive selection along the branches leading to the pig-nosed turtle (Carettochelys insculpta) and the softshells clade (Trionychidae), but only weak evidence for the leatherback (Dermochelys coriacea) branch. Positively selected sites were found to be particularly prevalent in OXPHOS Complex I proteins, especially subunit ND2, along both positively selected lineages, consistent with convergent adaptive evolution. Structural analysis showed that many of the identified sites are within key regions or near residues involved in proton transport, indicating that positive selection may have precipitated substantial changes in mitochondrial function. Overall, our study provides evidence that physiological challenges associated with adaptation to a highly aquatic lifestyle have shaped the evolution of the turtle mitochondrial genome in a lineage-specific manner. © The Author 2017. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

A Novel Dynamic Expression of vasa in Male Germ Cells during Spermatogenesis in the Chinese Soft-Shell Turtle (Pelidiscus sinensis).

PubMed

Li, Wei; Zhang, Piaoyi; Wu, Xuling; Zhu, Xinping; Xu, Hongyan

2017-05-01

vasa gene encodes a highly conserved DEAD-box RNA helicase, required for germ cell development across animal kingdom. Vasa mutations cause male infertility in mammals. It has been widely used as a biomarker for studying animal fertility or manipulating germ cells in organisms. However, in reptilians, the functions of vasa gene involved in germ cell differentiation are largely unclear; this hampers the development of biological techniques and the improvement of the productivity in these species. Here a vasa cDNA was isolated in Chinese soft-shell turtle and it predicts a protein of 691 amino acid residues, which is 72%, 69%, 58%, 59%, and 54-56% identical to its homolog from mouse, platypus, frog, chicken, and fish, respectively, and named as PsVasa. The Psvasa mRNA was detected exclusively in the gonads of both sexes by RT-PCR. Chromogenic RNA in situ hybridization revealed that the Psvasa mRNA was restricted to germ cells in the testis: The psvasa mRNA is undetectable in resting spermatogonia, appears in proliferating spermatogonia, and becomes abundant in spermatocytes and detectable in spermatozoa. Immunofluorescence staining demonstrated that the PsVasa in the testis is also restricted to the germ cells, rich in spermatocytes and elongated spermatids but hardly detectable in spermatogonia and spermatozoa. Taken together, Psvasa is potentially a reliable germ cell marker in the Chinese soft-shell turtle; its RNA expression could distinguish the different spermatogenic stages of germ cells. These findings shed new insights into understanding the evolutionary conservations and divergences of vasa gene's functions in male germ cell differentiation in metazoans. © 2017 Wiley Periodicals, Inc.

Hydrodynamics of larval settlement: The influence of turbulent stress events at potential recruitment sites

USGS Publications Warehouse

Crimaldi, John P.; Thompson, Janet K.; Rosman, Johanna H.; Lowe, Ryan J.; Koseff, Jeffrey R.

2002-01-01

We describe a laboratory investigation into the effect of turbulent hydrodynamic stresses on clam larvae in the settlement phase of the recruitment process. A two-component laser-Doppler anemometer (LDA) was used to measure time histories of the instantaneous turbulence structure at potential recruitment sites within reconstructed beds of the adult Asian clam, Potamocorbula amurensis. Measurements were made for two flow speeds over beds with three different clam densities and two different clam heights. We analyze the statistical effect of the turbulence on the larval flux to the bed and on the probability of successful anchoring to the substrate. It is shown that the anchoring probability depends on the nature of the instantaneous stress events rather than on mean stresses. The instantaneous turbulence structure near the bed is altered by the flow rate and the spacing and height of adult clams living in the substrate. The ability to anchor quickly is therefore extremely important, since the time sequence of episodic turbulent stress events influences larval settlement success. The probability of successful larval settlement is predicted to decrease as the spacing between adults decreases, implying that the hydrodynamics impose negative feedback on clam bed aggregation dynamics.

Purification and Characterization of Hemagglutinating Proteins from Poker-Chip Venus (Meretrix lusoria) and Corbicula Clam (Corbicula fluminea)

PubMed Central

Cheng, Chin-Fu; Hung, Shao-Wen; Chang, Yung-Chung; Chen, Ming-Hui; Chang, Chen-Hsuan; Tsou, Li-Tse; Tu, Ching-Yu; Lin, Yu-Hsing; Liu, Pan-Chen; Lin, Shiun-Long; Wang, Way-Shyan

2012-01-01

Hemagglutinating proteins (HAPs) were purified from Poker-chip Venus (Meretrix lusoria) and Corbicula clam (Corbicula fluminea) using gel-filtration chromatography on a Sephacryl S-300 column. The molecular weights of the HAPs obtained from Poker-chip Venus and Corbicula clam were 358 kDa and 380 kDa, respectively. Purified HAP from Poker-chip Venus yielded two subunits with molecular weights of 26 kDa and 29 kDa. However, only one HAP subunit was purified from Corbicula clam, and its molecular weight was 32 kDa. The two Poker-chip Venus HAPs possessed hemagglutinating ability (HAA) for erythrocytes of some vertebrate animal species, especially tilapia. Moreover, HAA of the HAP purified from Poker-chip Venus was higher than that of the HAP of Corbicula clam. Furthermore, Poker-chip Venus HAPs possessed better HAA at a pH higher than 7.0. When the temperature was at 4°C–10°C or the salinity was less than 0.5‰, the two Poker-chip Venus HAPs possessed better HAA compared with that of Corbicula clam. PMID:22666167

Toxicity of a traditional molluscicide to asian clam veligers

USGS Publications Warehouse

Layhee, Megan J.; ,; Miho Yoshioka,; Bahram Farokhkish,; ,; Gross, Jackson A.; Sepulveda, Adam J.

2014-01-01

Aquaculture and hatchery industries are in need of effective control methods to reduce the risk of spreading aquatic invasive species, such as the Asian clam Corbicula fluminea, through aquaculture and hatchery activities. The planktonic nature of Asian clam veligers enables this life stage to enter water-based infrastructure undetected, including hatchery trucks used to stock fish. Once in hatchery trucks, veligers can disperse overland and establish in previously uninvaded habitats. As a result, there is a need to develop techniques that result in veliger mortality but do not harm fish. In September 2012, we conducted laboratory trials to determine if a molluscicide (750 mg/L potassium chloride and 25 mg/L formalin) commonly used to kill zebra mussel (Dreissena polymorpha) veligers in hatchery trucks can also effectively kill Asian clam veligers. We exposed Asian clam veligers to this molluscicide for 1, 3, and 5 h in each of two water types: deionized water and filtered lake water. We found ,20% mortality at the 1-h exposure period and 100% mortality at both the 3-h and 5-h exposure periods, regardless of water type. This laboratory study represents an important step toward reducing the spread of Asian clams by aquaculture facilities.

Impediment to symbiosis establishment between giant clams and Symbiodinium algae due to sterilization of seawater.

PubMed

Kurihara, Takeo; Yamada, Hideaki; Inoue, Ken; Iwai, Kenji; Hatta, Masayuki

2013-01-01

To survive the juvenile stage, giant clam juveniles need to establish a symbiotic relationship with the microalgae Symbiodinium occurring in the environment. The percentage of giant clam juveniles succeeding in symbiosis establishment ("symbiosis rate") is often low, which is problematic for seed producers. We investigated how and why symbiosis rates vary, depending on whether giant clam seeds are continuously reared in UV treated or non treated seawater. Results repeatedly demonstrated that symbiosis rates were lower for UV treated seawater than for non treated seawater. Symbiosis rates were also lower for autoclaved seawater and 0.2-µm filtered seawater than for non treated seawater. The decreased symbiosis rates in various sterilized seawater suggest the possibility that some factors helping symbiosis establishment in natural seawater are weakened owing to sterilization. The possible factors include vitality of giant clam seeds, since additional experiments revealed that survival rates of seeds reared alone without Symbiodinium were lower in sterilized seawater than in non treated seawater. In conclusion, UV treatment of seawater was found to lead to decreased symbiosis rates, which is due possibly to some adverse effects common to the various sterilization techniques and relates to the vitality of the giant clam seeds.

Fatty acid composition of symbiotic zooxanthellae in relation to their hosts.

PubMed

Bishop, D G; Kenrick, J R

1980-10-01

Gymnodinoid dinoflagellate symbionts, commonly referred to as zooxanthellae, are widely distributed among marine invertebrates. It has been assumed that they represent only one species,Gymnodinium microadriaticum. The fatty acid composition of total lipids and galactolipids of zooxanthellae isolated from 8 species of corals, 3 species of clams and a foraminiferan have been analyzed and found to vary according to the host. For example, the content of eicosapentaenoic acid in clam zooxanthellae monogalactosyldiacylglycerol was less than 2%, whereas in the same lipid from coral zooxanthellae, the content ranged from 9 to 22%. Corresponding values for the acid in digalactosyl-diacylglycerol were 1-8% from clam zooxanthellae and 23-40% from coral zooxanthellae. Coral zooxanthellae monogalactosyldiacylglycerol contain higher levels of octadecatetraenoic acid than are found in digalactosyldiacylglycerol, whereas the reverse is true in clam zooxanthellae. The fatty acid composition of the lipids of an axenic culture of zooxanthellae isolated from the clamTridacna maxima are similar to those of cells freshly isolated from the host. The results suggest either that the host is capable of affecting the fatty acid metabolism of the symbiont or that different strains of zooxanthellae occur in corals and clams.

Mitogenomic analysis of the genus Panthera.

PubMed

Wei, Lei; Wu, Xiaobing; Zhu, Lixin; Jiang, Zhigang

2011-10-01

The complete sequences of the mitochondrial DNA genomes of Panthera tigris, Panthera pardus, and Panthera uncia were determined using the polymerase chain reaction method. The lengths of the complete mitochondrial DNA sequences of the three species were 16990, 16964, and 16773 bp, respectively. Each of the three mitochondrial DNA genomes included 13 protein-coding genes, 22 tRNA, two rRNA, one O(L)R, and one control region. The structures of the genomes were highly similar to those of Felis catus, Acinonyx jubatus, and Neofelis nebulosa. The phylogenies of the genus Panthera were inferred from two combined mitochondrial sequence data sets and the complete mitochondrial genome sequences, by MP (maximum parsimony), ML (maximum likelihood), and Bayesian analysis. The results showed that Panthera was composed of Panthera leo, P. uncia, P. pardus, Panthera onca, P. tigris, and N. nebulosa, which was included as the most basal member. The phylogeny within Panthera genus was N. nebulosa (P. tigris (P. onca (P. pardus, (P. leo, P. uncia)))). The divergence times for Panthera genus were estimated based on the ML branch lengths and four well-established calibration points. The results showed that at about 11.3 MYA, the Panthera genus separated from other felid species and then evolved into the several species of the genus. In detail, N. nebulosa was estimated to be founded about 8.66 MYA, P. tigris about 6.55 MYA, P. uncia about 4.63 MYA, and P. pardus about 4.35 MYA. All these estimated times were older than those estimated from the fossil records. The divergence event, evolutionary process, speciation, and distribution pattern of P. uncia, a species endemic to the central Asia with core habitats on the Qinghai-Tibetan Plateau and surrounding highlands, mostly correlated with the geological tectonic events and intensive climate shifts that happened at 8, 3.6, 2.5, and 1.7 MYA on the plateau during the late Cenozoic period.

Manila clams from Hg polluted sediments of Marano and Grado lagoons (Italy) harbor detoxifying Hg resistant bacteria in soft tissues

DOE Office of Scientific and Technical Information (OSTI.GOV)

Baldi, Franco, E-mail: baldi@unive.it; Gallo, Michele; Marchetto, Davide

2013-08-15

A mechanism of mercury detoxification has been suggested by a previous study on Hg bioaccumulation in Manila clams (Ruditapes philippinarum) in the polluted Marano and Grado lagoons and in this study we demonstrate that this event could be partly related to the detoxifying activities of Hg-resistant bacteria (MRB) harbored in clam soft tissues. Therefore, natural clams were collected in six stations during two different periods (winter and spring) from Marano and Grado Lagoons. Siphons, gills and hepatopancreas from acclimatized clams were sterile dissected to isolate MRB. These anatomical parts were glass homogenized or used for whole, and they were lyingmore » on a solid medium containing 5 mg l{sup −1} HgCl{sub 2} and incubated at 30 °C. A total of fourteen bacterial strains were isolated and were identified by 16S rDNA sequencing and analysis, revealing that strains were representative of eight bacterial genera, four of which were Gram-positive (Enterococcus, Bacillus, Jeotgalicoccus and Staphylococcus) and other four were Gram-negative (Stenotrophomonas, Vibrio, Raoultella and Enterobacter). Plasmids and merA genes were found and their sequences determined. Fluorescence in situ hybridization (FISH) technique shows the presence of Firmicutes, Actinobacteria and Gammaproteobacteria by using different molecular probes in siphon and gills. Bacterial clumps inside clam flesh were observed and even a Gram-negative endosymbiont was disclosed by transmission electronic microscope inside clam cells. Bacteria harbored in cavities of soft tissue have mercury detoxifying activity. This feature was confirmed by the determination of mercuric reductase in glass-homogenized siphons and gills. -- Highlights: ► We isolated Gram-positive and Gram-negative Hg resistant strains from soft tissues of Ruditapes philippinarum. ► We identify 14 mercury resistant strains by 16S rRNA gene sequences. ► Bacteria in siphon and gill tissues of clams were observed by TEM and identified with different FISH probes. ► Hg-reductase (MerA) activity in glass homogenized clam tissues was also determined.« less

Impact of High Hydrostatic Pressure on the Shelling Efficacy, Physicochemical Properties, and Microstructure of Fresh Razor Clam (Sinonovacula constricta).

PubMed

Xuan, Xiao-Ting; Cui, Yan; Lin, Xu-Dong; Yu, Jing-Feng; Liao, Xiao-Jun; Ling, Jian-Gang; Shang, Hai-Tao

2018-02-01

The effects of high hydrostatic pressure (HHP) treatments (200, 300, and 400 MPa for 1, 3, 5 and 10 min) on the shelling efficacy (the rate of shelling, the rate of integrity and yield of razor clam meat) and the physicochemical (drip loss, water-holding capacity, pH, conductivity, lipid oxidation, Ca 2+ -ATPase activity, myofibrillar protein content), microbiological (total viable counts) and microstructural properties of fresh razor clam (Sinonovacula constricta) were investigated. HHP treatments significantly (P < 0.05) increased shelling efficiency, water-holding capacity, pH, conductivity, and lipid oxidation, and HHP-treated razor clam showed lower levels of microorganisms and drip loss than untreated razor clam. Levels of thiobarbituric acid reacting substances (TBA) in HHP-treated razor clam were greatly increased (up to 0.93 ± 0.09 mg MDA/kg at 400 MPa for 10 min) which was caused by the formation of hydroperoxides during HHP treatment. All HHP treatments were found to have adverse effects on the activity of Ca 2+ -ATPase and the content of myofibrillar protein (MP), which might be due to the substantial damage to the tertiary structure of proteins at high pressure. Moreover, scanning electron microscopy (SEM) revealed the compaction of the muscle fibers and a decrease in the extracellular space with increasing pressure and holding time. This phenomenon was mainly correlated with the compaction of muscle fibers and denaturation, aggregation, and gelation of muscle protein triggered by high pressure. In general, HHP could be applied as a safe and effective nonthermal technology to produce high-quality shelled razor clam. High hydrostatic pressure (HHP) is now well known as a nonthermal processing technology and becoming increasingly acknowledged. However, it has not been widely applied to shell seafood due to its uncertain influence on its quality and shelling property. This study could provide valuable information regarding the shelling efficacy, physicochemical properties, and microstructure of razor clam treated by HHP. And it demonstrated that HHP showed a positive impact on quality of razor clam treated by HHP. © 2018 Institute of Food Technologists®.

Genome sequence of Fusarium isolate MYA-4552 from the midgut of Anoplophora glabripennis, an invasive, wood-boring beetle

USDA-ARS?s Scientific Manuscript database

The Fusarium solani species complex (FSSC) is a clade of environmentally ubiquitous fungi that includes plant, animal and insect associates. Here we report the draft genome sequence of the undescribed species FSSC 6 (isolate MYA-4552), housed in the gut of the wood-boring cerambycid beetle Anoplopho...

Nutrients and clam contamination by Escherichia coli in a meso-tidal coastal lagoon: Seasonal variation in counter cycle to external sources.

PubMed

Botelho, Maria João; Soares, Florbela; Matias, Domitília; Vale, Carlos

2015-07-15

The clam Ruditapes decussatus was transplanted from a natural recruitment area of Ria Formosa to three sites, surveyed for nutrients in water and sediments. Specimens were sampled monthly for determination of Escherichia coli, condition index and gonadal index. Higher nutrient values in low tide reflect drainage, anthropogenic sources or sediment regeneration, emphasising the importance of water mixing in the entire lagoon driven by the tide. Despite the increase of effluent discharges in summer due to tourism, nutrient concentrations and E. coli in clams were lower in warmer periods. The bactericide effect of temperature and solar radiation was better defined in clams from the inlet channel site than from sites closer to urban effluents. High temperature in summer and torrential freshwater inputs to Ria Formosa may anticipate climate change scenarios for south Europe. Seasonal variation of nutrients and clam contamination may thus point to possible alterations in coastal lagoons and their ecosystem services. Copyright © 2015. Published by Elsevier Ltd.

Elimination of Escherichia coli and Salmonella in Clam by Using Zeolite in a Station of Depuration.

PubMed

Gdoura, Morsi; Sellami, Hanen; Khannous, Lamia; Ketata, Najib; Neila, Idriss Ben; Traore, Al Ibrahim; Chekir, Zouhair; Gdoura, Radhouane

2017-09-01

  The application of natural zeolite for water and wastewater treatment has been carried out and is still a promising technique in environmental cleaning processes. Natural zeolite can be used to improve the purification process of clams (Ruditapes decussatus). Thus, our study aimed at improving the clam purification system in order to reduce Escherichia coli and eliminate Salmonella in samples artificially contaminated with this bacterium using a natural zeolite to replace the biological filter. The results showed that zeolite used in a depuration system improved the clam purification process. Moreover, natural zeolite exhibited high performance in the adsorption of bacteria and allowed to reduce the Escherichia coli abundance in 24 h, thus ensuring purified clams conformity with the ISO 16649-3 standard. These results indicate the beneficial effects of using zeolite in the adsorption of bacteria and the reduction in the abundance of Escherichia coli and set the Salmonella from marine organisms.

Effects of tributyltin on the MFO system of the clam Ruditapes decussata: a laboratory and field approach.

PubMed

Solé, M

2000-01-01

The in vivo interaction of tributyltin (TBT) with the microsomal monooxygenase (MFO) system of the clam Ruditapes decussata was studied. For this purpose, two experiments were designed: (1) a laboratory exposure to increasing nominal doses of TBT (90, 454 and 2268 ng l(-1)) for 1 week and (2) a clam transplant from a clean area to an organotin polluted marina for periods of up to 5 weeks. Chemical analysis of organotins in clam tissue was used to relate TBT body burden to the MFO response. Neither the laboratory nor the field transplant experiment showed any significant TBT effect on the clam's digestive gland MFO components (cytochrome P450 and cytochrome b(5)). However, a significant elevation in the NADPH cytochrome (P450) reductases at the low and medium TBT doses in the laboratory and a significant decrease in NADH cytochrome (b(5)) reductases, 1 week after the field transplant, was observed with further recovery to control levels thereafter.

Assessing benthic ecological impacts of bottom aquaculture using macrofaunal assemblages.

PubMed

Wang, Lu; Fan, Ying; Yan, Cunjun; Gao, Chunzi; Xu, Zhaodong; Liu, Xiaoshou

2017-01-15

Bottom aquaculture of bivalves is a high-yield culture method, which is increasingly adopted by shellfish farmers worldwide. However, the effects of bottom aquaculture on benthic ecosystems are not well-known. Manila clam (Ruditapes philippinarum), is a widely distributed bottom aquaculture mollusk species. To assess the ecological impacts of Manila clam bottom aquaculture, clams and other macrofaunal assemblages were investigated during four cruises (July and November 2011, February and May 2012) at six sampling sites in Jiaozhou Bay, China. Correlation analysis showed that macrofaunal assemblages had significant negative correlations with the abundance of Manila clams. However, according to the results of several biotic indices, a low disturbance was detected by Manila clam bottom aquaculture. In conclusion, AMBI (AZTI'S Marine Biotic Index) and M-AMBI (Multivariate AZTI Marine Biotic Index) indices are more suitable for assessing ecological quality than polychaete/amphipod ratios when the disturbance is slight, such as at a bivalve bottom aquaculture. Copyright © 2016 Elsevier Ltd. All rights reserved.

Corbicula fluminea (Bivalvia: Corbiculidae): a possible second molluscan intermediate host of Echinostoma cinetorchis (Trematoda: Echinostomatidae) in Korea

PubMed Central

Jung, Younghun; Park, Yun-Kyu; Hwang, Myung-Gi; Soh, Chin-Thack

2001-01-01

More than 1,500 clams of Corbicula fluminea, the most favorable food source of freshwater bivalves in Korea, were collected from 5 localities to examine cercarial and metacercarial infection with Echinostoma cinetorchis. Although 3 clams infected with suspicious E. cinetorchis metacercariae out of 200 specimens collected at Kangjin, Chollanam-do were detected, no cercarial and metacercarial infections with E. cinetorchis were observed in field-collected Corbicula specimens. In the susceptibility experiments with laboratory-reared clams, those infected with miracidia of E. cinetorchis did not release their cercariae up to 60 days after infection. To confirm the identity of second intermediate host of E. cinetorchis experimentally, a total of 30 clams were exposed to the cercariae from Segmentina hemisphaerula that had been infected with miracidia of E. cinetorchis. The clams were susceptible to cercariae of E. cinetorchis with an infection rate of 93.3%. Metacercariae from clams taken more than 7 days after cercarial exposure were fed to rats (S/D strain), and adult worms of E. cinetorchis, characterized by 37-38 collar spines on the head crown, were recovered from the ileocecal regions. This is the first report of C. fluminea as a possible second intermediate host of E. cinetorchis. PMID:11775336

Facultative parasitism by the bivalve Kurtiella pedroana in the sand crab Emerita analoga

USGS Publications Warehouse

Bhaduri, Ritin; Valentich-Scott, Paul; Hilgers, Mark; Singh, Rajvir; Hickman, Mikaila; Lafferty, Kevin D.

2017-01-01

It is rare that an organism capable of independent or commensalistic existence can also become endoparasitic on a host. In this study, we documented a potential step toward parasitism in the commensal clam Kurtiella pedroana (Bivalvia: Galeommatoidea). Galeommatoideans are known commensals of various invertebrates, including crustaceans. Emerita analoga (Decapoda: Hippidae) is an abundant intertidal decapod inhabiting sandy beaches of the Pacific coast of North and South America. Crabs collected from Monterey Bay, California, were measured and examined externally and internally for associated molluscs. Out of the 520 crabs, 37 large female individuals harbored 49 bivalves (prevalence of 7.11% and mean intensity of 1.3). Forty-one ectocommensal clams were either inside the crab's branchial chambers or on their lateroventral surfaces, and were attached by byssal threads. Our key finding was eight clams that lacked byssal threads and were living in the hemocoel. These internal clams were significantly smaller than the ectocommensals. Because these internal clams lacked access to their normal food, we hypothesize they might have fed on their host's hemolymph as would a parasite. This clam species likely can't reproduce inside its host, implying that endoparasitism is a dead-end state for K. pedroana. Facultative parasitism in a free-living or an ectocommensal is uncommon and suggests a pathway to parasitism.

Impediment to Symbiosis Establishment between Giant Clams and Symbiodinium Algae Due to Sterilization of Seawater

PubMed Central

Kurihara, Takeo; Yamada, Hideaki; Inoue, Ken; Iwai, Kenji; Hatta, Masayuki

2013-01-01

To survive the juvenile stage, giant clam juveniles need to establish a symbiotic relationship with the microalgae Symbiodinium occurring in the environment. The percentage of giant clam juveniles succeeding in symbiosis establishment (“symbiosis rate”) is often low, which is problematic for seed producers. We investigated how and why symbiosis rates vary, depending on whether giant clam seeds are continuously reared in UV treated or non treated seawater. Results repeatedly demonstrated that symbiosis rates were lower for UV treated seawater than for non treated seawater. Symbiosis rates were also lower for autoclaved seawater and 0.2-µm filtered seawater than for non treated seawater. The decreased symbiosis rates in various sterilized seawater suggest the possibility that some factors helping symbiosis establishment in natural seawater are weakened owing to sterilization. The possible factors include vitality of giant clam seeds, since additional experiments revealed that survival rates of seeds reared alone without Symbiodinium were lower in sterilized seawater than in non treated seawater. In conclusion, UV treatment of seawater was found to lead to decreased symbiosis rates, which is due possibly to some adverse effects common to the various sterilization techniques and relates to the vitality of the giant clam seeds. PMID:23613802

Phylogenetic diversity and functional characterization of the Manila clam microbiota: a culture-based approach.

PubMed

Leite, Laura; Jude-Lemeilleur, Florence; Raymond, Natalie; Henriques, Isabel; Garabetian, Frédéric; Alves, Artur

2017-09-01

According to the hologenome theory, the microbiota contributes to the fitness of the holobiont having an important role in its adaptation, survival, development, health, and evolution. Environmental stress also affects the microbiota and its capability to assist the holobiont in coping with stress factors. Here, we analyzed the diversity of cultivable bacteria associated with Manila clam tissues (mantle, gills, hemolymph) in two non-contaminated sites (Portugal and France) and one metal-contaminated site (Portugal). A total of 240 isolates were obtained. Representative isolates (n = 198) of the overall diversity were identified by 16S rDNA sequencing and subjected to functional characterization. Isolates affiliated with Proteobacteria, Actinobacteria, Firmicutes, and Bacteroidetes. Proteobacteria (mostly Pseudoalteromonadaceae and Vibrionaceae) were dominant in non-contaminated sites while Actinobacteria (mostly Microbacteriaceae) dominated in the metal-contaminated site. The main factor affecting the microbiota composition was contamination. No significant differences were observed between clam tissues and geographic regions. Several isolates tested positive for antibacterial activity, biofilm formation, protease, and siderophore production. The results show that the Manila clam harbors a diverse microbiota that may contribute to clam protection and overall fitness, as well as to its adaptation to stressful environments. In addition, the Manila clam microbiota is revealed as a promising source of novel probiotics with potential application in aquaculture.

Freshwater Clams (Pilsbryoconcha Exilis) as an Potential Local Mineral Sources in Weaning Food to Overcome Stunting in Grobogan, Central Java, Indonesia

NASA Astrophysics Data System (ADS)

Putri, S. R.; Anjani, Gemala; Wijayanti, Hartanti Sandi; Nuryanto

2018-02-01

Based on a preliminary survey in Grobogan Central Java, one of the local food that has a prospective nutrient content developed is freshwater clams. Results of PSG report in 2015, especially in Grobogan district with stunting problem of 31.5% consisting of 7.2% very short and 24.1% short. From the stunting event factor, the role of weaning food in the form of baby porridge is the most important component in the fulfillment of infant nutrition. The research is divided into two stages of the research is the initial stage to make the formulation process by way of freshwater clams, nutrient analysis, and formula calculation. The second stage is the process of formulation weaning food by way of formula making, nutrient analysis, and acceptance test of weaning food on the baby slurry is substituted by the freshwater clams. The influence statistically different substitution of freshwater clams on protein content (p=0.014), fat (p=0,041), carbohydrate (p=0,039), water (p=0,0001), ash (p=0.0001), iron (p=0.0001), and zinc (p=0.0001). There is no influence substitution of freshwater clams on energy content (p=0,129) and fiber (p=0,225). The percentage of favorite level on the acceptance test of color (p=0,005) and taste (p=0,006) was statistically different, but there was no difference flavour (p=0,913) and texture (p=0,198). freshwater clams flour is rich in iron and zinc content, so it can serve as local food, especially in Grobogan Central Java as a stunting handling. Obtained from the results of several formulations substituted of freshwater clams in formulation 2 is a formula that can meet the standards of KEPMENKES except on the content of protein and moisture content. Formula 2 acceptable to the panelists, except for the assessment of taste.

Giant Clams and Rising CO2: Light May Ameliorate Effects of Ocean Acidification on a Solar-Powered Animal

PubMed Central

Watson, Sue-Ann

2015-01-01

Global climate change and ocean acidification pose a serious threat to marine life. Marine invertebrates are particularly susceptible to ocean acidification, especially highly calcareous taxa such as molluscs, echinoderms and corals. The largest of all bivalve molluscs, giant clams, are already threatened by a variety of local pressures, including overharvesting, and are in decline worldwide. Several giant clam species are listed as ‘Vulnerable’ on the IUCN Red List of Threatened Species and now climate change and ocean acidification pose an additional threat to their conservation. Unlike most other molluscs, giant clams are ‘solar-powered’ animals containing photosynthetic algal symbionts suggesting that light could influence the effects of ocean acidification on these vulnerable animals. In this study, juvenile fluted giant clams Tridacna squamosa were exposed to three levels of carbon dioxide (CO2) (control ~400, mid ~650 and high ~950 μatm) and light (photosynthetically active radiation 35, 65 and 304 μmol photons m-2 s-1). Elevated CO2 projected for the end of this century (~650 and ~950 μatm) reduced giant clam survival and growth at mid-light levels. However, effects of CO2 on survival were absent at high-light, with 100% survival across all CO2 levels. Effects of CO2 on growth of surviving clams were lessened, but not removed, at high-light levels. Shell growth and total animal mass gain were still reduced at high-CO2. This study demonstrates the potential for light to alleviate effects of ocean acidification on survival and growth in a threatened calcareous marine invertebrate. Managing water quality (e.g. turbidity and sedimentation) in coastal areas to maintain water clarity may help ameliorate some negative effects of ocean acidification on giant clams and potentially other solar-powered calcifiers, such as hard corals. PMID:26083404

Giant Clams and Rising CO2: Light May Ameliorate Effects of Ocean Acidification on a Solar-Powered Animal.

PubMed

Watson, Sue-Ann

2015-01-01

Global climate change and ocean acidification pose a serious threat to marine life. Marine invertebrates are particularly susceptible to ocean acidification, especially highly calcareous taxa such as molluscs, echinoderms and corals. The largest of all bivalve molluscs, giant clams, are already threatened by a variety of local pressures, including overharvesting, and are in decline worldwide. Several giant clam species are listed as 'Vulnerable' on the IUCN Red List of Threatened Species and now climate change and ocean acidification pose an additional threat to their conservation. Unlike most other molluscs, giant clams are 'solar-powered' animals containing photosynthetic algal symbionts suggesting that light could influence the effects of ocean acidification on these vulnerable animals. In this study, juvenile fluted giant clams Tridacna squamosa were exposed to three levels of carbon dioxide (CO2) (control ~400, mid ~650 and high ~950 μatm) and light (photosynthetically active radiation 35, 65 and 304 μmol photons m-2 s-1). Elevated CO2 projected for the end of this century (~650 and ~950 μatm) reduced giant clam survival and growth at mid-light levels. However, effects of CO2 on survival were absent at high-light, with 100% survival across all CO2 levels. Effects of CO2 on growth of surviving clams were lessened, but not removed, at high-light levels. Shell growth and total animal mass gain were still reduced at high-CO2. This study demonstrates the potential for light to alleviate effects of ocean acidification on survival and growth in a threatened calcareous marine invertebrate. Managing water quality (e.g. turbidity and sedimentation) in coastal areas to maintain water clarity may help ameliorate some negative effects of ocean acidification on giant clams and potentially other solar-powered calcifiers, such as hard corals.

The after-effects of hypoxia exposure on the clam Ruditapes philippinarum in Omaehama beach, Japan

NASA Astrophysics Data System (ADS)

Kozuki, Yasunori; Yamanaka, Ryoichi; Matsushige, Maya; Saitoh, Azusa; Otani, Sosuke; Ishida, Tatsunori

2013-01-01

A number of reports describe the impact of hypoxic conditions on the manila clam Ruditapes philippinarum, but few deal with the after-effects of hypoxia on this clam species. Exposure experiments were carried out on the manila clam under conditions of low dissolved oxygen (DO, 0.5 mg/L). In the first exposure experiment (i.e., 3 days of hypoxia), a substantial change in mortality rate, glycogen content, and clearance rate was not observed in the period following the hypoxia. However, in the second exposure experiment (i.e., an additional 3 days of hypoxia following recovery from the first exposure), the mortality rate was significantly increased relative to that of the first exposure experiment, and glycogen content underwent a long-term decline. At the end of the experimental period, subsequent to the 2 exposures to hypoxia, the clearance rate had decreased until it was 77% of that of the normal manila clams unexposed to hypoxia. Moreover, the clearance rate was unable to recover following the second exposure. Thus, when the manila clams were repeatedly exposed to hypoxic conditions, the surviving individuals showed a residual disability, as reflected in the increased mortality and unrecovered clearance capacity. Afterward, the after-effects of hypoxia exposure on the clearance function of the manila clams in Omaehama beach, Japan, were assessed using the experimental results and the observed data. An examination of the effects of the residual disability showed a more extensive decrease in filtering capacity when a formula accounting for residual disability was used rather than a standard one. The clearance volume using our new formula was 75% of that of a standard formula. The formula equations that have been used up until now have only evaluated whether the manila clams die. However, the surviving individuals have a residual disability, and our formula indicates this effect would cause a further decline in the purification function of the beach.

Effects of the Razor Clam Tagelus plebeius on the Fate of Petroleum Hydrocarbons: A Mesocosm Experiment.

PubMed

Klerks, P L; Kascak, A; Cazan, A M; Deb Adhikary, N; Chistoserdov, A; Shaik, A; Osman, S; Louka, F R

2018-02-22

The relationship between organisms and contaminants may be a two-way interaction: contaminants affecting the biota and the biota affecting the environmental fate and distribution of the contaminants. This may be especially so for sediment-dwelling organisms, because their burrowing and feeding can drastically influence sediment characteristics. The present study looked at the influence of the suspension-feeding stout razor clam Tagelus plebeius on the distribution of crude oil and pyrene in greenhouse mesocosm experiments. Water column turbidity and sediment redox also were monitored during the 15- to 30-day exposures to provide information on the influence of hydrocarbons and the razor clams on environmental conditions. For the experiment with crude oil, sediment was taken from the mesocosms at the end of the experiment, and the hydrocarbon-degradation potential was assessed in incubations with 14 C-naphthalene. The experiments used four treatments: hydrocarbons present/absent and razor clams present/absent. Hydrocarbon dosing levels were relatively low (1 mL of oil or 30 mg of pyrene per mesocosm with 22 L of natural sediment and 11 L of seawater). The presence of the razor clams resulted in hydrocarbon concentrations at the sediment surface being 25% lower than in mesocosms without clams. No consistent effects were noted for polycyclic aromatic hydrocarbon (PAH) concentrations in the water column or in subsurface sediment. The naphthalene-degradation potential was elevated for sediment from mesocosms dosed with oil, but the presence of the clams did not affect this potential. The presence of the razor clams resulted in a lowering of water column turbidity, but no effect on sediment redox. The hydrocarbon addition had no effect on turbidity, but sediment redox was lowered. While results show that the presence of the razor clams resulted in a loss of hydrocarbons from the surface sediment, the other results do not provide a clear picture of the underlying mechanisms and the fate of the PAHs lost from the sediment surface. We hypothesize that the loss of surface sediment PAHs was due to burial of surface sediment and possibly bioaccumulation by the clams. While additional research is needed for further insights into underlying mechanisms, the present work demonstrates that the presence of sediment-burrowing suspension feeders decreases hydrocarbon levels in surface sediment. This means that assessments of the impact of an oil spill should pay attention to effects on these organisms and to their influence on the fate and distribution of the spilled oil.

The calibration of photographic and spectroscopic films. The utilization of the digital image processor in the determination of aging of the surf clam (Spisula solidissima)

NASA Technical Reports Server (NTRS)

Peters, Kevin A.; Hammond, Ernest C., Jr.

1987-01-01

The age of the surf clam (Spisula solidissima) can be determined with the use of the Digital Image Processor. This technique is used in conjunction with a modified method for aging, refined by John Ropes of the Woods Hole Laboratory, Massachusetts. This method utilizes a thinned sectioned chondrophore of the surf clam which contains annual rings. The rings of the chondrophore are then counted to determine age. By digitizing the chondrophore, the Digital Image Processor is clearly able to separate these annual rings more accurately. This technique produces an easier and more efficient way to count annual rings to determine the age of the surf clam.

Status and improvement of CLAM for nuclear application

NASA Astrophysics Data System (ADS)

Huang, Qunying

2017-08-01

A program for China low activation martensitic steel (CLAM) development has been underway since 2001 to satisfy the material requirements of the test blanket module (TBM) for ITER, China fusion engineering test reactor and China fusion demonstration reactor. It has been undertaken by the Institute of Nuclear Energy Safety Technology, Chinese Academy of Sciences under wide domestic and international collaborations. Extensive work and efforts are being devoted to the R&D of CLAM, such as mechanical property evaluation before and after neutron irradiation, fabrication of scaled TBM by welding and additive manufacturing, improvement of its irradiation resistance as well as high temperature properties by precipitate strengthening to achieve its final successful application in fusion systems. The status and improvement of CLAM are introduced in this paper.

Review on the Risk Assessment of Heavy Metals in Malaysian Clams.

PubMed

Hossen, Md Faruk; Hamdan, Sinin; Rahman, Md Rezaur

2015-01-01

The current review discusses the levels of six heavy metals in different clam species from 34 sites of Malaysian coasts. The concentrations (µg/g dry weight) of these heavy metals ranged around 0.18-8.51, 0.13-17.20, 2.17-7.80, 0.84-36.00, 24.13-368.00, and 177.82-1912.00 for Cd, Pb, Ni, Cu, Zn, and Fe, respectively. It was observed that the concentrations of metals slightly depend on different clam species but mostly depend on site locations. According to Malaysian Food Regulation (1985), about 30% and more than 50% sites are safe from Cd and Pb contamination, respectively, and also the clam species from the other populations studied were safe for consumption.

eDNA and specific primers for early detection of invasive species--A case study on the bivalve Rangia cuneata, currently spreading in Europe.

PubMed

Ardura, Alba; Zaiko, Anastasija; Martinez, Jose L; Samulioviene, Aurelija; Semenova, Anna; Garcia-Vazquez, Eva

2015-12-01

Intense human activities facilitate the successful spread and establishment of non-indigenous aquatic organisms in marine and freshwater ecosystems. In some cases such intrusions result in noticeable and adverse changes in the recipient environments. In the Baltic Sea, the discovery and rapid initial spread of the North American wedge clam Rangia cuneata represents a new wave of invasion which may trigger unpredictable changes of the local benthic communities. In this study we present a species-specific DNA-based marker developed in silico and experimentally tested on environmental samples. Marker specificity and sensitivity were assessed in vitro from water samples containing different mixtures of the target species and other five bivalves currently present in the region: the native Cerastoderma glaucum, Macoma balthica and Mytilus trossulus, the invasive Dreissena polymorpha and the cryptogenic Mya arenaria. Cross-species amplification was not found in any case. The method allows to detecting at least 0.4 ng of R. cuneata DNA per μl, and 0.1 g of tissue per liter of water. Finally, the marker performance was assessed in water samples from the Baltic Sea and Vistula Lagoon. The coincidence between independent visual observations of R. cuneata and positive PCR amplification of the marker from the water samples confirmed the efficiency of this highly reproducible, fast, and technically easy method. R. cuneata traces can be detected from environmental DNA even when the population is sparse and small, enabling rapid management responses and allowing to track the invasion dynamics. Copyright © 2015 Elsevier Ltd. All rights reserved.

Environmental salinity modulates the effects of elevated CO2 levels on juvenile hard-shell clams, Mercenaria mercenaria.

PubMed

Dickinson, Gary H; Matoo, Omera B; Tourek, Robert T; Sokolova, Inna M; Beniash, Elia

2013-07-15

Ocean acidification due to increasing atmospheric CO2 concentrations results in a decrease in seawater pH and shifts in the carbonate chemistry that can negatively affect marine organisms. Marine bivalves such as the hard-shell clam, Mercenaria mercenaria, serve as ecosystem engineers in estuaries and coastal zones of the western Atlantic and, as for many marine calcifiers, are sensitive to the impacts of ocean acidification. In estuaries, the effects of ocean acidification can be exacerbated by low buffering capacity of brackish waters, acidic inputs from freshwaters and land, and/or the negative effects of salinity on the physiology of organisms. We determined the interactive effects of 21 weeks of exposure to different levels of CO2 (~395, 800 and 1500 μatm corresponding to pH of 8.2, 8.1 and 7.7, respectively) and salinity (32 versus 16) on biomineralization, shell properties and energy metabolism of juvenile hard-shell clams. Low salinity had profound effects on survival, energy metabolism and biomineralization of hard-shell clams and modulated their responses to elevated PCO2. Negative effects of low salinity in juvenile clams were mostly due to the strongly elevated basal energy demand, indicating energy deficiency, that led to reduced growth, elevated mortality and impaired shell maintenance (evidenced by the extensive damage to the periostracum). The effects of elevated PCO2 on physiology and biomineralization of hard-shell clams were more complex. Elevated PCO2 (~800-1500 μatm) had no significant effects on standard metabolic rates (indicative of the basal energy demand), but affected growth and shell mechanical properties in juvenile clams. Moderate hypercapnia (~800 μatm PCO2) increased shell and tissue growth and reduced mortality of juvenile clams in high salinity exposures; however, these effects were abolished under the low salinity conditions or at high PCO2 (~1500 μatm). Mechanical properties of the shell (measured as microhardness and fracture toughness of the shells) were negatively affected by elevated CO2 alone or in combination with low salinity, which may have important implications for protection against predators or environmental stressors. Our data indicate that environmental salinity can strongly modulate responses to ocean acidification in hard-shell clams and thus should be taken into account when predicting the effects of ocean acidification on estuarine bivalves.

Settlement, mortality and growth of the asari clam (Ruditapes philippinarum) for a collapsed population on a tidal flat in Nakatsu, Japan

NASA Astrophysics Data System (ADS)

Tezuka, Naoaki; Kamimura, Satomi; Hamaguchi, Masami; Saito, Hajime; Iwano, Hideki; Egashira, Junichi; Fukuda, Yuichi; Tawaratsumida, Takahiko; Nagamoto, Atsushi; Nakagawa, Koichi

2012-04-01

Although fluctuation and decline in bivalve populations have been reported worldwide, the underlying processes are not yet fully understood. This lack of understanding is partly due to an absence of demographic information for the early post-settlement period. This is the case particularly for annual production of the asari clam (also commonly known as the Manila clam, Ruditapes philippinarum) in Japan, which has greatly decreased in recent years. A remarkable decrease has been observed in the Nakatsu tidal flat, where current yields are less than 0.02% of the maximum yield. Possible explanations for this decline are: 1. limitation on recruitment due to overfishing; and 2. the demographic processes of growth and mortality have been altered by environmental changes, such as rise in seawater temperature or decrease in phytoplankton abundance. However, because of a lack of demographic information (e.g., the initial densities of larval settlement and mortality and growth rates post-settlement), the reasons for the decline, and the relative importance of each period in the life cycle in determining population abundance, remain unclear. Despite the decline, we observed high levels of recruitment of 0-year-class clams on the Nakatsu tidal flat in spring 2005, where more than 10,000 individuals m- 2 3-5 mm in shell length, estimated to have settled during the previous autumn, were observed. To obtain demographic information on the Nakatsu clams, we investigated two factors. First, we investigated the distribution of the 0-year-class clams and their rate of change in density as a combination of mortality, emigration and immigration on the whole tidal flat after a year. Second, we investigated the rate of change in the density and growth of clams after settlement in the center of the flat for 3 years. The rate of decrease in the density of the 0-year-class clams over the whole tidal flat after a year was greater at the stations where the initial density was higher. This suggests that density-dependent processes such as predation or competition may affect population levels. In the center of the flat, the initial density of settlement was more stable than the rate of decrease after settlement. These results suggest that the clam population on this tidal flat is probably suppressed by variable but high mortality rates after settlement, not by recruitment limitation.

Genome Sequence of Fusarium Isolate MYA-4552 from the Midgut of Anoplophora glabripennis, an Invasive, Wood-Boring Beetle.

PubMed

Herr, Joshua R; Scully, Erin D; Geib, Scott M; Hoover, Kelli; Carlson, John E; Geiser, David M

2016-07-21

The Fusarium solani species complex (FSSC) is a clade of environmentally ubiquitous fungi that includes plant, animal, and insect associates. Here, we report the draft genome sequence of the undescribed species FSSC 6 (isolate MYA-4552), housed in the gut of the wood-boring cerambycid beetle Anoplophora glabripennis. Copyright © 2016 Herr et al.

Between a rock and a soft place: Using optical ages to date ancient clam gardens on the Pacific Northwest

PubMed Central

Neudorf, Christina M.; Smith, Nicole; Lepofsky, Dana; Toniello, Ginevra; Lian, Olav B.

2017-01-01

Rock-walled archaeological features are notoriously hard to date, largely because of the absence of suitable organic material for radiocarbon dating. This study demonstrates the efficacy of dating clam garden wall construction using optical dating, and uses optical ages to determine how sedimentation rates in the intertidal zone are affected by clam garden construction. Clam gardens are rock-walled, intertidal terraces that were constructed and maintained by coastal First Nation peoples to increase bivalve habitat and productivity. These features are evidence of ancient shellfish mariculture on the Pacific Northwest and, based on radiocarbon dating, date to at least the late Holocene. Optical dating exploits the luminescence signals of quartz or feldspar minerals to determine the last time the minerals were exposed to sunlight (i.e., their burial age), and thus does not require the presence of organic material. Optical ages were obtained from three clam garden sites on northern Quadra Island, British Columbia, and their reliability was assessed by comparing them to radiocarbon ages derived from shells underneath the clam garden walls, as well as below the terrace sediments. Our optical and radiocarbon ages suggest that construction of these clam garden walls commenced between ~1000 and ~1700 years ago, and our optical ages suggest that construction of the walls was likely incremental and increased sedimentation rates in the intertidal zone by up to fourfold. Results of this study show that when site characteristics are not amenable to radiocarbon dating, optical dating may be the only viable geochronometer. Furthermore, dating rock-walled marine management features and their geomorphic impact can lead to significant advances in our understanding of the intimate relationships that Indigenous peoples worldwide developed with their seascapes. PMID:28182645

Trace metals in suspended particles, sediments and Asiatic clams (Corbicula fluminea) of the Río de la Plata Estuary, Argentina.

PubMed

Bilos, C; Colombo, J C; Presa, M J

1998-01-01

Suspended particulate matter (SPM), sandy sediments and Asiatic clams were collected at seven sites along 150 km of the Río de la Plata coast to assess the magnitude of trace metal pollution in the area. Metal concentrations in SPM (Cu: 7.4-109; Cr: 75-408; Mn: 525-1341 microg(-1)), sediments (Cr: 16-27; Zn: 26-99; Mn: 221-489 microg(-1)) and bivalves (Cd: 0.5-1.9; Ni: 1.3-6.4; Cr: 1.3-11; Mn: 15-81; Cu: 28-89; Zn: 118-316 microg g(-1)) are comparable to those reported for other moderately polluted world rivers. Cu levels in Asiatic clams are among the highest, similar to those reported for heavily polluted sites. SPM Cu and Cr concentrations displayed a clear geographical trend with values increasing with proximity to major urban centers. Sediments showed a less clear pattern possibly due to their coarse nature (>98% sand) and higher proportion of mineral-associated residual metals. The clams showed a complex pattern due to the variability introduced by size-related factors and the natural dynamics of SPM in the estuary. Cr and Mn showed an apparent reverse industrial trend with higher concentrations in clams collected at distant stations near the turbidity maximum zone, possibly reflecting enhanced particle retention. Cu, Cd and Ni showed no clear geographical pattern, whereas Zn increased in the clams collected in the most industrialized area. A significant relationship with clam size was observed for Cu (positive) and Zn (negative) suggesting different physiological requirements for both metals with age. A principal component analysis confirmed these geographical and size-related trends.

Evolutionary and biogeographic history of weasel-like carnivorans (Musteloidea).

PubMed

Sato, Jun J; Wolsan, Mieczyslaw; Prevosti, Francisco J; D'Elía, Guillermo; Begg, Colleen; Begg, Keith; Hosoda, Tetsuji; Campbell, Kevin L; Suzuki, Hitoshi

2012-06-01

We analyzed a concatenated (8492 bp) nuclear-mitochondrial DNA data set from 44 musteloids (including the first genetic data for Lyncodon patagonicus) with parsimony, maximum likelihood, and Bayesian methods of phylogenetic and biogeographic inference and two Bayesian methods of chronological inference. Here we show that Musteloidea emerged approximately 32.4-30.9 million years ago (MYA) in Asia, shortly after the greenhouse-icehouse global climate shift at the Eocene-Oligocene transition. During their Oligocene radiation, which proceeded wholly or mostly in Asia, musteloids diversified into four primary divisions: the Mephitidae lineage separated first, succeeded by Ailuridae and the divergence of the Procyonidae and Mustelidae lineages. Mustelidae arose approximately 16.1 MYA within the Mid-Miocene Climatic Optimum, and extensively diversified in the Miocene, mostly in Asia. The early offshoots of this radiation largely evolved into badger and marten ecological niches (Taxidiinae, Melinae, Mellivorinae, Guloninae, and Helictidinae), whereas the later divergences have adapted to other niches including those of weasels, polecats, minks, and otters (Mustelinae, Ictonychinae, and Lutrinae). Notably, and contrary to traditional beliefs, the morphological adaptations of badgers, martens, weasels, polecats, and minks each evolved independently more than once within Mustelidae. Ictonychinae (which is most closely related to Lutrinae) arose approximately 9.5-8.9 MYA, most likely in Asia, where it diverged into the Old World Ictonychini (Vormela, Poecilictis, Ictonyx, and Poecilogale) and New World Lyncodontini (Lyncodon and Galictis) lineages. Ictonychini presumably entered Africa during the Messinian Salinity Crisis (at the Miocene-Pliocene transition), which interposed the origins of this clade (approximately 6.5-6.0 MYA) and its African Poecilictis-Ictonyx-Poecilogale subclade (approximately 4.8-4.5 MYA). Lyncodontini originated approximately 2.9-2.6 MYA at the Pliocene-Pleistocene transition in South America, slightly after the emergence of the Panamanian land bridge that provided for the Great American Biotic Interchange. As the genera Martes and Ictonyx (as currently circumscribed) are paraphyletic with respect to the genera Gulo and Poecilogale, respectively, we propose that Pekaniaand Poecilictis be treated as valid genera and that "Martes"pennanti and "Ictonyx"libyca, respectively, be assigned to these genera. Copyright © 2012 Elsevier Inc. All rights reserved.

An Annotated Bibliography of CERC Coastal Ecology Research.

DTIC Science & Technology

1980-06-01

the Atlantic and gulf coasts of the United States. The experimentation has been directed toward the use of sand fences and dune grasses to catch and...Pismo Clams ," MP 8-75, U.S. Army, Corps of Engineers, Coastal Engineering Research Center, Fort Belvoir, Va., Sept. 1975, NTIS AD No. A016 948. Three...aspects of the ecology of Pismo clams were investigated in Monterey Bay, California: distribution, reproduction cycle, and age and growth. Pismo clam

Biological uptake of polychlorinated biphenyls by Macoma balthica from sediment amended with activated carbon

USGS Publications Warehouse

McLeod, Pamela B.; van den Heuvel-Greve, Martine J.; Luoma, S.N.; Luthy, R.G.

2007-01-01

This work characterizes the efficacy of activated carbon amendment in reducing polychlorinated biphenyl (PCB) bioavailability to clams (Macoma balthica) from field-contaminated sediment (Hunters Point Naval Shipyard, San Francisco Bay, CA, USA) Test methods were developed for the use of clams to investigate the effects of sediment amendment on biological uptake. Sediment was mixed with activated carbon for one month. Bioaccumulation tests (28 d) were employed to assess the relationships between carbon dose and carbon particle size on observed reductions in clam biological uptake of PCBs. Extraction and cleanup protocols were developed for the clam tissue. Efficacy of activated carbon treatment was found to increase with both increasing carbon dose and decreasing carbon particle size. Average reductions in bioaccumulation of 22, 64, and 84% relative to untreated Hunters Point sediment were observed for carbon amendments of 0.34, 1.7, and 3.4%, respectively. Average bioaccumulation reductions of 41, 73, and 89% were observed for amendments (dose = 1.7% dry wt) with carbon particles of 180 to 250, 75 to 180, and 25 to 75 ??m, respectively, in diameter, indicating kinetic phenomena in these tests. Additionally, a biodynamic model quantifying clam PCB uptake from water and sediment as well as loss through elimination provided a good fit of experimental data. Model predictions suggest that the sediment ingestion route contributed 80 to 95% of the PCB burdens in the clams. ?? 2007 SETAC.

Depletion of Cryptosporidium parvum Oocysts from Contaminated Sewage by Using Freshwater Benthic Pearl Clams (Hyriopsis schlegeli)

PubMed Central

Yagita, Kenji; Izumiyama, Shinji; Endo, Takuro; Itoh, Yasoo

2012-01-01

The freshwater benthic pearl clam, Hyriopsis schlegeli, was experimentally exposed to Cryptosporidium parvum oocysts, and it was verified that the oocysts were eliminated predominantly via the fecal route, retaining their ability to infect cultured cells (HCT-8). The total fecal oocyst elimination rate was more than 90% within 5 days after exposure to the oocysts. H. schlegeli was able to survive in the final settling pond of a sewage plant for long periods, as confirmed by its pearl production. In the light of these findings, the clam was placed in the final settling pond in a trial to test its long-term efficacy in depleting oocysts contaminating the pond water. The number of clams placed was set to ensure a theoretical oocyst removal rate of around 50%, and the turbidity and the density of feed microbes in the overflow trough water of the pond were about 35% and 40 to 60% lower, respectively, than in the control water throughout the year. It was found that the clam feces containing oocysts were sufficiently heavy for them to settle to the bottom of the pond, despite the upward water flow. From these results, we concluded that efficient depletion of oocysts in the sewage water of small or midscale sewage treatment plants can be achieved by appropriate placement of H. schlegeli clams. PMID:22904053

Microcystin uptake and biochemical responses in the freshwater clam Corbicula leana P. exposed to toxic and non-toxic Microcystis aeruginosa: Evidence of tolerance to cyanotoxins.

PubMed

Pham, Thanh-Luu; Shimizu, Kazuya; Dao, Thanh-Son; Hong-Do, Lan-Chi; Utsumi, Motoo

2015-01-01

We investigated the accumulation and adverse effects of toxic and non-toxic Microcystis in the edible clam Corbicula leana . Treated clams were exposed to toxic Microcystis at 100 μg of MC (microcystin)-LR eq  L -1 for 10 days. The experimental organism was then placed in toxin-free water and fed on non-toxic Microcystis for the following 10 days for depuration. Filtering rates (FRs) by C. leana of toxic and non-toxic Microcystis and of the green alga Chlorella vulgaris as a control were estimated. Adverse effects were evaluated though the activity of catalase (CAT), superoxide dismutase (SOD) and glutathione S-transferase (GST). Clam accumulated MCs (up to 12.7 ± 2.5 μg g -1 dry weight (DW) of free MC and 4.2 ± 0.6 μg g -1 DW of covalently bound MC). Our results suggest that although both toxic and non-toxic cyanobacteria caused adverse effects by inducing the detoxification and antioxidant defense system, the clam was quite resistant to cyanotoxins. The estimated MC concentration in C. leana was far beyond the World Health Organization's (WHO) provisional tolerable daily intake (0.04 μg kg -1  day -1 ), suggesting that consuming clams harvested during cyanobacterial blooms carries a high health risk.

Substantial changes in hemocyte parameters of Manila clam Ruditapes philippinarum two years after the Hebei Spirit oil spill off the west coast of Korea.

PubMed

Hong, Hyun-Ki; Donaghy, Ludovic; Kang, Chang-Keun; Kang, Hyun-Sil; Lee, Hee-Jung; Park, Heung-Sik; Choi, Kwang-Sik

2016-07-15

Two years after the Hebei Spirit oil spill occurred off the west coast of Korea, we determined sub-lethal effects of the spilled oil on hemocyte parameters of Ruditapes philippinarum in the damaged areas. Clams in the spilled sites displayed unusually high proportion of granulocytes, which may result in higher phagocytosis capacity and reactive oxygen species production. Hemocytes in clams from the polluted sites also displayed less DNA damage and mortality than in the control site, possibly due to a faster phagocytosis of the impaired cells. Glycogen, the major energetic reserve, was depleted in clams from the spilled sites, potentially due to energetic consumption for maintenance of a large pool of granulocytes, detoxification processes and oxidative stress. Modified hemocyte parameters in clams in the spilled area, may reflect sub-lethal physiological stresses caused by the residual oils in the sediment, in conjunction with environmental modifications such as food availability and pathogens pattern. Copyright © 2016 Elsevier Ltd. All rights reserved.

Microhabitat and biology of Sphaerium striatinum in a central New York stream

USGS Publications Warehouse

Dittman, Dawn E.; Johnson, James H.; Nack, Christopher C.

2018-01-01

In many lotic systems, drastic declines in freshwater bivalve populations, including fingernail clams (Sphaeriidae), have created concerns about biodiversity and future ecosystem services. We examined the local occurrence of the historically common fingernail clam, Sphaerium striatinum, in a central New York stream. We sampled the density of sphaeriids and measured the associated habitat variables (substrate, depth, water flow) to test within-stream multivariate benthic microhabitat association. Size distribution, density, and diel feeding periodicity were measured as focal aspects of fingernail clam biology and ecology. S. striatinum tended to be found in microhabitats that had harder substrates and faster flow. The Labrador Creek fingernail clam local population had positive indicators (size distribution, density). There was significant diel periodicity in feeding behavior. The clams fed most actively during the 0400–0800 h periods. This kind of behavioral periodicity can indicate a significant ecological interaction between predators and bivalve prey. Increased understanding of the behavioral ecology of small native freshwater bivalves in an unimpacted headwater stream is a fundamental building block for development of overall ecological conservation goals for freshwater bivalves and their lotic habitats.

Effect of tributyltin on veliger larvae of the Manila clam, Ruditapes philippinarum.

PubMed

Inoue, Suguru; Oshima, Yuji; Usuki, Hironori; Hamaguchi, Masami; Hanamura, Yukio; Kai, Norihisa; Shimasaki, Yohei; Honjo, Tsuneo

2007-01-01

We investigated the effects of waterborne and maternal exposure to tributyltin (TBT) on veliger larvae of the Manila clam, Ruditapes philippinarum. In a waterborne exposure test, veliger larvae (D-larvae stage: 24h after fertilization) were exposed to TBT at measured concentrations of <0.01 (control), 0.055, 0.130, 0.340, and 0.600microg/l for 13d. The percentage of normal veliger larvae (the ratio of normal veliger larvae to all larvae) decreased significantly in all TBT treatment groups compared with that in the control group. In a maternal exposure test, 100 clams were exposed to TBT at measured concentrations of <0.01 (control), 0.061, and 0.310microg/l at 20-22 degrees C for 3 weeks, and the percentage of normal veliger larvae assessed for 13d. No maternal effects on veliger larvae from TBT were observed in TBT treatment groups as compared with the control group. These results demonstrate that waterborne TBT affects Manila clam veliger larvae, and indicates that TBT may have reduced Manila clam populations by preventing the development and survival of veliger larvae.

Review on the Risk Assessment of Heavy Metals in Malaysian Clams

PubMed Central

Hamdan, Sinin; Rahman, Md. Rezaur

2015-01-01

The current review discusses the levels of six heavy metals in different clam species from 34 sites of Malaysian coasts. The concentrations (µg/g dry weight) of these heavy metals ranged around 0.18–8.51, 0.13–17.20, 2.17–7.80, 0.84–36.00, 24.13–368.00, and 177.82–1912.00 for Cd, Pb, Ni, Cu, Zn, and Fe, respectively. It was observed that the concentrations of metals slightly depend on different clam species but mostly depend on site locations. According to Malaysian Food Regulation (1985), about 30% and more than 50% sites are safe from Cd and Pb contamination, respectively, and also the clam species from the other populations studied were safe for consumption. PMID:26060840

Behavior and Calibration of the Sr/Ca Temperature Proxy in Vesicomyid Clams

NASA Astrophysics Data System (ADS)

Hart, S. R.

2009-12-01

Clams of the Vesicomyidae family populate both hydrothermal vent areas and hydrocarbon cold seep areas. These habitats furnish reduced sulfides that support chemoautotrophic endosymbionts that nourish the clams. Clams of this family all grow aragonitic shells, and can have lifetimes that span many decades. The incorporation of Sr into aragonite in corals has a well-known temperature dependence and the same is true in clams, though the partitioning is reversed from that in corals. Thus the potential exists to use these clams to provide proxy temperatures for both hydrothermal and cold seep environments. Hart and Blusztajn (1998) used ion probe techniques for Sr/Ca analysis of several Calyptogena magnifica specimens from 10°N on the East Pacific Rise. Sub-monthly resolution was obtained, and large Sr/Ca variations were observed that could be correlated with known eruptive and venting episodes. The preliminary temperature calibration we reported in 1998 was obtained from an Arctica icelandica (ocean quahog), recovered from a coastal site with a 6 year instrumental temperature record (1.3° - 17.7°C). Because this species stops growing in the winter, the low temperature end of the calibration was uncertain. To refine this calibration, we report here Sr/Ca records from 3 cold seep localities (typically with 200+ analysis spots per clam): a Calyptogena ponderosa (Green Canyon, Gulf of Mexico, 720 m, ~ 6°C); a C. phaseoliformis? (Aleutian trench, 4922 m, 1.5°C); and paired C. pacifica and C. kilmeri (Monterey Canyon, 904 m, 4.2°C). All of these samples exhibited significant Sr/Ca variations, suggesting that either the sites were not isothermal (as hoped), or that the clams were processing water with anomalous, pore-water-derived, Sr/Ca. Significant stretches of each record did have low and fairly constant Sr/Ca and, when coupled with the known ambient water temperatures for each locality, substantiated a calibration only ~ 1° higher than the 1998 calibration (new calibration: T°C = 18160*(Sr/Ca) - 12.2). The C. kilmeri spent most of its early life at 9-12°C, only dropping to ambient a year or so before collection in 1996. In contrast, the nearby C. pacifica spent most of its early life near ambient, with a rapidly increasing temperature over its last few years, reaching almost 20°C just before collection in 1994. We also have determined detailed Sr/Ca records for 7 specimens of C. magnifica from a hydrothermal venting region at ~ 10°N on the East Pacific Rise. These clams were collected in 1990, 1991, 1992, 1996, 1997, and 1999, and thus provide a time series with at least one known time for each clam. This was a period of active eruption and venting at this site, and the thermal episodes can be matched fairly well across the various clams. Sporadic low temperatures for these clams are in the 3-4°C range, but large periods of their lives are spent in the 10°-20°C range, with short spikes to ~ 40°C being common. We thank Colleen Cavanaugh, Lauren Mullineaux, Dan Fornari, Tim Shank, Rich Lutz, Jim Barry and Chuck Fisher for sharing their magnificent Vesicomyids.

Enzymatic and histopathologic biomarkers as indicators of contaminant exposure and effect in Asian clam (Potamocorbula amurensis)

USGS Publications Warehouse

Teh, S.J.; Clark, S.L.; Brown, C.L.; Luoma, S.N.; Hinton, D.E.

1999-01-01

Enzymatic and histopathologic alterations of the digestive gland, gill, gonad, and kidney were studied in Asian clam (Potamocorbula amurensis) in April, 1997 from each of four United States Geological Survey (USGS) stations in the San Francisco Estuary. Stations were selected based on differing body burdens of metallic contaminants in clams (Stn 4.1>6.1>8.1>12.5) observed over 7 years. Because no pristine sites are known within the estuary and because no laboratory-reared stocks of P. amurensis were available, clams from station 12.5 served as reference animals. Histopathologic analysis revealed no lesions in clams collected from station 12.5. Mild digestive gland atrophy and moderate distal kidney tubular vacuolation were seen in clams collected from station 8.1. Mild digestive gland atrophy, moderate kidney tubular atrophy, and moderate gill inflammation were seen in clams collected from station 6.1. Lesions found only in clams from station 4.1 were: (1) severe inflammation and moderate atrophy of primary ducts and diverticula, and decreased numbers of heterophagosomes and heterolysosomes in diverticula of the digestive gland; (2) severe gill inflammation; (3) severe kidney tubular atrophy; (4) severe ovarian and testicular inflammation and necrosis (5) decreased numbers of mature ova; and (6) decreased number of glycogen storage cells in the ovary and testis. Localization of specific enzymes including adenosine triphosphatase (ATP), acid phosphatase (ACP), alkaline phosphatase (ALKP), gamma-glutamyl transpeptidase (GGT), and glucose-6-phosphate dehydrogenase (G6PDH) was performed and correlated, in serial sections with glycogen (PAS) and haematoxylin and eosin stains. Enzymatic analysis revealed: (1) increased digestive diverticula ATP in stations 6.1 and 4.1; (2) decreased digestive diverticula ACP in stations 6.1 and 4.1 and proximal kidney tubular ACP deficiency in station 4.1; (3) no ALKP differences among stations; (4) increased distal kidney tubular GGT at station 12.5 and decreased distal kidney tubular GGT at station 4.1; (5) decreased digestive diverticula G6PDH G6PDH in all stations except 12.5 and decreased proximal kidney tubular G6PDH in stations 8.1 and 6.1. It is possible that other anthropogenic and natural stressors may have affected the results in this study. However, the prevalence and increased severity of lesions in clams with highest metal body burden suggests a contaminant- associated etiology. Enzymatic and histopathologic biomarker alterations identified in this study were positively correlated with the metal body burden. Clams with the higher prevalence of diseases and enzyme alterations also showed a lower condition index and glycogen content in the month when histopathological assessment was performed. Further study will seek to develop enzymatic and histopathologic biomarkers for use in controlled laboratory conditions to help validate the field study.

Guardian Caps: What's the Impact?

ERIC Educational Resources Information Center

Jenny, Seth E.; Rouse, Wardell; Seibles, Ashlie

2017-01-01

Reported sport-related concussion rates have dramatically increased recently. In response, the Guardian company has emerged as a leading manufacturer of soft-shell helmet covers. The "Guardian Cap" is a foam padded covering that fits over a helmet that aims to reduce the impact of collisions and lessen the chance of a concussion. The…

Palaeoamyda messeliana nov. comb. (Testudines, Pan-Trionychidae) from the Eocene Messel Pit and Geiseltal localities, Germany, taxonomic and phylogenetic insights.

PubMed

Cadena, Edwin

2016-01-01

Abundant pan-trionychid (soft-shell) turtles specimens have been found in Eocene sequences of central Europe, particularly from two localities in Germany, the Messel Pit (a UNESCO World Natural Heritage Site) and Geiseltal, traditionally attributed to Trionyx messelianus or Rafetoides austriacus . Over the last two decades new specimens of this taxon from these two localities have been discovered and fully prepared. However, they have remained unstudied, as well as their phylogenetic position inside Pan-Trionychidae is unknown. Five new specimens of Palaeoamyda messeliana nov. comb. from Messel Pit and Geiseltal localities are fully described here. A revised diagnosis for the species is also presented here, together with its inclusion in a phylogenetic analysis of Pan-Trionychidae that shows that this species is sister to the extant Amyda cartilaginea , one of the most abundant pan-trionychid (soft-shell) turtles from Asia, both members of the clade Chitrini. The specimens described in here are among the best and most complete fossil pan-trionychid skeletons so far known.

The draft genomes of soft-shell turtle and green sea turtle yield insights into the development and evolution of the turtle-specific body plan.

PubMed

Wang, Zhuo; Pascual-Anaya, Juan; Zadissa, Amonida; Li, Wenqi; Niimura, Yoshihito; Huang, Zhiyong; Li, Chunyi; White, Simon; Xiong, Zhiqiang; Fang, Dongming; Wang, Bo; Ming, Yao; Chen, Yan; Zheng, Yuan; Kuraku, Shigehiro; Pignatelli, Miguel; Herrero, Javier; Beal, Kathryn; Nozawa, Masafumi; Li, Qiye; Wang, Juan; Zhang, Hongyan; Yu, Lili; Shigenobu, Shuji; Wang, Junyi; Liu, Jiannan; Flicek, Paul; Searle, Steve; Wang, Jun; Kuratani, Shigeru; Yin, Ye; Aken, Bronwen; Zhang, Guojie; Irie, Naoki

2013-06-01

The unique anatomical features of turtles have raised unanswered questions about the origin of their unique body plan. We generated and analyzed draft genomes of the soft-shell turtle (Pelodiscus sinensis) and the green sea turtle (Chelonia mydas); our results indicated the close relationship of the turtles to the bird-crocodilian lineage, from which they split ∼267.9-248.3 million years ago (Upper Permian to Triassic). We also found extensive expansion of olfactory receptor genes in these turtles. Embryonic gene expression analysis identified an hourglass-like divergence of turtle and chicken embryogenesis, with maximal conservation around the vertebrate phylotypic period, rather than at later stages that show the amniote-common pattern. Wnt5a expression was found in the growth zone of the dorsal shell, supporting the possible co-option of limb-associated Wnt signaling in the acquisition of this turtle-specific novelty. Our results suggest that turtle evolution was accompanied by an unexpectedly conservative vertebrate phylotypic period, followed by turtle-specific repatterning of development to yield the novel structure of the shell.

Origin of marine planktonic cyanobacteria.

PubMed

Sánchez-Baracaldo, Patricia

2015-12-01

Marine planktonic cyanobacteria contributed to the widespread oxygenation of the oceans towards the end of the Pre-Cambrian and their evolutionary origin represents a key transition in the geochemical evolution of the Earth surface. Little is known, however, about the evolutionary events that led to the appearance of marine planktonic cyanobacteria. I present here phylogenomic (135 proteins and two ribosomal RNAs), Bayesian relaxed molecular clock (18 proteins, SSU and LSU) and Bayesian stochastic character mapping analyses from 131 cyanobacteria genomes with the aim to unravel key evolutionary steps involved in the origin of marine planktonic cyanobacteria. While filamentous cell types evolved early on at around 2,600-2,300 Mya and likely dominated microbial mats in benthic environments for most of the Proterozoic (2,500-542 Mya), marine planktonic cyanobacteria evolved towards the end of the Proterozoic and early Phanerozoic. Crown groups of modern terrestrial and/or benthic coastal cyanobacteria appeared during the late Paleoproterozoic to early Mesoproterozoic. Decrease in cell diameter and loss of filamentous forms contributed to the evolution of unicellular planktonic lineages during the middle of the Mesoproterozoic (1,600-1,000 Mya) in freshwater environments. This study shows that marine planktonic cyanobacteria evolved from benthic marine and some diverged from freshwater ancestors during the Neoproterozoic (1,000-542 Mya).

Origin of marine planktonic cyanobacteria

PubMed Central

Sánchez-Baracaldo, Patricia

2015-01-01

Marine planktonic cyanobacteria contributed to the widespread oxygenation of the oceans towards the end of the Pre-Cambrian and their evolutionary origin represents a key transition in the geochemical evolution of the Earth surface. Little is known, however, about the evolutionary events that led to the appearance of marine planktonic cyanobacteria. I present here phylogenomic (135 proteins and two ribosomal RNAs), Bayesian relaxed molecular clock (18 proteins, SSU and LSU) and Bayesian stochastic character mapping analyses from 131 cyanobacteria genomes with the aim to unravel key evolutionary steps involved in the origin of marine planktonic cyanobacteria. While filamentous cell types evolved early on at around 2,600–2,300 Mya and likely dominated microbial mats in benthic environments for most of the Proterozoic (2,500–542 Mya), marine planktonic cyanobacteria evolved towards the end of the Proterozoic and early Phanerozoic. Crown groups of modern terrestrial and/or benthic coastal cyanobacteria appeared during the late Paleoproterozoic to early Mesoproterozoic. Decrease in cell diameter and loss of filamentous forms contributed to the evolution of unicellular planktonic lineages during the middle of the Mesoproterozoic (1,600–1,000 Mya) in freshwater environments. This study shows that marine planktonic cyanobacteria evolved from benthic marine and some diverged from freshwater ancestors during the Neoproterozoic (1,000–542 Mya). PMID:26621203

High-Intensity Strength Training Improves Function of Chronically Painful Muscles: Case-Control and RCT Studies

PubMed Central

Andersen, Christoffer H.; Skotte, Jørgen H.; Suetta, Charlotte; Søgaard, Karen; Saltin, Bengt; Sjøgaard, Gisela

2014-01-01

Aim. This study investigates consequences of chronic neck pain on muscle function and the rehabilitating effects of contrasting interventions. Methods. Women with trapezius myalgia (MYA, n = 42) and healthy controls (CON, n = 20) participated in a case-control study. Subsequently MYA were randomized to 10 weeks of specific strength training (SST, n = 18), general fitness training (GFT, n = 16), or a reference group without physical training (REF, n = 8). Participants performed tests of 100 consecutive cycles of 2 s isometric maximal voluntary contractions (MVC) of shoulder elevation followed by 2 s relaxation at baseline and 10-week follow-up. Results. In the case-control study, peak force, rate of force development, and rate of force relaxation as well as EMG amplitude were lower in MYA than CON throughout all 100 MVC. Muscle fiber capillarization was not significantly different between MYA and CON. In the intervention study, SST improved all force parameters significantly more than the two other groups, to levels comparable to that of CON. This was seen along with muscle fiber hypertrophy and increased capillarization. Conclusion. Women with trapezius myalgia have lower strength capacity during repetitive MVC of the trapezius muscle than healthy controls. High-intensity strength training effectively improves strength capacity during repetitive MVC of the painful trapezius muscle. PMID:24707475

50 CFR 648.76 - Maine mahogany quahog zone.

Code of Federal Regulations, 2010 CFR

2010-10-01

... Atlantic Surf Clam and Ocean Quahog Fisheries § 648.76 Maine mahogany quahog zone. (a) Landing requirements... Advisory Panel shall make recommendations, through the Surf Clam and Ocean Quahog Committee of the Council...

Effect of TBT on Ruditapes decussatus juveniles.

PubMed

Coelho, M R; Langston, W J; Bebianno, M J

2006-06-01

The effects of sublethal concentrations of tributyltin (TBT) on growth of juvenile clams Ruditapes decussatus were determined during exposure to TBT concentrations of 50, 100 and 250 ng l(-1) (as Sn) for a period up to two years. Length and weight of clams increased continuously in all treatments throughout the experimental period, and, overall, rates were not significantly influenced by TBT exposure, although final length and weight were inversely related to increasing TBT concentration. Juvenile R. decussatus therefore appear to be less sensitive to TBT than larval stages. Some juveniles exposed to TBT developed abnormal shell growth, laterally, changing the typical flattened shape of clams into a more "rounded" form. This characteristic was more visible in the anterior margins of valves than posteriorly, and mainly observed in clams exposed to TBT at 50 ng l(-1) (as Sn).

Razor clam (Ensis directus) shell as a low-cost adsorbent for the removal of Congo red and Rhodamine B dyes from aqueous solution

NASA Astrophysics Data System (ADS)

Areibat, Lila Elamari Mohamed; Kamari, Azlan

2017-05-01

Wastewater originating from industrial effluents contains many types of pollutants including dyes. Anionic and cationic dyes are very toxic and they can cause several problems to aquatic system. In present study, razor clam shell was used as a potential adsorbent to remove two classes of dyes, namely anionic (Congo red, CR) and cationic (Rhodamine B, RB) dyes from aqueous solution. Batch adsorption experiments were performed to study the effects of three experimental parameters, namely solution pH, adsorbent dosage and initial dye concentration, on adsorption capacity of CR and RB onto razor clam shell. Results indicated that pH 2.0 was optimum pH for adsorbent to adsorb both CR and RB. At an initial concentration of 20 mg/L, the removal percentages of CR and RB were 97% and 38%, respectively. The Freundlich and Langmuir isotherm models were used to describe adsorption behaviour of CR and RB, as well as the relationship between adsorbent and adsorbate. The adsorption equilibrium data were well fitted to Freundlich isotherm model. The separation factor (RL) constants suggest that both CR and RB were favourably adsorbed by razor clam shell. Razor clam shell was characterised by using two techniques, namely Scanning Electron Microscopy (SEM) and Fourier Transform Infrared Spectrometry (FTIR). Overall, this study suggests that razor clam shell has great potential to be an alternative to expensive adsorbents.

Diversity of lactic acid bacteria in sian-sianzih (fermented clams), a traditional fermented food in Taiwan.

PubMed

Chen, Yi-sheng; Wu, Hui-chung; Li, Ya-han; Leong, Kun-hon; Pua, Xiao-hui; Weng, Ming-kai; Yanagida, Fujitoshi

2012-01-30

Sian-sianzih (fermented clams) is a popular traditional fermented food in Taiwan. The lactic acid bacteria (LAB) microflora in sian-sianzih have not been studied in detail. In this study, LAB from sian-sianzih were isolated, characterized and identified. A total of 186 cultures of LAB were isolated from seven sian-sianzih samples and 29 cultures were isolated from its main raw substrate: clams. The identification results revealed up to 11 distinct bacterial species belonging to five genera in sian-sianzih, and three species belonging to two genera in clams. The most common bacterial genera in sian-sianzih were Lactobacillus and Weissella, followed by Leuconostoc, Pediococcus and Lactococcus. A regional similarity in LAB, with differences in diversity, was observed in the current study. On the other hand, Lactococcus lactis subsp. lactis was the most common species found in raw clam samples. The results also suggested that greater LAB diversity could be observed in wild clams than in cultured ones. Furthermore, antibacterial activities of the isolates were determined, and one Weisella hellenica strain showed inhibitory activity against the indicator strain Lactobacilluas sakei JCM 1157(T) . A sensory assessment of seven sian-sianzih samples was also performed and the results indicated that diversity of LAB has a great effect on its aroma and taste formation. The results demonstrate that various LAB species are distributed in sian-sianzih and have a great effect on the flavor of sian-sianzih. Copyright © 2011 Society of Chemical Industry.

A novel approach for acid mine drainage pollution biomonitoring using rare earth elements bioaccumulated in the freshwater clam Corbicula fluminea.

PubMed

Bonnail, Estefanía; Pérez-López, Rafael; Sarmiento, Aguasanta M; Nieto, José Miguel; DelValls, T Ángel

2017-09-15

Lanthanide series have been used as a record of the water-rock interaction and work as a tool for identifying impacts of acid mine drainage (lixiviate residue derived from sulphide oxidation). The application of North-American Shale Composite-normalized rare earth elements patterns to these minority elements allows determining the origin of the contamination. In the current study, geochemical patterns were applied to rare earth elements bioaccumulated in the soft tissue of the freshwater clam Corbicula fluminea after exposure to different acid mine drainage contaminated environments. Results show significant bioaccumulation of rare earth elements in soft tissue of the clam after 14 days of exposure to acid mine drainage contaminated sediment (ΣREE=1.3-8μg/gdw). Furthermore, it was possible to biomonitor different degrees of contamination based on rare earth elements in tissue. The pattern of this type of contamination describes a particular curve characterized by an enrichment in the middle rare earth elements; a homologous pattern (E MREE =0.90) has also been observed when applied NASC normalization in clam tissues. Results of lanthanides found in clams were contrasted with the paucity of toxicity studies, determining risk caused by light rare earth elements in the Odiel River close to the Estuary. The current study purposes the use of clam as an innovative "bio-tool" for the biogeochemical monitoring of pollution inputs that determines the acid mine drainage networks affection. Copyright © 2017 Elsevier B.V. All rights reserved.

Thermal inactivation kinetics of hepatitis A virus in homogenized clam meat (Mercenaria mercenaria).

PubMed

Bozkurt, H; D'Souza, D H; Davidson, P M

2015-09-01

Epidemiological evidence suggests that hepatitis A virus (HAV) is the most common pathogen transmitted by bivalve molluscs such as clams, cockles, mussels and oysters. This study aimed to generate thermal inactivation kinetics for HAV as a first step to design adequate thermal processes to control clam-associated HAV outbreaks. Survivor curves and thermal death curves were generated for different treatment times (0-6 min) at different temperatures (50-72°C) and Weibull and first-order models were compared. D-values for HAV ranged from 47·37 ± 1·23 to 1·55 ± 0·12 min for the first-order model and 64·43 ± 3·47 to 1·25 ± 0·45 min for the Weibull model at temperatures from 50 to 72°C. z-Values for HAV in clams were 12·97 ± 0·59°C and 14·83 ± 0·0·28°C using the Weibull and first-order model respectively. The calculated activation energies for the first-order and Weibull model were 145 and 170 kJ mole(-1) respectively. The Weibull model described the thermal inactivation behaviour of HAV better than the first-order model. This study provides novel and precise information on thermal inactivation kinetics of HAV in homogenized clams. This will enable reliable thermal process calculations for HAV inactivation in clams and closely related seafood. © 2015 The Society for Applied Microbiology.

Can ecological history influence immunomarker responses and antioxidant enzyme activities in bivalves that have been experimentally exposed to contaminants? A new subject for discussion in "eco-immunology" studies.

PubMed

Matozzo, Valerio; Giacomazzo, Matteo; Finos, Livio; Marin, Maria Gabriella; Bargelloni, Luca; Milan, Massimo

2013-07-01

Numerous studies have demonstrated that environmental parameters affect bivalve immunomarkers. In the present study, we tested the hypothesis that clams (Venerupis philippinarum) collected in sites with different environmental conditions respond differently to experimental contaminant exposure. Clams were collected at two sites within the Lagoon of Venice that are influenced differently by both anthropogenic impact and natural conditions: Marghera, which is characterised by relatively high contamination levels and restricted clam fishing, and Chioggia, which is inside a licensed clam culture area that is characterised by lower contamination levels. Total haemocyte count, haemocyte diameter and volume, lysozyme activity in both haemocyte lysate and cell-free haemolymph, superoxide dismutase and catalase activities in gills and digestive glands were measured at time 0 (clam sampling time), after 7 days of acclimation in the laboratory and after 1, 3 and 7 days of copper exposure. Interestingly, statistical analyses (three-way ANOVA and Canonical Correlation Analysis) revealed persistent differences in the biological responses of clams from the two sampling sites before and after copper exposure. Conversely, the influence of copper on cellular and biochemical parameters was negligible. Overall, the results obtained indicated that animals with a different ecological history respond differently to experimental contaminant exposure. In addition, this study suggested that immunomarkers and other biomarkers might be used to determine the origin of fishing products. Copyright © 2013 Elsevier Ltd. All rights reserved.

Vibrios isolated from the cultured manila clam (Ruditapes philippinarum): numerical taxonomy and antibacterial activities.

PubMed

Castro, D; Pujalte, M J; Lopez-Cortes, L; Garay, E; Borrego, J J

2002-01-01

A numerical taxonomic study of halophilic Vibrio isolated from healthy and brown ring disease (BRD) affected manila clams (Ruditapes philippinarum), harvested from the Atlantic coast of south-western Spain, was performed. Characterization of 123 presumptive Vibrio spp. was carried out using 94 phenotypic tests. Simple matching and Jaccard similarity coefficients were used for numerical analysis. Cluster analysis by the unweighted pair group method with arithmetic averages yielded 15 phena defined at 0.81 similarity. Large phena corresponded to Vibrio tubiashii, V. splendidus biotype I and V. harveyi (phena 1, 5 and 9, respectively). The species V.splendidus biotype II, V. natriegens, V. mediterranei and V. alginolyticus were also represented. The inhibitory effect of diffusible extracellular products of the isolates against 27 strains of V.tapetis, the aetiological agent of BRD, was also investigated. Only five V. tubiashii isolates inhibited the growth of V. tapetis strains. The antimicrobial effect was inhibited by heating and depended on the culture medium. The main Vibrio species associated with manila clams were V. tubiashii, V.spendidus and V. harveyi. The antagonistic relationship established between V. tapetis and the Vibrio spp. clam microbiota may explain the failure of isolation in plating medium of V.tapetis from BRD-affected clams on the south Atlantic coast of Spain. Some of the strains isolated from manila clams correspond to agarolytic strains that constitute phenon 7 and they do not fit into any of the currently described Vibrio species.

Zooxanthellal genetic varieties in giant clams are partially determined by species-intrinsic and growth-related characteristics.

PubMed

Ikeda, Shota; Yamashita, Hiroshi; Kondo, Shi-Nobu; Inoue, Ken; Morishima, Shin-Ya; Koike, Kazuhiko

2017-01-01

Giant clams (tridacnine shellfishes) are large bivalves that inhabit tropical and subtropical waters and harbor the symbiotic microalgae zooxanthellae, which consist of diverse phylotypes (clades). Each clade exhibits unique physiological characteristics, and the cladal composition may influence the host's survival and its ability to tolerate environmental changes. Using quantitative PCR (qPCR) assays, we investigated the zooxanthellal genetic clades in Tridacna crocea (n = 93) and Tridacna squamosa (n = 93). These two clam species were artificially bred and maintained for an extended time period under an equivalent environment in an outdoor pond. Results showed that T. crocea had a simpler cladal composition and with an apparent dominance of clade A, whereas multiple clades were present in T. squamosa. The zooxanthellae clade A is known to occur in other zooxanthellae-bearing animals that inhabit shallow waters, which is consistent to the shallow water habitat preference of T. crocea. Interestingly, in larger individuals of T. squamosa, the main zooxanthellal clade was C rather than A. The mechanism underlying the dominance of clade C in the larger T. squamosa has not yet been clarified. However, the additional photosynthates supplied by clade C may be preferable for growing clams, as is observed in corals. The cladal composition of giant clams has previously been reported to be primarily controlled by environmental factors. However, our experiments subjected different clam species to the same environmental conditions, and our results suggested that species-intrinsic and/or growth-related processes may also influence the cladal composition.

Grazing impact of the invasive clam Corbula amurensis on the microplankton assemblage of the northern San Francisco Estuary

USGS Publications Warehouse

Greene, Valerie E.; Sullivan, Lindsay J.; Thompson, Janet K.; Kimmerer, Wim J.

2011-01-01

Grazing by the overbite clam Corbula amurensis (formerly known as Potamocorbula) may be the cause of substantial declines in phytoplankton biomass and zooplankton in the San Francisco Estuary (SFE) following its introduction in 1986. While grazing rates have been examined on bacteria, phytoplankton, and copepod nauplii, the consumption of protistan microzooplankton by C. amurensis has not previously been measured. In this study, laboratory feeding experiments revealed that C. amurensis cleared 0.5 l ind-1 h-1 of microzooplankton (ciliates) and 0.2 l ind-1 h-1 of chlorophyll (chl) a. Despite the higher clearance rate on microzooplankton, clams obtained more of their carbon from phytoplankton, which dominated the prey assemblage on most dates. When the measured clearance rates are extrapolated to field populations of clams, fractional loss rates (50 to 90% d-1) exceed the population growth capacity of microzooplankton. Although microzooplankton may not be a major component of the diet of these clams, C. amurensis may further alter food web dynamics through consumption of this important trophic intermediary, thus disrupting this link from bacteria and phytoplankton to higher trophic levels.

Grazing impact of the invasive clam Corbula amurensis on the microplankton assemblage of the northern San francisco estuary

USGS Publications Warehouse

Greene, V.E.; Sullivan, L.J.; Thompson, J.K.; Kimmerer, W.J.

2011-01-01

Grazing by the overbite clam Corbula amurensis (formerly known as Potamocorbula) may be the cause of substantial declines in phytoplankton biomass and zooplankton in the San Francisco Estuary (SFE) following its introduction in 1986. While grazing rates have been examined on bacteria, phytoplankton, and copepod nauplii, the consumption of protistan microzooplankton by C. amurensis has not previously been measured. In this study, laboratory feeding experiments revealed that C. amurensis cleared 0.5 l ind-1 h-1 of microzooplankton (ciliates) and 0.2 l ind-1 h-1 of chlorophyll (chl) a. Despite the higher clearance rate on microzooplankton, clams obtained more of their carbon from phytoplankton, which dominated the prey assemblage on most dates. When the measured clearance rates are extrapolated to field populations of clams, fractional loss rates (50 to 90% d-1) exceed the population growth capacity of microzooplankton. Although microzooplankton may not be a major component of the diet of these clams, C. amurensis may further alter food web dynamics through consumption of this important trophic intermediary, thus disrupting this link from bacteria and phytoplankton to higher trophic levels. ?? Inter-Research 2011.

Design of a Localized Fluidization Burrowing Robot

NASA Astrophysics Data System (ADS)

Dorsch, Daniel; Winter, Amos

2014-11-01

This presentation will focus on the critical fluid and granular mechanics principles that drove the design of RoboClam 2.0, a self-actuated, radially expanding underwater burrowing device. RoboClam 2.0 was inspired by the Atlantic razor clam, Ensis directus, which burrows by contracting its valves and fluidizing the surrounding soil to reduce burrowing drag. This contraction results in a localized fluidized region occurring 1-5 body radii away from the animal. Moving through a fluidized, rather than static, soil requires energy that scales linearly with depth, rather than depth squared. In addition to providing an advantage for the animal, localized fluidization may yield significant value to engineering applications such as subsea robot anchoring and pipe installation. RoboClam 2.0 is sized to be an anchoring platform for autonomous underwater vehicles. We will present the scaling relationships that can be used to design RoboClam derivatives for different size scales and applications. The critical speed, displacement and force with which the device must contract to create fluidization are calculated based on soil parameters. These parametric relationships allow for choosing actuators of appropriate size and power output for desired burrowing performance.

Nutritional value of winter foods for whooping cranes

USGS Publications Warehouse

Nelson, J.T.; Slack, R.D.; Gee, G.F.

1996-01-01

We measured metabolizable energy and digestibility of Whooping Crane (Grus americana) winter foods (blue crab [Callinectes sapidus]), common Rangia clam (Rangia cuneata), wolfberry fruit (Lycium carolinianurn [wolfberry]), and live oak acorn (Ouercus virginiana [acorn])] with feeding trials to captive-reared Whooping Cranes. Apparent metabolizable energy coefficients (expressed as %) were for crab (34.1), Rangia clam (75.0), wolfberry (44.8), and acorn (43.2). Digestion coefficients for protein were lower for plant foods (48.9 and 53.4) than for animal foods (69.4 and 75.2). Digestion coefficients for total lipid differed among foods: highest and lowest lipid digestibility was for acorn (87.2) and wolfberry (60.0), respectively. We also determined total energy and percent protein and lipid of the four foods and stout razor clam (Tagelus plebeius); gross energy was 2-5x higher for acorn and wolfberry on a dry-weight basis than for blue crab and stout razor clam. Crude protein was 2-3x higher for blue crab than for wolfberry and stout razor clam. Wolfberry ranked the highest of five foods for metabolic energy and total lipid nutrient availability per kg of food ingested, and blue crab ranked highest for crude protein availability.

Archive and Analysis of Data Collected Aboard the University of Washington's Convair-580 Research Aircraft in CLAMS

NASA Technical Reports Server (NTRS)

Hobbs, Peter V.

2004-01-01

Work under this grant has been concerned with: (a) quality-assurance (QA) checking of the data collected on the University of Washington s (UW) Convair- 580 in the Chesapeake Lighthouse and Measurements for Satellites (CLAMS) field study in the Summer of 2001, (b) providing these data to the Langley DAAC, (c) providing specific data to users as requested, (d) analysis of portions of the data and publication of results, and (e) presentation of CLAMS results at workshop and conferences.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chong, K.; Wang, W.X.

The green mussel Perna viridis and the clam Ruditapes philippinarum have been frequently used as biomonitors of coastal contamination in subtropical and tropical waters, yet the physiological processes controlling metal uptake in these bivalves are unknown. Assimilation efficiency (AE) is an important physiological parameter quantifying metal bioavailability from ingested food. The authors determined the AEs of Cd, CR, and Zn in these bivalves feeding on five species of phytoplankton and one natural section. The influences of the cytoplasmic distribution of metals in the algal cells and the digestive physiology of bivalves on metal AEs were also examined. Among the threemore » metals, Zn was generally assimilated at the highest efficiency, i.e., 21 to 36% in the mussels and 29 to 59% in the clams. Cr was the least assimilated metal, with AEs being 10 to 16% in the mussels and 11 to 24% in the clams. The AEs of Cd and Zn in the clams were 1.8 to 4.7 and 1.1 to 1.9 times higher, respectively, than the AEs in the mussels. Assimilation efficiencies of Cr were, however, comparable between the mussels and the clams. A positive significant relationship between the metal AE and the percent of metals in the algal cytoplasm was found only for Cd in the clams, suggesting that Cd fractionation in the algal cells influenced its assimilation. No significant relationship, however, was found for other metals in both bivalves. A significant relationship between Cr-assimilation efficiency and gut passage time (GPT) was documented in the mussels, indicating a higher assimilation when Cr was retained longer in the gut. There was also significant correlation of metal AEs among the three metals, which were probably subjected to the same digestive pathway in the bivalves. Their study demonstrated that both the green mussels and the clams were able to accumulate metals from ingested food source, and food quality appeared to have different effects on metal assimilation in different bivalve species.« less

Relationships between the stable isotopic signatures of living and fossil foraminifera in Monterey Bay, California

NASA Astrophysics Data System (ADS)

Martin, Jonathan B.; Day, Shelley A.; Rathburn, Anthony E.; Perez, M. Elena; Mahn, Chris; Gieskes, Joris

2004-04-01

Fossil foraminifera are critical to paleoceanographic reconstructions including estimates of past episodes of methane venting. These reconstructions rely on benthic foraminifera incorporating and retaining unaltered the ambient isotopic compositions of pore fluids and bottom waters. Comparisons are made here of isotopic compositions of abundant live and fossil foraminifera (Uvigerina peregrina, Epistominella pacifica, Bulimina mexicana, and Globobulimina pacifica) collected in Monterey Bay, CA from two cold seeps (Clam Flats and Extrovert Cliffs) and from sediments ˜5 m outside of the Clam Flats seep. Clam Flats has steep δ13CDIC gradients (to <-45‰), but DIC at Extrovert Cliffs is less enriched in 12C (to approximately -22‰). Oxygen isotope values of fossil foraminifera at Clam Flats are ˜1.5‰ enriched in 18O over the living foraminifera, as well as those of both live and fossil foraminifera at Extrovert Cliffs, suggesting they may have lived during the last glacial maximum. Statistical comparisons (Student's t and Kolmogorov-Smirnov tests) of δ13C and δ18O values indicate that live and fossil foraminifera come from different populations at both Clam Flats and Extrovert Cliffs. At Clam Flats, the difference appears to result from alteration enriching some fossil foraminifera in 12C over live foraminifera. At Extrovert Cliffs, the fossil foraminifera are enriched in 13C over the live foraminifera, suggesting they lived prior to the onset of venting and thus that venting began recently. The short time of venting at Extrovert Cliffs may be responsible for the less alteration there compared with Clam Flats. These results indicate that preservation of foraminifera is likely to be poor within long-lived cold seeps, but that foraminifera living in the surrounding sediment may incorporate and preserve broad basin-wide changes in isotopic compositions of the ambient water.

Evaluation of toxicological effects induced by tributyltin in clam Ruditapes decussatus using high-resolution magic angle spinning nuclear magnetic resonance spectroscopy: Study of metabolic responses in heart tissue and detection of a novel metabolite.

PubMed

Hanana, H; Simon, G; Kervarec, N; Cérantola, S

2014-01-01

Tributyltin (TBT) is a highly toxic pollutant present in many aquatic ecosystems. Its toxicity in mollusks strongly affects their performance and survival. The main purpose of this study was to elucidate the mechanisms of TBT toxicity in clam Ruditapes decussatus by evaluating the metabolic responses of heart tissues, using high-resolution magic angle-spinning nuclear magnetic resonance (HRMAS NMR), after exposure to TBT (10 -9 , 10 -6 and 10 -4 M) during 24 h and 72 h. Results show that responses of clam heart tissue to TBT exposure are not dose dependent. Metabolic profile analyses indicated that TBT 10 -6 M, contrary to the two other doses tested, led to a significant depletion of taurine and betaine. Glycine levels decreased in all clam groups treated with the organotin. It is suggested that TBT abolished the cytoprotective effect of taurine, betaine and glycine thereby inducing cardiomyopathie. Moreover, results also showed that TBT induced increase in the level of alanine and succinate suggesting the occurrence of anaerobiosis particularly in clam group exposed to the highest dose of TBT. Taken together, these results demonstrate that TBT is a potential toxin with a variety of deleterious effects on clam and this organotin may affect different pathways depending to the used dose. The main finding of this study was the appearance of an original metabolite after TBT treatment likely N-glycine-N'-alanine. It is the first time that this molecule has been identified as a natural compound. Its exact role is unknown and remains to be elucidated. We suppose that its formation could play an important role in clam defense response by attenuating Ca 2+ dependent cell death induced by TBT. Therefore this compound could be a promising biomarker for TBT exposure.

PAH (Polycyclic Aromatic Hydrocarbon) bioaccumulation and PAHs/shell weight index in Ruditapes philippinarum (Adams & Reeve, 1850) from the Vallona lagoon (northern Adriatic Sea, NE Italy).

PubMed

Cacciatore, Federica; Bernarello, Valentina; Boscolo Brusà, Rossella; Sesta, Giulio; Franceschini, Gianluca; Maggi, Chiara; Gabellini, Massimo; Lamberti, Clauda Virno

2018-02-01

The Vallona lagoon is a transitional area located in the Po River delta (NE, ITALY) traditionally exploited for Manila clam (Ruditapes philippinarum) farming. During 2007-2008, a pipeline was buried in the middle of the lagoon to connect an off-shore structure to facilities on land. PAH levels were monitored in Manila clams and sediments before, during and after the pipeline construction to assess the impact of the activities through the pattern of distribution of the PAH compounds. PAH bioaccumulation in clams displayed seasonal fluctuations with higher levels in autumnal and wintry surveys than in spring-summer. Principal component analysis applied to PAHs in clams highlighted a petrogenic input during ante operam period and a pyrolytic origin during the burying activities. On the contrary, sediment PAH concentrations resulted quite similar both among sites and periods. Biota-Sediment-Accumulation-Factor values also confirmed that sediments were not the major source of PAH pollution for clams in this study. The welfare of clams was examined through two physiological indices (condition index and survival in air) to check the effects of the activities on a commercial resource. Both physiological indices exhibited seasonal variations connected to natural endogenous and exogenous factors; however survival in air was the most sensitive index in highlighting the effects of the pipeline burying activities. Finally, to ensure that PAH bioavailability assessment was not affected by seasonal variation of soft tissues of molluscs, PAHs/shell weight index was applied. Higher levels of this index were observed before and during the burying activities, whilst, after that, values significantly lowered. Moreover, the normalization enabled us to highlight the PAH uptake from clams in some particular periods and to compare different populations in a long-term biomonitoring program with data obtained from different periods of the year. Copyright © 2017 Elsevier Inc. All rights reserved.

50 CFR 648.77 - Framework adjustments to management measures.

Code of Federal Regulations, 2010 CFR

2010-10-01

... Management Measures for the Atlantic Surf Clam and Ocean Quahog Fisheries § 648.77 Framework adjustments to... add or adjust management measures within the Atlantic Surf Clam and Ocean Quahog FMP if it finds that...

Metabolic responses in gills of Manila clam Ruditapes philippinarum exposed to copper using NMR-based metabolomics.

PubMed

Zhang, Linbao; Liu, Xiaoli; You, Liping; Zhou, Di; Wu, Huifeng; Li, Lianzhen; Zhao, Jianmin; Feng, Jianghua; Yu, Junbao

2011-07-01

Copper is an important heavy metal contaminant with high ecological risk in the Bohai Sea. In this study, the metabolic responses in the bioindicator, Manila clam (Ruditapes philippinarum), to the environmentally relevant copper exposures were characterized using NMR-based metabolomics. The significant metabolic changes corresponding to copper exposures were related to osmolytes, intermediates of the Krebs cycle and amino acids, such as the increase in homarine, branched chain amino acids and decrease in succinate, alanine and dimethylamine in the copper-exposed clam gills during 96 h exposure period. Overall, Cu may lead to the disturbances in osmotic regulation and energy metabolism in clams during 96 h experimental period. These results demonstrate that NMR-based metabolomics is applicable for the discovery of metabolic biomarkers which could be used to elucidate the toxicological mechanisms of marine heavy metal contaminants. Copyright © 2011 Elsevier Ltd. All rights reserved.

Organic contamination in clams, Venerupis aurea laeta and Cerastoderma edule glaucum, from Sicily (Italy).

PubMed

Di Bella, Giuseppa; Potortì, Angela Giorgia; Licata, Patrizia; Pellizzeri, Vito; Ben Mansour, Hedi; Dugo, Giacomo; Lo Turco, Vincenzo

2018-06-01

Two species of edible clams Venerupis aurea laeta and Cerastoderma edule glaucum from Ganzirri Lake (Sicily, Italy) were investigated to determine OCP and PCB residues by GC-MS. Thirty-five samples were examined for two years in order to perform: a) their actual contamination; b) the daily dietary exposure of seafood consumers to the pollutants in question. In all the clams analysed in this study, PCB and OCP (4,4'-DDE) residues are always below the limits fixed by law. It seems that there is some seasonality of concentrations observed. In fact the more high concentrations of residues are detected in the hot months, for both species and years. Given the consumption of clams and the values obtained in this study for the two species analysed, it is possible estimate that the average daily dietary intake of NDL-PCB and of 4,4'-DDE for adults is really low.

Chlordane, DDT, PCB's, and other selected organic compounds in Asiatic clams and yellow bullhead in the Potomac River Basin, 1992

USGS Publications Warehouse

Zappia, Humbert

1996-01-01

Chlordane, DDT (dichlor-diphenyl-trichloroethane), and PCB's (polychlorinated biphenyls) were the most widespread organic contaminants detected during a 1992 survey of aquatic biological tissues in the Potomac River Basin. On the basis of existing U.S. Food and Drug Administration criteria, no new threats to human health were discovered, although chlordane concentrations may pose a threat to fish-eating wildlife. Chlordane exceeded the National Academy of Science and National Academy of Engineering recommended maximum concentration for the protection of fish-eating wildlife at two sites. The survey, conducted by the U.S. Geological Survey's National Water-Quality Assessment Program, sampled Asiatic clams (Corbicula fluminea) and yellow bullhead (Ameiurus natalis) at 16 sites to determine the occurrence and distribution of 29 hydrophobic organic compounds. Thirteen of these organic compounds were detected in the survey. Sites with the greatest number of compounds detected include the Potomac River near Alexandria, Va., with 6 compounds detected in Asiatic clam tissue, and Accotink Creek near Annandale, Va., with 11 compounds in yellow bullhead tissue. Chlordane was detected at six sites, with maximum concentrations of 31.1 ?g/kg (micrograms per kilograms) in Asiatic clam tissue and 127 ?g/kg in yellow bullhead whole-fish tissue. DDT was detected at five sites, with maximum concentrations of 12.9 ?g/kg in Asiatic clam tissue and 7.6 ?g/kg in yellow bullhead whole-fish tissue. PCB's were detected at nine sites, with maximum concentrations of 162 ?g/kg in Asiatic clam tissue and 146 mg/ kg in yellow bullhead whole-fish tissue.

Biofiltration using C. fluminea for E.coli removal from water: Comparison with ozonation and photocatalytic oxidation.

PubMed

Gomes, João F; Lopes, Ana; Gonçalves, Daniel; Luxo, Cristina; Gmurek, Marta; Costa, Raquel; Quinta-Ferreira, Rosa M; Martins, Rui C; Matos, Ana

2018-06-06

Corbicula fluminea, an Asian clam, is one of the worst invasive species in Europe that can survive in very adverse environmental conditions. Despite its negative impacts, the species also has the capacity to bioaccumulate heavy metals, contaminants and can be exploited for wastewater treatment purposes. The capacity of the Asian clam to remove Escherichia coli, used as fecal contamination indicator, was analyzed. Conventional wastewater treatment plants are not suitable to remove bacteria, thus resulting in treated municipal wastewater with high bacterial loads. E. coli clearance rate was analyzed as function of the number of clams. The bivalves can remove bacteria until concentrations below the detection limit in about 6 h. The adsorption on the clam shells' and bioaccumulation on the soft tissues were also analyzed. The depuration of clams along 48 h were analyzed revealing that no bacteria was detected in the water. Thus, these results suggest that Asian clam can bioprocess E. coli. On the other hand, results obtained by this methodology were compared with ozonation and photocatalytic oxidation using TiO 2 , Ag, Au, Pd-TiO 2 . In all treatments it was possible to achieve concentrations of E. coli below the detection limit. However, photocatalytic oxidation demands about 4700 folds more energy than ozonation, besides the costs associated with catalysts. Comparing complexity of ozonation with biofiltration, this study suggests that application of biofiltration using C. fluminea can be a suitable solution to minimize the presence of bacteria in wastewater, reducing environmental and economic impacts. Copyright © 2018 Elsevier Ltd. All rights reserved.

Effect of some habitual cooking processes on the domoic acid concentration in the cockle (Cerastoderma edule) and Manila clam (Ruditapes philippinarum).

PubMed

Vidal, A; Correa, J; Blanco, J

2009-07-01

The effect of cooking on the concentration and burden of domoic acid in two bivalve molluscs was studied. The Manila clam (Ruditapes philippinarum) and cockle (Cerastoderma edule) were subjected to steaming and boiling, respectively. In both cases, factorial plans were used to evaluate the effects of common cooking methods and the variations likely to take place during the cooking procedure (cooking time and salt concentration in both species, in addition to ethanol percentage in Manila clam). The domoic acid concentration and toxin content were affected by cooking in very different ways in the two species studied. The cockle lost a significant part of its domoic acid content, while the clam did not. Since the weight of the soft tissues in cooked bivalves was lower than in the raw samples in both species, the toxin concentration decreased less than the toxin burden in the cockle, while it increased in the clam, where the toxin burden did not change significantly. Among the cooking variables tested, only cooking time had a noticeable effect on the domoic acid content in the clam and cockle, with the bivalves that were cooked for a longer time having smaller amounts of toxin. It is clear that cooking affects the toxin concentration in bivalves in a way that is species specific. This characteristic must be taken into account when evaluating epidemiological information, establishing allowable toxin levels and in cases where pre-processing treatments such as cooking or similar methods are used in monitoring systems.

Depuration of striped venus clam (Chamelea gallina L.): effects on microorganisms, sand content, and mortality.

PubMed

Maffei, M; Vernocchi, P; Lanciotti, R; Guerzoni, M E; Belletti, N; Gardini, F

2009-01-01

This study was focused on the evaluation of the microbiological indices, defined by European legislation, before and after the depuration of clams (Chamelea gallina) landed in category B seawater. The survival of depurated clams and the meat yield were also evaluated. The results obtained from October 2002 to September 2003 evidenced a mean microbial reduction during depuration of 62% for Escherichia coli and 54% for fecal coliforms (FC). All the samples had FC counts below the limit after 24 h depuration with the exception of the August samples. E. coli was found in concentration slightly higher than the legal limit only in the samples of December and January. In August, the E. coli concentration did not decrease during the depuration, while in the other samples significant reduction of E. coli concentration was observed. Salmonella spp. and V. parahaemolyticus were never detected in the clams harvested between March and September. Vibrio alginolyticus was found in the clams harvested in May and September both before and after the depuration process. The viability of clam was not negatively affected by depuration, in fact, an increase of viability was observed with the exception of the samples of April. The meat yield was not influenced by the depurative treatment in C. gallina; the mean value found before depuration, 10.47% (with 1.95 SD), did not significantly vary after the treatment (10.58%, SD 2.07). In conclusion, the depuration conditions can improve the quality of C. gallina; however, its effects on microbiological quality depended on environmental conditions.

Balancing the generation and elimination of reactive oxygen species

USGS Publications Warehouse

Rodriguez, Rusty; Redman, Regina

2005-01-01

Fossil records suggest that bacteria developed the ability to photosynthesize ≈3,500 million years ago (mya), initiating a very slow accumulation of atmospheric oxygen (1). Recent geochemical models suggest that atmospheric oxygen did not accumulate to levels conducive for aerobic life until 500–1,000 mya (2, 3). The oxygenation of Earth's atmosphere resulted in the emergence of aerobic organisms followed by a great diversification of biological species and the eventual evolution of humans.

Neuronal Nitric Oxide Synthase Is Dislocated in Type I Fibers of Myalgic Muscle but Can Recover with Physical Exercise Training

PubMed Central

Jensen, L.; Andersen, L. L.; Schrøder, H. D.; Frandsen, U.; Sjøgaard, G.

2015-01-01

Trapezius myalgia is the most common type of chronic neck pain. While physical exercise reduces pain and improves muscle function, the underlying mechanisms remain unclear. Nitric oxide (NO) signaling is important in modulating cellular function, and a dysfunctional neuronal NO synthase (nNOS) may contribute to an ineffective muscle function. This study investigated nNOS expression and localization in chronically painful muscle. Forty-one women clinically diagnosed with trapezius myalgia (MYA) and 18 healthy controls (CON) were included in the case-control study. Subsequently, MYA were randomly assigned to either 10 weeks of specific strength training (SST, n = 18), general fitness training (GFT, n = 15), or health information (REF, n = 8). Distribution of fiber type, cross-sectional area, and sarcolemmal nNOS expression did not differ between MYA and CON. However, MYA showed increased sarcoplasmic nNOS localization (18.8 ± 12 versus 12.8 ± 8%, P = 0.049) compared with CON. SST resulted in a decrease of sarcoplasm-localized nNOS following training (before 18.1 ± 12 versus after 12.0 ± 12%; P = 0,027). We demonstrate that myalgic muscle displays altered nNOS localization and that 10 weeks of strength training normalize these disruptions, which supports previous findings of impaired muscle oxygenation during work tasks and reduced pain following exercise. PMID:25853139

The Chesapeake Lighthouse and Aircraft Measurements for Satellites (CLAMS) Experiment

NASA Technical Reports Server (NTRS)

Smith, William L., Jr.; Charlock, Thomas; Wielicki, Bruce; Kahn, Ralph; Martins, J. Vanderlei; Gatebe, Charles; Hobbs, Peter V.; Purgold, G. Carl; Redemann, Jens; Remer, Lorraine

2004-01-01

NASA has developed an Earth Observing System (EOS) consisting of a series of satellites designed to study global change from space. The EOS flagship is the EOS TERRA satellite, launched in December 1999, equipped with five unique sensors to monitor and study the Earth s heat budget and many of the key controlling variables governing the Earth's climate system. CLAMS, the Chesapeake Lighthouse and Aircraft Measurements for Satellites field campaign was conducted from NASA Wallops Flight Facility and successfully executed over the middle Atlantic eastern seaboard from July 10 August 2, 2001. CLAMS is primarily a shortwave closure experiment designed to validate and improve EOS TERRA satellite data products being derived from three sensors: CERES (Clouds and Earth's Radiant Energy System), MISR (Multi-angle Imaging Spectro-Radiometer) and MODIS (MODerate Resolution Imaging Spectroradiometer). CLAMS is jointly sponsored by the CERES, MISR and MODIS instrument teams and the NASA GEWEX Global Aerosol Climatology Project (GACP). CLAMS primary objectives are to validate satellite-based retrievals of aerosol properties and vertical profiles of radiative flux, temperature and water vapor. Central to CLAMS measurement strategy is the Chesapeake Lighthouse, a stable sea platform located in the Atlantic Ocean, 13 miles east of Virginia Beach near the mouth of the Chesapeake Bay and the site of an ongoing CERES Ocean Validation Experiment (COVE). Six research aircraft were deployed to make detailed measurements of the atmosphere and ocean surface in the vicinity of COVE, over the surrounding ocean, over nearby NOAA buoys and over a few land sites. The measurements are used to validate and provide ground truth for simultaneous products being derived from TERRA data, a key step toward an improved understanding and ability to predict changes in the Earth's climate. One of the two CERES instruments on-board TERRA was programmed for Rotating Azimuth Plane Scans (RAPS) during CLAMS, increasing the CERES coverage over COVE by a factor of 10. Nine coordinated aircraft missions and numerous additional sorties were flown under a variety of atmospheric conditions and aerosol loadings. On one golden day, July 17, all six aircraft flew coordinated patterns, vertically stacked between 100 ft and 65,000 ft over the COVE site as the TERRA satellite orbited overhead. A summary of CLAMS measurement campaign and a description of the platforms and measurements is given.

Does seawater acidification affect survival, growth and shell integrity in bivalve juveniles?

PubMed

Bressan, M; Chinellato, A; Munari, M; Matozzo, V; Manci, A; Marčeta, T; Finos, L; Moro, I; Pastore, P; Badocco, D; Marin, M G

2014-08-01

Anthropogenic emissions of carbon dioxide are leading to decreases in pH and changes in the carbonate chemistry of seawater. Ocean acidification may negatively affect the ability of marine organisms to produce calcareous structures while also influencing their physiological responses and growth. The aim of this study was to evaluate the effects of reduced pH on the survival, growth and shell integrity of juveniles of two marine bivalves from the Northern Adriatic sea: the Mediterranean mussel Mytilus galloprovincialis and the striped venus clam Chamelea gallina. An outdoor flow-through plant was set up and two pH levels (natural seawater pH as a control, pH 7.4 as the treatment) were tested in long-term experiments. Mortality was low throughout the first experiment for both mussels and clams, but a significant increase, which was sensibly higher in clams, was observed at the end of the experiment (6 months). Significant decreases in the live weight (-26%) and, surprisingly, in the shell length (-5%) were observed in treated clams, but not in mussels. In the controls of both species, no shell damage was ever recorded; in the treated mussels and clams, damage proceeded via different modes and to different extents. The severity of shell injuries was maximal in the mussels after just 3 months of exposure to a reduced pH, whereas it progressively increased in clams until the end of the experiment. In shells of both species, the damaged area increased throughout the experiment, peaking at 35% in mussels and 11% in clams. The shell thickness of the treated and control animals significantly decreased after 3 months in clams and after 6 months in mussels. In the second experiment (3 months), only juvenile mussels were exposed to a reduced pH. After 3 months, the mussels at a natural pH level or pH 7.4 did not differ in their survival, shell length or live weight. Conversely, shell damage was clearly visible in the treated mussels from the 1st month onward. Monitoring the chemistry of seawater carbonates always showed aragonite undersaturation at 7.4 pH, whereas calcite undersaturation occurred in only 37% of the measurements. The present study highlighted the contrasting effects of acidification in two bivalve species living in the same region, although not exactly in the same habitat. Copyright © 2014 Elsevier Ltd. All rights reserved.

A Mobile, Avatar-Based App for Improving Body Perceptions Among Adolescents: A Pilot Test

PubMed Central

Amresh, Ashish; Huberty, Jennifer; Todd, Michael; Lee, Rebecca E

2017-01-01

Background One barrier to effectively treating weight issues among adolescents is that they tend to use social comparison instead of objective measures to evaluate their own health status. When adolescents correctly perceive themselves as overweight, they are more likely to adopt healthy lifestyle behaviors. Objective The purpose of this pilot test was to develop and assess acceptability and usability of an avatar-based, theoretically derived mobile app entitled Monitor Your Avatar (MYA). Methods The MYA app was engineered for high school adolescents to identify, using avatars, what they thought they looked like, what they wanted to look like, and what they actually looked like based on body measurements. Results The MYA app was pilot-tested with male and female adolescents aged 15-18 years to assess for acceptability and usability. A total of 42 students created and viewed their avatars. The majority of the adolescents were female (28/42, 67%), age 16 years (16/42, 38%), white (35/42, 83%), non-Hispanic (36/42, 86%), in grade 10 (20/42, 48%), healthy weight for females (23/28, 82%), and obese for males (7/14, 50%). The adolescents had positive reactions to the avatar app and being able to view avatars that represented them. All but one student (41/42, 98%) indicated some level of comfort viewing the avatars and would use the app in the future to see how their bodies change over time. Conclusions Avatar-based mobile apps, such as the MYA app, provide immediate feedback and allow users to engage with images that are personalized to represent their perceptions and actual body images. This pilot study adds to the increasing but limited research of using games to improve health outcomes among high school adolescents. There is a need to further adapt the MYA app and gather feedback from a larger number of high school adolescents, including those from diverse backgrounds. PMID:28254737

Mitochondrial evidence for multiple radiations in the evolutionary history of small apes

PubMed Central

2010-01-01

Background Gibbons or small apes inhabit tropical and subtropical rain forests in Southeast Asia and adjacent regions, and are, next to great apes, our closest living relatives. With up to 16 species, gibbons form the most diverse group of living hominoids, but the number of taxa, their phylogenetic relationships and their phylogeography is controversial. To further the discussion of these issues we analyzed the complete mitochondrial cytochrome b gene from 85 individuals representing all gibbon species, including most subspecies. Results Based on phylogenetic tree reconstructions, several monophyletic clades were detected, corresponding to genera, species and subspecies. A significantly supported branching pattern was obtained for members of the genus Nomascus but not for the genus Hylobates. The phylogenetic relationships among the four genera were also not well resolved. Nevertheless, the new data permitted the estimation of divergence ages for all taxa for the first time and showed that most lineages emerged during four short time periods. In the first, between ~6.7 and ~8.3 mya, the four gibbon genera diverged from each other. In the second (~3.0 - ~3.9 mya) and in the third period (~1.3 - ~1.8 mya), Hylobates and Hoolock differentiated. Finally, between ~0.5 and ~1.1 mya, Hylobates lar diverged into subspecies. In contrast, differentiation of Nomascus into species and subspecies was a continuous and prolonged process lasting from ~4.2 until ~0.4 mya. Conclusions Although relationships among gibbon taxa on various levels remain unresolved, the present study provides a more complete view of the evolutionary and biogeographic history of the hylobatid family, and a more solid genetic basis for the taxonomic classification of the surviving taxa. We also show that mtDNA constitutes a useful marker for the accurate identification of individual gibbons, a tool which is urgently required to locate hunting hotspots and select individuals for captive breeding programs. Further studies including nuclear sequence data are necessary to completely understand the phylogeny and phylogeography of gibbons. PMID:20226039

Shell concrete pavement.

DOT National Transportation Integrated Search

1966-10-01

This report describes the testing performed with reef shell, clam shell and a combination of reef and clam shell used as coarse aggregate to determine if a low modulus concrete could be developed for use as a base material as an alternate to the pres...

Direct and indirect effects of different types of microplastics on freshwater prey (Corbicula fluminea) and their predator (Acipenser transmontanus)

PubMed Central

Parnis, J. Mark; Browne, Mark A.; Serrato, Sebastian; Reiner, Eric J.; Robson, Matthew; Young, Thomas; Diamond, Miriam L.; Teh, Swee J.

2017-01-01

We examined whether environmentally relevant concentrations of different types of microplastics, with or without PCBs, directly affect freshwater prey and indirectly affect their predators. Asian clams (Corbicula fluminea) were exposed to environmentally relevant concentrations of polyethylene terephthalate (PET), polyethylene, polyvinylchloride (PVC) or polystyrene with and without polychlorinated biphenyls (PCBs) for 28 days. Their predators, white sturgeon (Acipenser transmontanus), were exposed to clams from each treatment for 28 days. In both species, we examined bioaccumulation of PCBs and effects (i.e., immunohistochemistry, histology, behavior, condition, mortality) across several levels of biological organization. PCBs were not detected in prey or predator, and thus differences in bioaccumulation of PCBs among polymers and biomagnification in predators could not be measured. One of the main objectives of this study was to test the hypothesis that bioaccumulation of PCBs would differ among polymer types. Because we could not answer this question experimentally, a bioaccumulation model was run and predicted that concentrations of PCBs in clams exposed to polyethylene and polystyrene would be greater than PET and PVC. Observed effects, although subtle, seemed to be due to microplastics rather than PCBs alone. For example, histopathology showed tubular dilation in clams exposed to microplastics with PCBs, with only mild effects in clams exposed to PCBs alone. PMID:29108004

CLIP-seq analysis of multi-mapped reads discovers novel functional RNA regulatory sites in the human transcriptome.

PubMed

Zhang, Zijun; Xing, Yi

2017-09-19

Crosslinking or RNA immunoprecipitation followed by sequencing (CLIP-seq or RIP-seq) allows transcriptome-wide discovery of RNA regulatory sites. As CLIP-seq/RIP-seq reads are short, existing computational tools focus on uniquely mapped reads, while reads mapped to multiple loci are discarded. We present CLAM (CLIP-seq Analysis of Multi-mapped reads). CLAM uses an expectation-maximization algorithm to assign multi-mapped reads and calls peaks combining uniquely and multi-mapped reads. To demonstrate the utility of CLAM, we applied it to a wide range of public CLIP-seq/RIP-seq datasets involving numerous splicing factors, microRNAs and m6A RNA methylation. CLAM recovered a large number of novel RNA regulatory sites inaccessible by uniquely mapped reads. The functional significance of these sites was demonstrated by consensus motif patterns and association with alternative splicing (splicing factors), transcript abundance (AGO2) and mRNA half-life (m6A). CLAM provides a useful tool to discover novel protein-RNA interactions and RNA modification sites from CLIP-seq and RIP-seq data, and reveals the significant contribution of repetitive elements to the RNA regulatory landscape of the human transcriptome. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

Tropomyosin and Actin Identified as Major Allergens of the Carpet Clam (Paphia textile) and the Effect of Cooking on Their Allergenicity

PubMed Central

Mohamad Yadzir, Zailatul Hani; Misnan, Rosmilah; Bakhtiar, Faizal; Abdullah, Noormalin; Murad, Shahnaz

2015-01-01

Objectives. To identify the major allergenic proteins of clam (Paphia textile) and to investigate the effect of different cooking methods on the allergenicity of these identified proteins. Methods. Clam protein extracts were separated by denaturing polyacrylamide gel electrophoresis. IgE reactive proteins were then analyzed by immunoblotting with sera from patients with positive skin prick tests (SPT) to the raw clam extract. Mass spectrometry was used to identify the major allergenic proteins of this clam. Results. Raw extract showed 12 protein bands (18–150 kDa). In contrast, fewer protein bands were seen in the boiled extract; those ranging from 40 to 150 kDa were denatured. The protein profiles were similarly altered by frying or roasting. The immunoblots of raw and boiled extracts yielded 10 and 2 IgE-binding proteins, respectively. The fried and roasted extracts showed only a single IgE-binding protein at 37 kDa. Mass spectrometry analysis of the 37 and 42 kDa major allergens indicated that these spots were tropomyosin and actin, respectively. Conclusion. The two major allergens of Paphia textile were identified as the thermostable tropomyosin and a new thermolabile allergen actin. PMID:26413512

Age and growth of the sword razor clam Ensis arcuatus in the Ría de Pontevedra (NW Spain): Influence of environmental parameters

NASA Astrophysics Data System (ADS)

Hernández-Otero, A.; Gaspar, M. B.; Macho, G.; Vázquez, E.

2014-01-01

The sword razor clam Ensis arcuatus is the most important commercial species of razor clam in Spain, and its fishery in the Ría de Pontevedra (Galicia, NW Spain) is the most productive. Despite the economic importance of this species, information on its biology is scarce. This study reports shell morphometric relationships, age, and growth rates of E. arcuatus in three fishing beds in the Ría de Pontevedra (Brensa, Bueu and Ons, located in respectively the inner, middle and outer zones of the ria), providing the first estimates of growth parameters for the species in the Iberian Peninsula. Growth was estimated by examination of surface growth rings and internal shell microgrowth patterns (acetate peel technique) that proved to be the most suitable method for growth estimate. Growth of E. arcuatus was slower in Bueu (L∞ = 140.4, k = 0.40) followed by Brensa (L∞ = 151.91, k = 0.40) and Ons (L∞ = 172.7, k = 0.33), and the clams reached commercial size in 1.7, 2.3 and 2.8 years in Ons, Brensa and Bueu, respectively. The differences in growth between sites in relation to environmental parameters are evaluated and the implications for the razor clam fishery are discussed.

Mulinia lateralis (Mollusca: Bivalvia) die-off in South Carolina: discovery of a vector for two elasmobranch cestode species.

PubMed

de Buron, Isaure; Roth, Patricia B; Bergquist, Derk C; Knott, David M

2013-02-01

Unexplained and episodic die-offs of the dwarf surf clam, Mulinia lateralis , have been reported on the West Atlantic coast, with such an occurrence in South Carolina in June 2010. A sample of live clams from the 2010 South Carolina event was collected, and 200 clams were measured and necropsied. Two species of tapeworm larvae were observed. Plerocercoids (Duplicibothrium sp.) occupied the digestive gland ducts, and merocercoids (Rhodobothrium sp.) were found beneath the mantle. Specimens of both species were sequenced to obtain partial 28S rRNA gene sequences, and they were identified as the tetraphyllidean D. minutum and the rhinebothriidean R. paucitesticulare, based on an NCBI Standard Nucleotide BLAST search. Of the 200 clams, 2.1% were infected with merocercoids (mean intensity 1.3 ± 0.2) and 75% with plerocercoids (mean intensity 4.3 ± 3.7). Intensity of infection by plerocercoids increased significantly with individual shell length. The presence of plerocercoids was associated with enlargement of the digestive gland ducts, but no other pathology was observed. Because uninfected clams were abundant among the stranded molluscs, these parasites are not considered to be the causative agent of the die-off. This is a new host record for both elasmobranch tapeworms.

Polycyclic aromatic hydrocarbons bioaccessibility in seafood: Culinary practices effects on dietary exposure.

PubMed

Dos Santos Fogaça, Fabíola Helena; Soares, Cristina; Oliveira, Marta; Alves, Ricardo N; Maulvault, Ana L; Barbosa, Vera L; Anacleto, Patrícia; Magalhães, João Avelar; Bandarra, Narcisa M; Ramalhosa, Maria João; Morais, Simone; Marques, António

2018-07-01

This work aimed to determine the effect of culinary practices on the contamination level and bioaccessibility of polycyclic aromatic hydrocarbons (PAHs) in seafood. The selected farmed seafood species (marine shrimp, clams and seaweed) were commercially available in Portugal. The mean concentrations of PAHs varied between 0.23 and 51.8 µg kg -1 , with the lowest value being observed in raw shrimp and the highest in dried seaweed. The number of compounds detected in seaweed and clams (naphthalene, acenaphthene, fluorene, phenanthrene, benzo(b)fluoranthene and benzo(j)fluoranthene) were higher than in shrimp (fluorene and pyrene). Among the PAHs measured, fluorene was the predominant one. There was a significant interaction effect between species and culinary treatment (p < 0.05), thus boiled and dried seaweed samples presented the lowest and the highest levels of fluorene (0.13 and 1.8 µg kg -1 ), respectively. The daily intake of PAHs decreased with bioaccessibility, varying from 22% for benzo(k)fluoranthene (in raw clam) to 84% for phenanthrene (in steamed clam). According to the potency equivalent concentrations, screening values and bioaccessibility of PAHs, the consumption of marine shrimp, clam and seaweed is considered as safe for consumers. Copyright © 2018 Elsevier Inc. All rights reserved.

Effect of acclimatization on hemocyte functional characteristics of the Pacific oyster (Crassostrea gigas) and carpet shell clam (Ruditapes decussatus).

PubMed

Hurtado, Miguel Ángel; da Silva, Patricia Mirella; Le Goïc, Nelly; Palacios, Elena; Soudant, Philippe

2011-12-01

Most experimental procedures on molluscs are done after acclimatization of wild animals to lab conditions. Similarly, short-term acclimation is often unavoidable in a field survey when biological analysis cannot be done within the day of sample collection. However, acclimatization can affect the general physiological condition and particularly the immune cell responses of molluscs. Our aim was to study the changes in the hemocyte characteristics of the Pacific oyster Crassostrea gigas and the carpet shell clam Ruditapes decussatus acclimated 1 or 2 days under emersed conditions at 14 ± 1 °C and for 1, 2, 7, or 10 days to flowing seawater conditions (submerged) at 9 ± 1 °C, when compared to hemolymph withdrawn from organisms sampled in the field and immediately analyzed in the laboratory (unacclimated). The hemocyte characteristics assessed by flow cytometry were the total (THC) and differential hemocyte count, percentage of dead cells, phagocytosis, and reactive oxygen species (ROS) production. Dead hemocytes were lower in oysters acclimated both in emersed and submerged conditions (1%-5%) compared to those sampled in the field (7%). Compared to oysters, the percentage of dead hemocytes was lower in clams (0.4% vs. 1.1%) and showed a tendency to decrease during acclimatization in both emersed and submerged conditions. In comparison to organisms not acclimated, the phagocytosis of hemocytes decreased in both oysters and clams acclimated under submerged conditions, but was similar in those acclimated in emersed conditions. The ROS production remained stable in both oysters and clams acclimated in emersed conditions, whereas in submerged conditions ROS production did not change in both the hyalinocytes and granulocytes of oysters, but increased in clams. In oysters, the THC decreased when they were acclimated 1 and 2 days in submerged conditions and was mainly caused by a decrease in granulocytes, but the decrease in THC in oysters acclimated 2 days in emersed conditions was caused by a decrease in hyalinocytes and small agranular cells. In clams, the THC was significantly lower in comparison to those not acclimated, regardless of the conditions of the acclimatization. These findings demonstrate that hemocyte characteristics were differentially affected in both species by the tested conditions of acclimatization. The phagocytosis and ROS production in clams and phagocytosis in oysters were not different in those acclimated for 1 day under both conditions, i.e. emersed and submerged, and those sampled in the field (unacclimated). The THC was significantly affected by acclimatization conditions, so the differences between clams and oysters should be considered in studies where important concentrations of hemocytes are required. The difference in the immune response between both species could be related to their habitat (epifaunal vs. infaunal) and their ability of resilience to manipulation and adaptation to captivity. Our results suggest that functional characteristics of hemocytes should be analyzed in both oysters and clams during the first 1 or 2 days, preferably acclimated under emersed rather than submerged conditions. Copyright © 2011. Published by Elsevier Ltd.

21 CFR 102.49 - Fried clams made from minced clams.

Code of Federal Regulations, 2010 CFR

2010-04-01

... packages having a principal display panel with an area of 5 square inches or less and not less than one-eighth inch in height if the area of the principal display panel is greater than 5 square inches; or (2...

Clues to the Past

ERIC Educational Resources Information Center

Weaver, Julie K.

2010-01-01

Students love a mystery. So what do America's most majestic bird, a bag of habitat clues, and a soft-shelled egg have in common? This easy-to-do inquiry activity engages students as they connect clues to problem-solve how the bald eagle reached the brink of extinction in the 1960s in the lower 48 states. It was designed to give students an…

A case of penetration of the intestinal wall by a soft-shelled turtle bone successfully removed with double-balloon endoscopy.

PubMed

Sawada, Mizuho; Sekigawa, Kenichiro; Mitsui, Hiroshi; Kobayashi, Katsuya; Okubo, Masao; Yamaguchi, Hajime; Hashimoto, Naoaki

2015-10-01

A 62-year-old male was admitted to our hospital due to left lower abdominal pain. Three days before admission, he ate seafood in a Japanese restaurant. Two days before admission, he suffered from intermittent left lower abdominal pain. One day before admission, he developed a high fever and subsequently visited our hospital the following day. Localized tenderness and rebound pain were observed in the left lower abdomen, and C-reactive protein was elevated. Computed tomography revealed a linear high-density object in the distal portion of the small intestine accompanied by edema of the wall, suggesting penetration by something like a fishbone. On the ninth hospital day, double-balloon endoscopy was performed via the transanal route. Yellow foreign material was found in the ileum and was then successfully removed with biopsy forceps. The removed material measured 3 mm in width, 3 cm in length and was slightly curved. It proved to be a bone of the forefoot of a soft-shelled turtle, which had been included on the menu of the restaurant. The patient was completely cured and discharged on the 14th hospital day.

Assessing toxicant effects in a complex estuary: A case study of effects of silver on reproduction in the bivalve, Potamocorbula amurensis, in San Francisco Bay

USGS Publications Warehouse

Brown, C.L.; Parchaso, F.; Thompson, J.K.; Luoma, S.N.

2003-01-01

Contaminant exposures in natural systems can be highly variable. This variability is superimposed upon cyclic variability in biological processes. Together, these factors can confound determination of contaminant effects. Long term, multidisciplined studies with high frequency sampling can be effective in overcoming such obstacles. While studying trace metal contamination in the tissues of the clam, Potamocorbula amurensis, in the northern reach of San Francisco Bay, an episode of high Ag concentrations was identified (maximum of 5.5 ??g g-1) at two mid-estuary sites. High concentrations were not seen in clams up-estuary (maximum of 1.92 ??g g-1) from these sites and were reduced down-estuary (maximum of 2.67 ??g g-1). Silver is not common naturally in the environment, so its elevated presence is usually indicative of anthropogenic influences such as municipal and industrial discharge. Monthly sampling of reproductive status of clams characterized the reproductive cycle and differences in the patterns of reproductive activity that corresponded to changes in Ag tissue concentrations. The proportion of reproductive clams was less than 60% during periods when tissue concentrations were high (generally >2 ??g g-1). When tissue concentrations of Ag decreased (???1 ??g g-1), the proportion of reproductive clams was 80 to 100%. A comparison between the annual proportion of reproductive clams and annual Ag tissue concentrations showed a significant negative correlation. No other measured environmental variables were correlated with reproductive impairment. The weight-of-evidence approach strongly supports a cause and effect relationship between Ag contamination and reduced reproductive activity in P. amurensis.

Prevalence and Density of Digenetic Trematode Metacercariae in Clams and Oysters from Western Coastal Regions of the Republic of Korea.

PubMed

Sohn, Woon-Mok; Na, Byoung-Kuk; Cho, Shin-Hyeong; Lee, Won-Ja

2017-08-01

A survey was performed to know the recent infection status of digenetic trematode metacercariae in clams and oysters from 4 sites in western coastal regions of the Republic of Korea (=Korea). Four species of clams (Mactra veneriformis, Ruditapes philippinarum, Cyclina sinensis, and Saxidomus purpuratus) were collected from Taean-gun, Chungcheongnam-do (Province), Buan-gun (County) and Gochang-gun, Jeollabuk-do, and oysters, Crassostrea gigas, from Shinan-gun, Jeollanam-do were transferred to our laboratory on ice and examined by the artificial digestion method. The metacercariae of Himasthla alincia were detected in 3 species of clams, M. veneriformis, R. philippinarum, and C. sinensis from the 3 surveyed areas. The positive rate and the mean density per clam infected were 98.9% (30.8 metacercariae) in M. veneriformis, 60.0% (5.0) in R. philippinarum, and 96.0% (28.4) in C. sinensis. The positive rate (mean density) of Acanthoparyphium tyosenense metacercariae in M. veneriformis was 50.0% (2.1) from Taean-gun and 70.0% (2.8) from Gochang-gun. The metacercariae of Parvatrema spp. were detected in M. veneriformis and R. philippinarum from Taean-gun and Gochang-gun; the positive rate (mean density) was 63.3% (4,123) and 50.0% (19) in M. veneriformis, and 6.7% (126) and 100% (238) in R. philippinarum from the 2 regions, respectively. The metacercariae of Gymnophalloides seoi were detected in all 30 oysters from Shinan-gun, and their average density per oyster was 646. From the above results, it has been confirmed that more than 3 species of metacercariae are prevalent in clams from the western coastal regions, and G. seoi metacercariae are still prevalent in oysters from Shinan-gun, Jeollanam-do, Korea.

Assessing toxicant effects in a complex estuary--A case study of effects of silver on reproduction in the bivalve, Potamocurbula amurensis, in San Francisco Bay

USGS Publications Warehouse

Brown, Cynthia L.; Parchaso, Francis; Thompson, Janet K.; Luoma, Samuel N.

2003-01-01

Contaminant exposures in natural systems can be highly variable. This variability is superimposed upon cyclic variability in biological processes. Together, these factors can confound determination of contaminant effects. Long term, multidisciplined studies with high frequency sampling can be effective in overcoming such obstacles. While studying trace metal contamination in the tissues of the clam, Potamocorbula amurensis, in the northern reach of San Francisco Bay, an episode of high Ag concentrations was identified (maximum of 5.5 µg g−1) at two mid-estuary sites. High concentrations were not seen in clams up-estuary (maximum of 1.92 µg g−1) from these sites and were reduced down-estuary (maximum of 2.67 µg g−1). Silver is not common naturally in the environment, so its elevated presence is usually indicative of anthropogenic influences such as municipal and industrial discharge. Monthly sampling of reproductive status of clams characterized the reproductive cycle and differences in the patterns of reproductive activity that corresponded to changes in Ag tissue concentrations. The proportion of reproductive clams was less than 60% during periods when tissue concentrations were high (generally >2 µg g−1). When tissue concentrations of Ag decreased (≤1 µg g−1), the proportion of reproductive clams was 80 to 100%. A comparison between the annual proportion of reproductive clams and annual Ag tissue concentrations showed a significant negative correlation. No other measured environmental variables were correlated with reproductive impairment. The weight-of-evidence approach strongly supports a cause and effect relationship between Ag contamination and reduced reproductive activity in P. amurensis.

Paleomagnetic dates of hominid remains from Yuanmou, China, and other Asian sites.

PubMed

Hyodo, Masayuki; Nakaya, Hideo; Urabe, Atsushi; Saegusa, Haruo; Shunrong, Xue; Jiyun, Yin; Xuepin, Ji

2002-07-01

Two hominid upper central incisors found in the Yuanmou Basin in southwest China in 1965 have affinities with Homo erectus fossils from Zhoukoudian, but exhibit primitive features. The Yuanmou hominid remains are alleged to be coeval with or older than African specimens dated at about 1.8 m.y.a. Recent age refinements of geomagnetic short reversal events and excursions permit assigning the Yuanmou hominid-bearing bed to the early Brunhes chron (about 0.7 m.y.a.). Magnetochronological assessments confirm that the Lantian calotte which has been dated to about 1.2 m.y.a., is the oldest reliable evidence for the emergence of Homo in eastern Asia as well as China, and that hominid fossils from Sangiran and Mojokerto, Java, do not exceed 1.1 Ma in age. These results refute the view that the genus Homo migrated into eastern Asia in the late Pliocene or the earliest Pleistocene. Copyright 2002 Elsevier Science Ltd. All rights reserved.

50 CFR 648.1 - Purpose and scope.

Code of Federal Regulations, 2011 CFR

2011-10-01

... fishery (Scallop FMP); the Atlantic surf clam and ocean quahog fisheries (Atlantic Surf Clam and Ocean... clam” and “Surf Clam” and adding “surfclam” and “Surfclam” in their place, respectively, effective... fishery management plans (FMPs) for the Atlantic mackerel, squid, and butterfish fisheries (Atlantic...

Changes in fatty acid composition in the giant clam Tridacna maxima in response to thermal stress

PubMed Central

Dubousquet, Vaimiti; Gros, Emmanuelle; Berteaux-Lecellier, Véronique; Viguier, Bruno; Raharivelomanana, Phila; Bertrand, Cédric; Lecellier, Gaël J.

2016-01-01

ABSTRACT Temperature can modify membrane fluidity and thus affects cellular functions and physiological activities. This study examines lipid remodelling in the marine symbiotic organism, Tridacna maxima, during a time series of induced thermal stress, with an emphasis on the morphology of their symbiont Symbiodinium. First, we show that the French Polynesian giant clams harbour an important proportion of saturated fatty acids (SFA), which reflects their tropical location. Second, in contrast to most marine organisms, the total lipid content in giant clams remained constant under stress, though some changes in their composition were shown. Third, the stress-induced changes in fatty acid (FA) diversity were accompanied by an upregulation of genes involved in lipids and ROS pathways. Finally, our microscopic analysis revealed that for the giant clam's symbiont, Symbiodinium, thermal stress led to two sequential cell death processes. Our data suggests that the degradation of Symbiodinium cells could provide an additional source of energy to T. maxima in response to heat stress. PMID:27543058

Occurrence of antibiotics in mussels and clams from various FAO areas.

PubMed

Chiesa, Luca Maria; Nobile, Maria; Malandra, Renato; Panseri, Sara; Arioli, Francesco

2018-02-01

Filter feeders, like mussels and clams, are suitable bioindicators of environmental pollution. These shellfish, when destined for human consumption, undergo a depuration step that aims to nullify their pathogenic microorganism load and decrease chemical contamination. Nevertheless, the lack of contamination by drugs may not be guaranteed. Antimicrobials are a class of drugs of particular concern due to the increasing phenomenon of antibiotic resistance. Their use in breeding and aquaculture is a major cause of this. We developed a multiclass method for the HPLC-MS/MS analysis of 29 antimicrobials, validated according to the Commission Decision 2002/657/UE guidelines, and applied it to 50 mussel and 50 clam samples derived from various Food and Agricultural Organisation marine zones. The results obtained, indicate a negligible presence of antibiotics. Just one clam sample showed the presence of oxytetracycline at a concentration slightly higher than the European Union Maximum residue limit set for fish. Copyright © 2017. Published by Elsevier Ltd.

Fracture toughness and fracture behavior of CLAM steel in the temperature range of 450 °C-550 °C

NASA Astrophysics Data System (ADS)

Zhao, Yanyun; Liang, Mengtian; Zhang, Zhenyu; Jiang, Man; Liu, Shaojun

2018-04-01

In order to analyze the fracture toughness and fracture behavior (J-R curves) of China Low Activation Martensitic (CLAM) steel under the design service temperature of Test Blanket Module of the International Thermonuclear Experimental Reactor, the quasi-static fracture experiment of CLAM steel was carried out under the temperature range of 450 °C-550 °C. The results indicated that the fracture behavior of CLAM steel was greatly influenced by test temperature. The fracture toughness increased slightly as the temperature increased from 450 °C to 500 °C. In the meanwhile, the fracture toughness at 550 °C could not be obtained due to the plastic deformation near the crack tip zone. The microstructure analysis based on the fracture topography and the interaction between dislocations and lath boundaries showed two different sub-crack propagation modes: growth along 45° of the main crack direction at 450 °C and growth perpendicular to the main crack at 500 °C.

Environmentally realistic concentrations of the antibiotic Trimethoprim affect haemocyte parameters but not antioxidant enzyme activities in the clam Ruditapes philippinarum.

PubMed

Matozzo, Valerio; De Notaris, Chiara; Finos, Livio; Filippini, Raffaella; Piovan, Anna

2015-11-01

Several biomarkers were measured to evaluate the effects of Trimethoprim (TMP; 300, 600 and 900 ng/L) in the clam Ruditapes philippinarum after exposure for 1, 3 and 7 days. The actual TMP concentrations were also measured in the experimental tanks. The total haemocyte count significantly increased in 7 day-exposed clams, whereas alterations in haemocyte volume were observed after 1 and 3 days of exposure. Haemocyte proliferation was increased significantly in animals exposed for 1 and 7 days, whereas haemocyte lysate lysozyme activity decreased significantly after 1 and 3 days. In addition, TMP significantly increased haemolymph lactate dehydrogenase activity after 3 and 7 days. Regarding antioxidant enzymes, only a significant time-dependent effect on CAT activity was recorded. This study demonstrated that environmentally realistic concentrations of TMP affect haemocyte parameters in clams, suggesting that haemocytes are a useful cellular model for the assessment of the impact of TMP on bivalves. Copyright © 2015 Elsevier Ltd. All rights reserved.

Clam bioaccumulation of Alkylphenols and Polyciclic aromatic hydrocarbons in the Venice lagoon under different pressures.

PubMed

Ademollo, N; Patrolecco, L; Matozzo, V; Marin, M G; Valsecchi, S; Polesello, S

2017-11-15

Biota-Sediment Accumulation Factors (BSAFs) of nonylphenols (NPs) and polycyclic aromatic hydrocarbons (PAHs) in Ruditapes philippinarum from the Venice Lagoon (Italy) were determined with the aim to verify whether the routine biomonitoring studies are reliable in contaminated sites. Clams and sediments were collected in field campaigns (October 2003 to June 2004) in three sites of the Venice Lagoon. Results showed that Marghera and Campalto sediments were more contaminated by NPs and PAHs than Poveglia. Different trends were observed in the contamination of clams with the highest BSAFs found at Poveglia. BSAF trend appeared to be inversely related to the contaminant pressure on the sites. These results suggest that clam bioaccumulation is not always representative of the chemical pressure on aquatic biota. The direct correlation between sediment and biota concentrations in contaminated sites can be lost as a function of the site-specific conditions such as sediment toxicity and food availability. Copyright © 2017 Elsevier Ltd. All rights reserved.

Isolation of Vibrio alginolyticus and Vibrio splendidus from Aquacultured Carpet Shell Clam (Ruditapes decussatus) Larvae Associated with Mass Mortalities

PubMed Central

Gómez-León, J.; Villamil, L.; Lemos, M. L.; Novoa, B.; Figueras, A.

2005-01-01

Two episodes of mortality of cultured carpet shell clams (Ruditapes decussatus) associated with bacterial infections were recorded during 2001 and 2002 in a commercial hatchery located in Spain. Vibrio alginolyticus was isolated as the primary organism from moribund clam larvae that were obtained during the two separate events. Vibrio splendidus biovar II, in addition to V. alginolyticus, was isolated as a result of a mixed Vibrio infection from moribund clam larvae obtained from the second mortality event. The larval mortality rates for these events were 62 and 73%, respectively. Mortality was also detected in spat. To our knowledge, this is the fist time that these bacterial species have been associated with larval and juvenile carpet shell clam mortality. The bacterial strains were identified by morphological and biochemical techniques and also by PCR and sequencing of a conserved region of the 16S rRNA gene. In both cases bacteria isolated in pure culture were inoculated into spat of carpet shell clams by intravalvar injection and by immersion. The mortality was attributed to the inoculated strains, since the bacteria were obtained in pure culture from the soft tissues of experimentally infected clams. V. alginolyticus TA15 and V. splendidus biovar II strain TA2 caused similar histological lesions that affected mainly the mantle, the velum, and the connective tissue of infected organisms. The general enzymatic activity of both live cells and extracellular products (ECPs), as evaluated by the API ZYM system, revealed that whole bacterial cells showed greater enzymatic activity than ECPs and that the activity of most enzymes ceased after heat treatment (100°C for 10 min). Both strain TA15 and strain TA2 produced hydroxamate siderophores, although the activity was greater in strain TA15. ECPs from both bacterial species at high concentrations, as well as viable bacteria, caused significant reductions in hemocyte survival after 4 h of incubation, whereas no significant differences in viability were observed during incubation with heat-killed bacteria. PMID:15640176

Can ecological history influence response to pollutants? Transcriptomic analysis of Manila clam collected in different Venice lagoon areas and exposed to heavy metal.

PubMed

Milan, Massimo; Matozzo, Valerio; Pauletto, Marianna; Di Camillo, Barbara; Giacomazzo, Matteo; Boffo, Luciano; Binato, Giovanni; Marin, Maria Gabriella; Patarnello, Tomaso; Bargelloni, Luca

2016-05-01

Chronic exposure to environmental pollutants can exert strong selective pressures on natural populations, favoring the transmission over generations of traits that enable individuals to survive and thrive in highly impacted environments. The lagoon of Venice is an ecosystem subject to heavy anthropogenic impact, mainly due to the industrial activities of Porto Marghera (PM), which led to a severe chemical contamination of soil, groundwater, and sediments. Gene expression analysis on wild Manila clams collected in different Venice lagoon areas enabled to identify differences in gene expression profiles between clams collected in PM and those sampled in clean areas, and the definition of molecular signatures of chemical stress. However, it remains largely unexplored to which extent modifications of gene expression patterns persists after removing the source of contamination. It is also relatively unknown whether chronic exposure to xenobiotics affects the response to other chemical pollutants. To start exploring such issues, in the present study a common-garden experiment was coupled with transcriptomic analysis, to compare gene expression profiles of PM clams with those of clams collected in the less impacted area of Chioggia (CH) during a period under the same control conditions. Part of the two experimental groups were also exposed to copper for seven days to assess whether different "ecological history" does influence response to such pollutant. The results obtained suggest that the chronic exposure to chemical pollution generated a response at the transcriptional level that persists after removal for the contaminated site. These transcriptional changes are centered on key biological processes, such as defense against either oxidative stress or tissue/protein damage, and detoxification, suggesting an adaptive strategy for surviving in the deeply impacted environment of Porto Marghera. On the other hand, CH clams appeared to respond more effectively to copper exposure than PM animals, proposing that chronic exposure to chemical toxicants either lowers the sensitivity to additional toxicants or blunts the capacity to respond to novel chemical challenges in PM clams. Copyright © 2016 Elsevier B.V. All rights reserved.

Paralytic shellfish poisoning toxins accumulation in purple clam Hiatula rostrata and toxic effect on milkfish Chanos chanos larval fish.

PubMed

Chen, C Y

2001-11-01

In an attempt to feed purple clams (Hiatula rostrata) with dinoglagellate Alexandrium minutum, the maximal accumulation toxicity of paralytic shellfish poisoning (PSP) toxins reached 40.6 MU/g on day 5 of feeding. Subsequently, the toxicity increased no further, although purple clams ingested more toxic algae. Furthermore, when milkfish (Chanos chanos) larvae were treated with toxic, nontoxic A. minutum or PSP toxin-containing extract in the water medium, it was found that the mortality of fish increased with the increasing concentrations of toxic algae. PSP toxin-containing extract did not show any toxic effect on milkfish larvae.

FEEDING RATES OF THE MUD SHRIMP UPOGEBIA PUGETTENSIS AND IMPLICATIONS FOR ESTUARINE PHYTOPLANKTON ABUNDANCE

EPA Science Inventory

The burrowing shrimp Upogebia pugettensis is an abundant inhabitant of Pacific Northwest bays and estuaries where it lives commensally with the clam Cryptomya californica. Suspension-feeding activities of the shrimp and its commensal clam, as well as particle settlement within t...

NOAA Surveys; Stabalizing Economy and Ecology on The U.S. Coast

NASA Astrophysics Data System (ADS)

Hylton, L. L.

2008-12-01

NOAA TEACHER AT SEA: LISHA LANDER HYLTON ONBOARD NOAA SHIP: DELAWARE II JUNE 29TH -JULY 11TH, 2008 MISSION: The mission of my trip with NOAA was to provide me (a teacher of third grade students) an extraordinary opportunity to take part in genuine-world experiences being conducted by NOAA in order for me to achieve a clearer insight into our ocean planet and a superior perceptive of NOAA-related careers. With the knowledge that I obtained on-board THE DELAWAREII - I am now able to teach the lesson plans created on my field study to my students, giving them insight as to how much power they have on their lives and this world we live in. My students are able to play a part in maritime activities as we study together, valuing the work and expertise that is required to sustain oceanic and atmospheric research. The students' enthusiasm, inquisitiveness and yearning to learn is only heightened with the hands-on, motivational activities that I gained from my research with this NOAA team. As a Part of this NOAA team, on-board we conducted clam surveys at various stations along the northeastern coast of the United States. I learned that clams are a very important part of economy and ecology in this region. Surveying clams and other marine species was performed on my field study with NOAA for the purpose of conserving marine life. NOAA realizes the importance of the fishing industry and conducts fishery surveys in order to stabilize fishery industries without destroying the marine ecosystems completely. Clams play a very important part in marine fishery; therefore these surveys are helping to maintain stability in the economy and ecology of The United States. By comparing past and present fishery surveys, our team made conclusions regarding the stability of these marine populations. After dredging, collecting, sorting, counting, measuring and weighing (clams with shells and shucked clam meat only) - the data was obtained and recorded then entered into computers filed under the specific station number that was dredged. All data was then sent to a central database. The compiled data was compared to past surveys. If the meat weight, size, quantity or quality of clams collected has reduced in comparison to past surveys, this could be an indication that some factor is influencing the reduction. Possible influencing factor: ~Clams are being over-fished~ I created a Power point-presentation, (200 slides long) in order to teach my students how and why NOAA scientist conduct these fishery surveys.

Photosymbiotic giant clams are transformers of solar flux.

PubMed

Holt, Amanda L; Vahidinia, Sanaz; Gagnon, Yakir Luc; Morse, Daniel E; Sweeney, Alison M

2014-12-06

'Giant' tridacnid clams have evolved a three-dimensional, spatially efficient, photodamage-preventing system for photosymbiosis. We discovered that the mantle tissue of giant clams, which harbours symbiotic nutrition-providing microalgae, contains a layer of iridescent cells called iridocytes that serve to distribute photosynthetically productive wavelengths by lateral and forward-scattering of light into the tissue while back-reflecting non-productive wavelengths with a Bragg mirror. The wavelength- and angle-dependent scattering from the iridocytes is geometrically coupled to the vertically pillared microalgae, resulting in an even re-distribution of the incoming light along the sides of the pillars, thus enabling photosynthesis deep in the tissue. There is a physical analogy between the evolved function of the clam system and an electric transformer, which changes energy flux per area in a system while conserving total energy. At incident light levels found on shallow coral reefs, this arrangement may allow algae within the clam system to both efficiently use all incident solar energy and avoid the photodamage and efficiency losses due to non-photochemical quenching that occur in the reef-building coral photosymbiosis. Both intra-tissue radiometry and multiscale optical modelling support our interpretation of the system's photophysics. This highly evolved 'three-dimensional' biophotonic system suggests a strategy for more efficient, damage-resistant photovoltaic materials and more spatially efficient solar production of algal biofuels, foods and chemicals.

Allozyme electrophoresis as a tool for distinguishing different zooxanthellae symbiotic with giant clams

PubMed Central

Baillie, B. K.; Monje, V.; Silvestre, V.; Sison, M.; Belda-Baillie, C. A.

1998-01-01

The taxonomy of zooxanthellae in marine invertebrate symbioses is not well understood owing mainly to their lack of reliable morphological differences. Nevertheless, previous work using protein and DNA electrophoreses has set the stage for advancing our taxonomic understanding of cnidarian zooxanthellae. Here we present the use of allozymes as genetic markers for distinguishing algal isolates from tridacnid hosts. Zooxanthellae from seven Tridacna and Hippopus species were isolated and maintained in axenic clonal cultures over many generations. Of 16 enzyme systems, α- and β-esterase (EST), esterase-F (EST-F), glucose phosphate isomerase (GPI), and malate dehydrogenase (MDH) were found suitable polymorphic markers of genetic differences among clonal cultures. Of 39 clonal isolates, 97% were found to be genetically distinguishable. This high extent of genetic variation in zooxanthellae within and between clam species was unexpected, and is difficult to explain based solely on the general notion of asexual reproduction in symbiotic zooxanthellae. Our results are also consistent with the occurrence of sexual reproduction in clam zooxanthellae. The close genetic similarity of the symbionts of Tridacna gigas, the largest and fastest-growing clam species, and the difficulty of initiating their clonal cultures in the given nutrient medium, compared with the symbionts of other clam species, are further indicative of possibly distinct algal symbionts in T. gigas. These findings are discussed in light of current taxonomic understanding of these organisms.

EVALUATION OF A FIRST-ORDER MODEL FOR THE PREDICTION OF THE BIOACCUMULATION OF PCBS AND DDT FROM SEDIMENT INTO THE MARINE DEPOSIT-FEEDING CLAM MACOMA NASUTA

EPA Science Inventory

A first-order model for predicting contaminant bioaccumulation from sediments into benthic invertebrates was validated using a marine deposit-feeding clam, Macoma nasuta, exposed to polychlorobiphenyl (PCB)-spiked and dichlorodiphenyltrichloroethane (DDT)-contaminated sediments. ...

Complete sequence determination of a novel reptile iridovirus isolated from soft-shelled turtle and evolutionary analysis of Iridoviridae

PubMed Central

Huang, Youhua; Huang, Xiaohong; Liu, Hong; Gong, Jie; Ouyang, Zhengliang; Cui, Huachun; Cao, Jianhao; Zhao, Yingtao; Wang, Xiujie; Jiang, Yulin; Qin, Qiwei

2009-01-01

Background Soft-shelled turtle iridovirus (STIV) is the causative agent of severe systemic diseases in cultured soft-shelled turtles (Trionyx sinensis). To our knowledge, the only molecular information available on STIV mainly concerns the highly conserved STIV major capsid protein. The complete sequence of the STIV genome is not yet available. Therefore, determining the genome sequence of STIV and providing a detailed bioinformatic analysis of its genome content and evolution status will facilitate further understanding of the taxonomic elements of STIV and the molecular mechanisms of reptile iridovirus pathogenesis. Results We determined the complete nucleotide sequence of the STIV genome using 454 Life Science sequencing technology. The STIV genome is 105 890 bp in length with a base composition of 55.1% G+C. Computer assisted analysis revealed that the STIV genome contains 105 potential open reading frames (ORFs), which encode polypeptides ranging from 40 to 1,294 amino acids and 20 microRNA candidates. Among the putative proteins, 20 share homology with the ancestral proteins of the nuclear and cytoplasmic large DNA viruses (NCLDVs). Comparative genomic analysis showed that STIV has the highest degree of sequence conservation and a colinear arrangement of genes with frog virus 3 (FV3), followed by Tiger frog virus (TFV), Ambystoma tigrinum virus (ATV), Singapore grouper iridovirus (SGIV), Grouper iridovirus (GIV) and other iridovirus isolates. Phylogenetic analysis based on conserved core genes and complete genome sequence of STIV with other virus genomes was performed. Moreover, analysis of the gene gain-and-loss events in the family Iridoviridae suggested that the genes encoded by iridoviruses have evolved for favoring adaptation to different natural host species. Conclusion This study has provided the complete genome sequence of STIV. Phylogenetic analysis suggested that STIV and FV3 are strains of the same viral species belonging to the Ranavirus genus in the Iridoviridae family. Given virus-host co-evolution and the phylogenetic relationship among vertebrates from fish to reptiles, we propose that iridovirus might transmit between reptiles and amphibians and that STIV and FV3 are strains of the same viral species in the Ranavirus genus. PMID:19439104

Observations of geese foraging for clam shells during spring on the Yukon-Kuskokwim Delta, Alaska

USGS Publications Warehouse

Flint, Paul L.; Fowler, Ada C.; Bottitta, Grace E.; Schamber, Jason L.

1998-01-01

We studied the behavior of geese on exposed river ice during spring on the Yukon-Kuskokwim Delta. The predominant behavior while on the ice for both sexes was foraging; however, females foraged more than males. Visual inspection of the ice revealed no potential plant or animal food items. However, numerous small (<20 mm) clam shells (Macoma balthica) and pieces of shell were noted. It appeared that geese were foraging on empty clam shells. This potential source of calcium was available to breeding geese just prior to egg formation and geese likely stored this calcium in the form of medullary bone for use during egg formation.

Hydrogen sulfide oxidation is coupled to oxidative phosphorylation in mitochondria of Solemya reidi

DOE Office of Scientific and Technical Information (OSTI.GOV)

Powell, M.A.; Somero, G.N.

1986-08-01

Solemya reidi, a gutless clam found in sulfide-rich habitats, contains within its gills bacterial symbionts thought to oxidize sulfur compounds and provide a reduced carbon food source to the clam. However, the initial step or steps in sulfide oxidation occur in the animal tissue, and mitochondria isolated from both gill and symbiont-free foot tissue of the clam coupled the oxidation of sulfide to oxidative phosphorylation (adenosine triphosphate (ATP) synthesis). The ability of Solemya reidi to exploit directly the energy in sulfide for ATP synthesis is unprecedented, and suggests that sulfide-habitat animals that lack bacterial symbionts may also use sulfide asmore » an inorganic energy source.« less

Marine Life Study

NASA Technical Reports Server (NTRS)

1988-01-01

As a result of widespread ocean dumping and other pollution problems, marine scientists at Morgan State University are studying the populations of various marine organisms to determine the effects of pollution. They are also compiling data on the aging of marine organisms. There now exists a new method of determining the age of the surf clam. They are applying digital image processing to clam aging investigations. Computer creates digitized images of clam sections with annual rings. The image is enhanced -- manipulated to emphasize certain features in order to improve and amplify the information that can be extracted from the image. Also useful in other marine organisms that have growth bands making it easier to get an accurate count.

Divergence of cryptic species of Doryteuthis plei Blainville, 1823 (Loliginidae, Cephalopoda) in the Western Atlantic Ocean is associated with the formation of the Caribbean Sea.

PubMed

Sales, João Bráullio de L; Rodrigues-Filho, Luis F da S; Ferreira, Yrlene do S; Carneiro, Jeferson; Asp, Nils E; Shaw, Paul W; Haimovici, Manuel; Markaida, Unai; Ready, Jonathan; Schneider, Horacio; Sampaio, Iracilda

2017-01-01

Although recent years have seen an increase in genetic analyses that identify new species of cephalopods and phylogeographic patterns, the loliginid squid of South America remain one of the least studied groups. The suggestion that Doryteuthis plei may represent distinct lineages within its extensive distribution along the western Atlantic coasts from Cape Hatteras, USA (36°N) to northern Argentina (35°S) is consistent with significant variation in a number of environmental variables along this range including in both temperature and salinity. In the present study D. plei samples were obtained from a large number of localities along the western Atlantic coasts to investigate the distribution of these possible species in a phylogeographic context. Phylogeographic analyses were performed using the mitochondrial Cytochrome Oxidase I gene and nuclear Rhodopsin gene. Divergence times were estimated using Bayesian strict clock dating with calibrations based on fossil records for divergence from the lineage containing Vampyroteuthis infernalis (162mya), the probable origins of the North American loliginids (45mya), and the European loliginids (20mya) and fossil statolith from Doryteuthis opalescens (3mya). Our results suggest a deep genetic divergence within Doryteuthis plei. The currently described specie consists of two genetically distinct clades (pair-wise genetic divergence of between 7.7 and 9.1%). One clade composed of individuals collected in northwestern Atlantic and Central Caribbean Atlantic waters and the other from southwestern Atlantic waters. The divergence time and sampling locations suggest the speciation process at approximately 16Mya, which is in full agreement with the middle Miocene orogeny of the Caribbean plate, ending up with the formation of the Lesser Antilles and the adjacent subduction zone, coinciding with a particularly low global sea level, resulting in the practical absence of continental shelves at the area, and therefore an effective geographic barrier for D. plei. Furthermore, this study also provides evidence of previously undocumented sub-population structuring in the Gulf of Mexico. Copyright © 2016 Elsevier Inc. All rights reserved.

Pleistocene Variations in Delivery and Deposition of Organic Matter Under the Benguela Current Upwelling System - Biomarker Isotopic Evidence From Sediment Light-Dark Color Cycles

NASA Astrophysics Data System (ADS)

Meyers, P. A.; Bouloubassi, I.; Pancost, R. D.; Robinson, R. S.

2007-12-01

The light-dark color cycles that are distinctive features of sediment beneath the Benguela Current Upwelling System imply repetitive alternations in organic matter delivery and deposition. Organic geochemical proxies for paleoproductivity and for depositional conditions were employed to investigate the paleoceanographic processes involved in creating these cycles in two sediment sequences from ODP Site 1084 corresponding to 0.7 and 1.1 Mya. Concentrations of total organic carbon (TOC) vary between 3.5 and 17.1 wt percent, and those of calcium carbonate fluctuate inversely between 68 and 1 percent, suggesting that carbonate dissolution is involved with the light-dark cycles. Bulk organic del 13C and del 15N values that remain constant across the two light-dark sediment intervals indicate that the extent of nutrient utilization did not change in each cycle. Biomarker compositions in both sequences reflect a range of organic matter sources. Abundant n-alkanes and n-alkanols with odd-over-even and even-over-odd distributions, respectively, record land-plant inputs. Other terrestrial biomakers (e.g triterpenoid acids and alcohols) are present but in very low abundances, suggesting that the n- alkyl components derive predominantly from eolian inputs. Carbon isotopic values of n-alkanes range from -25 to -28 permil, suggesting a mixture of C3 and C4 sources. In contrast, n-alkanol isotopic compositions range from -28 to -34 permil, suggesting that they derive solely from C3 plants. Algal biomarkers are abundant and diverse, represented by 1,15-C30 diols (eustigmatophytes), 4-desmethyl and -methylsterols (diatoms, dinoflagellates), and alkenones (haptophytes). These compounds all have del 13C values ranging from ca. -22 to -24 permil, consistent with a marine origin. Systematic differences in isotopic values imply that marine productivity at 1.1 Mya was higher than at 0.7 Mya, but alkenone-based sea-surface temperatures are higher at 1.1 Mya (21 deg) than at 0.7 Mya (15 deg), which indicates that changes in water-mass properties were also involved.

Selection of vaccine strains for serotype O foot-and-mouth disease viruses (2007-2012) circulating in Southeast Asia, East Asia and Far East.

PubMed

Mahapatra, Mana; Upadhyaya, Sasmita; Aviso, Sharie; Babu, Aravindh; Hutchings, Geoff; Parida, Satya

2017-12-18

Foot-and-mouth disease (FMD) is endemic in Southeast Asia (SEA) and East Asia with circulation of multiple serotypes and multiple genotypes within each serotype of the virus. Although countries like Japan and South Korea in the Far East were free of FMD, in 2010 FMD serotype O (O/Mya-98) outbreaks were recorded and since then South Korea has experienced several FMD outbreaks despite regular vaccination. In this study a total of 85 serotype O FMD viruses (FMDV) isolated from 2007 to 2012 from SEA, East Asia and Far East were characterized by virus neutralisation tests using antisera to four existing (O/HKN/6/83, O/IND/R2/75, O/SKR/2010 and O/PanAsia-2) and one putative (O/MYA/2009) vaccine strains, and by full capsid sequencing. Serological studies revealed broad cross-reactivity with the vaccine strains; O/PanAsia-2 exhibited a good match with 95.3%, O/HKN/6/83 with 91.8%, O/IND/R2/75 with 80%, and the putative strain O/MYA/2009 with 89.4% isolates employed in this study. Similarly O/PanAsia-2 and O/IND/R2/75 vaccines showed a good match with all eight viruses belonging to O-Ind-2001d sublineage whereas the vaccines of O/Mya-98 lineage, O/MYA/2009 and O/SKR/2010 exhibited the lowest match indicating their unsuitability to protect infections from O-Ind-2001d viruses. A Bayesian analysis of the capsid sequence data indicated these circulating viruses (n = 85) to be of either SEA or Middle East-South Asian (ME-SA) topotype. The ME-SA topotype viruses were mainly detected in Lao PDR, Vietnam, Myanmar and Thailand reflecting the trade links with the Indian subcontinent, and also within the SEA countries. Implications of these results in the context of FMD control in SEA and East Asian countries are discussed. Copyright © 2017 The Author(s). Published by Elsevier Ltd.. All rights reserved.

50 CFR 648.74 - Shucking at sea.

Code of Federal Regulations, 2010 CFR

2010-10-01

... 50 Wildlife and Fisheries 8 2010-10-01 2010-10-01 false Shucking at sea. 648.74 Section 648.74... Clam and Ocean Quahog Fisheries § 648.74 Shucking at sea. (a) Observers. (1) The Regional Administrator may allow the shucking of surf clams or ocean quahogs at sea if he/she determines that an observer...

PARTICLE REMOVAL RATES BY THE MUD SHRIMP UPOGEBIA PUGETTENSIS, ITS BURROW, AND A COMMENSAL CLAM: EFFECTS ON ESTUARINE PHYTOPLANKTON ABUNDANCE

EPA Science Inventory

The burrowing shrimp Upogebia pugettensis is an abundant intertidal inhabitant of Pacific Northwest bays and estuaries where it lives commensally with the bivalve Cryptomya californica. Suspension-feeding activities by the shrimp and by its commensal clam, as well as particle se...

50 CFR 648.77 - Framework adjustments to management measures.

Code of Federal Regulations, 2011 CFR

2011-10-01

... Management Measures for the Atlantic Surf Clam and Ocean Quahog Fisheries § 648.77 Framework adjustments to... the Atlantic Surf Clam and Ocean Quahog FMP if it finds that action is necessary to meet or be... fishing permit for surfclams and ocean quahogs: (a) Tagging. Before offloading, all cages that contain...

Phytoplankton growth balanced by clam and zooplankton grazing and net transport into the low-salinity zone of the San Francisco Estuary

USGS Publications Warehouse

Kimmerer, Wim J.; Thompson, Janet K.

2014-01-01

We estimated the influence of planktonic and benthic grazing on phytoplankton in the strongly tidal, river-dominated northern San Francisco Estuary using data from an intensive study of the low salinity foodweb in 2006–2008 supplemented with long-term monitoring data. A drop in chlorophyll concentration in 1987 had previously been linked to grazing by the introduced clam Potamocorbula amurensis, but numerous changes in the estuary may be linked to the continued low chlorophyll. We asked whether phytoplankton continued to be suppressed by grazing and what proportion of the grazing was by benthic bivalves. A mass balance of phytoplankton biomass included estimates of primary production and grazing by microzooplankton, mesozooplankton, and clams. Grazing persistently exceeded net phytoplankton growth especially for larger cells, and grazing by microzooplankton often exceeded that by clams. A subsidy of phytoplankton from other regions roughly balanced the excess of grazing over growth. Thus, the influence of bivalve grazing on phytoplankton biomass can be understood only in the context of limits on phytoplankton growth, total grazing, and transport.

Recovery of macroinvertebrates by screening in the field: a comparison between coarse (1.18 mm) and fine (0.60 mm) mesh sieves

USGS Publications Warehouse

Dukerschein, J.T.; Gent, R.; Sauer, J.

1996-01-01

We evaluated the potential loss of target benthic macroinvertebrates from coarse-mesh field wash down of samples through a 1.18-mm mesh sieve nested on a 0.60-mm mesh sieve. Visible target organisms (midges, mayflies, and fingernail clams) in the 1.18-mm mesh sieve were removed from the sample and enumerated in the field. The entire contents of both sieves were preserved for subsequent laboratory enumeration under 4X magnification. Percent recoveries from each treatment were based on total intact organisms found in all sieves. Percent recovery for fingernail clams found in the field (31%) was lower than for mayflies (79%) and midges (88%). Laboratory enumeration of organisms retained by the 1.18-mm sieve yielded additional fingernail clams (to total 74% recovered in the field and lab), mayflies (to total 89%), and midges (to total 91%). If the 1.18-mm sieve is used alone in the field, it is adequate to monitor mayflies, midges >1 cm, and adult fingernail clams greater than or equal to 5.0 mm shell length.

Food safety traits of mussels and clams: distribution of PCBs, PBDEs, OCPs, PAHs and PFASs in sample from different areas using HRMS-Orbitrap® and modified QuEChERS extraction followed by GC-MS/MS.

PubMed

Chiesa, Luca Maria; Nobile, Maria; Malandra, Renato; Pessina, Davide; Panseri, Sara; Labella, Giuseppe Federico; Arioli, Francesco

2018-05-01

Reviewing the presence of contaminant residues is important both for food safety and for monitoring of environmental pollution. Here, the occurrence of 6 polychlorinated biphenyls (PCBs), 15 organochlorine pesticides (OCPs), 7 polybrominated diphenyl ethers (PBDEs), 4 polycyclic aromatic hydrocarbons (PAHs) and 17 perfluoroalkyl substances (PFASs) was evaluated in mussels and clams. A liquid chromatography-high resolution mass spectrometry (HPLC-HRMS) and an innovative QuEChERS extraction followed by gas chromatography-tandem mass spectrometry (GC-MS/MS) methods were developed, validated and applied. We demonstrate good linearity, repeatability and accuracy of these methods, confirming that they are suitable for the analyses of mollusc samples. The prevalence of PCBs, OCPs and PAHs was higher in mussels than in clams. For PFASs, contamination was higher in clams than in mussels. The samples were all compliant with the regulations, and, for the compounds without legislative limits, a risk assessment confirmed that the values were lower than the tolerable intakes.

Accumulation of butyltins in sediments and lipid tissues of the Asian clam, Potamocorbula amurensis, near Mare Island Naval Shipyard, San Francisco Bay

USGS Publications Warehouse

Pereira, W.E.; Wade, T.L.; Hostettler, F.D.; Parchaso, F.

1999-01-01

Studies of butyltin compounds in soil, benthic sediments and the Asian clam Potamocorbula amurensis were conducted at the former Mare Island Naval Shipyard, and nearby Mare Island and Carquinez Straits in San Francisco Bay, California. Soils from a sandblast abrasives dump site at the shipyard contained low concentrations of mono-, di- and tributyltin (0.3-52 ng/g, total butyltin). Similarly, concentrations of total butyltin in benthic sediments from nearby Mare Island and Carquinez Straits ranged from 1.3 to 8.1 ng/g. In contrast, clams accumulated much greater concentrations (152-307 ng/g, total butyltin). Tributyltin (TBT) and dibutyltin (DBT) made up from 54-85% to 15-46%, respectively, of the total butyltin body burden of the clams. Biota Sediment Accumulation Factors (BSAFs) for butyltins in Potamocorbula were in reasonable agreement with literature values; they are greater than those of neutral hydrophobic compounds, suggesting that partitioning and binding processes may be involved in bioaccumulation. Tributyltin is a potent endocrine disrupting chemical. There is potential for long-term chronic effects of TBT in San Francisco Bay.

Favored use of anti-predator netting (APN) applied for the farming of clams leads to little benefits to industry while increasing nearshore impacts and plastics pollution.

PubMed

Bendell, L I

2015-02-15

An overview of the efficacy of anti-predator netting (APN) used by the shellfish industry is presented. There is little support that the currently favored APN effectively protects farmed clams from predators. Evidence does suggest that APN leads to impacts and pollution. APN is an attractant for predators, e.g., crabs, by providing a refuge within Ulva sp. which attaches onto the surface of APN. APN entrains silt and organic matter and increases sediment temperatures degrading habitat underneath the APN. APN present hazards to fish and wildlife and is a source of plastics to the marine environment. The continued use of ineffective APN does not serve either the environment or industry well, and many of these issues could be addressed through the alternate use of "ancient" technology used by aboriginal people to maintain clam gardens; building of rock walls optimizing the amount of clam habitat thereby increasing numbers without the use of APN. Copyright © 2015 Elsevier Ltd. All rights reserved.

Changes in fatty acid composition in the giant clam Tridacna maxima in response to thermal stress.

PubMed

Dubousquet, Vaimiti; Gros, Emmanuelle; Berteaux-Lecellier, Véronique; Viguier, Bruno; Raharivelomanana, Phila; Bertrand, Cédric; Lecellier, Gaël J

2016-10-15

Temperature can modify membrane fluidity and thus affects cellular functions and physiological activities. This study examines lipid remodelling in the marine symbiotic organism, Tridacna maxima, during a time series of induced thermal stress, with an emphasis on the morphology of their symbiont Symbiodinium First, we show that the French Polynesian giant clams harbour an important proportion of saturated fatty acids (SFA), which reflects their tropical location. Second, in contrast to most marine organisms, the total lipid content in giant clams remained constant under stress, though some changes in their composition were shown. Third, the stress-induced changes in fatty acid (FA) diversity were accompanied by an upregulation of genes involved in lipids and ROS pathways. Finally, our microscopic analysis revealed that for the giant clam's symbiont, Symbiodinium, thermal stress led to two sequential cell death processes. Our data suggests that the degradation of Symbiodinium cells could provide an additional source of energy to T maxima in response to heat stress. © 2016. Published by The Company of Biologists Ltd.

Ocean acidification adversely influences metabolism, extracellular pH and calcification of an economically important marine bivalve, Tegillarca granosa.

PubMed

Zhao, Xinguo; Shi, Wei; Han, Yu; Liu, Saixi; Guo, Cheng; Fu, Wandong; Chai, Xueliang; Liu, Guangxu

2017-04-01

Oceanic uptake of CO 2 from the atmosphere has significantly reduced surface seawater pH and altered the carbonate chemistry within, leading to global Ocean Acidification (OA). The blood clam, Tegillarca granosa, is an economically and ecologically significant marine bivalve that is widely distributed along the coastal and estuarine areas of Asia. To investigate the physiological responses to OA, blood clams were exposed to ambient and three reduced seawater pH levels (8.1, 7.8, 7.6 and 7.4) for 40 days, respectively. Results obtained suggest that OA suppresses the feeding activity and aerobic metabolism, but elevates proteins catabolism of blood clams. OA also causes extracellular acidosis and decreases haemolymph Ca 2+ concentration. In addition, our data also suggest that OA impairs the calcification process and inner shell surface integrity. Overall, OA adversely influences metabolism, acid-base status and calcification of blood clams, subsequently leading to a decrease in the fitness of this marine bivalve species. Copyright © 2017 Elsevier Ltd. All rights reserved.

Genetic structure and historical diversification of catfish Brachyplatystoma platynemum (Siluriformes: Pimelodidae) in the Amazon basin with implications for its conservation.

PubMed

Ochoa, Luz Eneida; Pereira, Luiz Henrique G; Costa-Silva, Guilherme Jose; Roxo, Fábio F; Batista, Jacqueline S; Formiga, Kyara; Foresti, Fausto; Oliveira, Claudio

2015-05-01

Brachyplatystoma platynemum is a catfish species widely distributed in the Amazon basin. Despite being considered of little commercial interest, the decline in other fish populations has contributed to the increase in the catches of this species. The structure, population genetic variability, and evolutionary process that have driven the diversification of this species are presently unknown. Considering that, in order to better understand the genetic structure of this species, we analyzed individuals from seven locations of the Amazon basin using eight molecular markers: control region and cytochrome b mtDNA sequences, and a set of six nuclear microsatellite loci. The results show high levels of haplotype diversity and point to the occurrence of two structured populations (Amazon River and the Madeira River) with high values for F ST. Divergence time estimates based on mtDNA indicated that these populations diverged about 1.0 Mya (0.2-2.5 Mya 95% HPD) using cytochrome b and 1.4 Mya (0.2-2.7 Mya 95% HPD) using control region. During that time, the influence of climate changes and hydrological events such as sea level oscillations and drainage isolation as a result of geological processes in the Pleistocene may have contributed to the current structure of B. platynemum populations, as well as of differences in water chemistry in Madeira River. The strong genetic structure and the time of genetic divergence estimated for the groups may indicate the existence of strong structure populations of B. platynemum in the Amazon basin.

Genetic structure and historical diversification of catfish Brachyplatystoma platynemum (Siluriformes: Pimelodidae) in the Amazon basin with implications for its conservation

PubMed Central

Ochoa, Luz Eneida; Pereira, Luiz Henrique G; Costa-Silva, Guilherme Jose; Roxo, Fábio F; Batista, Jacqueline S; Formiga, Kyara; Foresti, Fausto; Oliveira, Claudio

2015-01-01

Brachyplatystoma platynemum is a catfish species widely distributed in the Amazon basin. Despite being considered of little commercial interest, the decline in other fish populations has contributed to the increase in the catches of this species. The structure, population genetic variability, and evolutionary process that have driven the diversification of this species are presently unknown. Considering that, in order to better understand the genetic structure of this species, we analyzed individuals from seven locations of the Amazon basin using eight molecular markers: control region and cytochrome b mtDNA sequences, and a set of six nuclear microsatellite loci. The results show high levels of haplotype diversity and point to the occurrence of two structured populations (Amazon River and the Madeira River) with high values for FST. Divergence time estimates based on mtDNA indicated that these populations diverged about 1.0 Mya (0.2–2.5 Mya 95% HPD) using cytochrome b and 1.4 Mya (0.2–2.7 Mya 95% HPD) using control region. During that time, the influence of climate changes and hydrological events such as sea level oscillations and drainage isolation as a result of geological processes in the Pleistocene may have contributed to the current structure of B. platynemum populations, as well as of differences in water chemistry in Madeira River. The strong genetic structure and the time of genetic divergence estimated for the groups may indicate the existence of strong structure populations of B. platynemum in the Amazon basin. PMID:26045952

Phylogeny and biogeography of the amphi-Pacific genus Aphananthe

PubMed Central

Yang, Mei-Qing; Li, De-Zhu; Wen, Jun; Yi, Ting-Shuang

2017-01-01

Aphananthe is a small genus of five species showing an intriguing amphi-Pacific distribution in eastern, southern and southeastern Asia, Australia, and Mexico, also with one species in Madagascar. The phylogenetic relationships of Aphananthe were reconstructed with two nuclear (ITS & ETS) and two plastid (psbA-trnH & trnL-trnF) regions. Clade divergence times were estimated with a Bayesian approach, and the ancestral areas were inferred using the dispersal-extinction-cladogenesis and Bayesian Binary MCMC analyses. Aphananthe was supported to be monophyletic, with the eastern Asian A. aspera resolved as sister to a clade of the remaining four species. Aphananthe was inferred to have originated in the Late Cretaceous (71.5 mya, with 95% HPD: 66.6–81.3 mya), and the crown age of the genus was dated to be in the early Miocene (19.1 mya, with 95% HPD: 12.4–28.9 mya). The fossil record indicates that Aphananthe was present in the high latitude thermophilic forests in the early Tertiary, and experienced extinctions from the middle Tertiary onwards. Aphananthe originated in Europe based on the inference that included fossil and extant species, but eastern Asia was estimated to be the ancestral area of the clade of the extant species of Aphananthe. Both the West Gondwanan vicariance hypothesis and the boreotropics hypothesis could be excluded as explanation for its amphi-Pacific distribution. Long-distance dispersals out of eastern Asia into North America, southern and southeastern Asia and Australia, and Madagascar during the Miocene account for its wide intercontinental disjunct distribution. PMID:28170425

Mitochondrial DNA phylogeography of Semisulcospira libertina (Gastropoda: Cerithioidea: Pleuroceridae): implications the history of landform changes in Taiwan.

PubMed

Hsu, Kui-Ching; Bor, Hor; Lin, Hung-Du; Kuo, Po-Hsun; Tan, Mian-Shin; Chiu, Yuh-Wen

2014-06-01

The mitochondrial DNA cytochrome c oxidase subunit I sequences from 95 specimens of Semisulcospira libertina in Taiwan were identified as two major phylogroups, exhibiting a southern and northern distribution, north of Formosa Bank and south of Miaoli Plateau. The genetic distance between these two phylogroups was 12.20%, and the distances within-phylogroups were 4.97 and 5.56%. According to a molecular clock of 1.56% per lineage per million years, the divergence time between these two major phylogroups was estimated at 4.94 million years ago (mya), with the two phylogroups forming at 3.64 and 3.75 mya, respectively. Moreover, the geological events have suggested that Taiwan Island emerged above sea level at 4-5 mya, and became its present shape at 2 mya. These results suggested that these two phylogroups might originate from two independent ancestral populations or divergent before colonizing Taiwan. Within South phylogroup, the initial colonization was hypothesized to be in Kaoping River (WT), followed by its northward. The high divergence between south- and north of WT River was influenced by the formation of the Kaoping foreland basins. Within North phylogroup, the colonization was from central sub-region through paleo-Miaoli Plateau to northern and northeastern sub-regions. This study showed that the landform changes might have shaped the genetic structure of S. libertina in concert. Apparently, two cryptic species or five different genetic stocks of S. libertina could be identified; these results are useful for the evaluation and conservation of S. libertina in Taiwan.

Ecotoxicological and Health Risk Assessment of Polycyclic Aromatic Hydrocarbons (PAHs) in Short-Neck Clam (Paphia undulata) and Contaminated Sediments in Malacca Strait, Malaysia.

PubMed

Keshavarzifard, Mehrzad; Zakaria, Mohamad Pauzi; Sharifi, Reza

2017-10-01

The distribution, sources, and human health risk assessment of polycyclic aromatic hydrocarbons (PAHs) in surface sediment and the edible tissue of short-neck clam (Paphia undulata) from mudflat ecosystem in the west coast of Malaysia were investigated. The concentrations of ∑ 16 PAHs varied from 347.05 to 6207.5 and 179.32 to 1657.5 ng g -1 in sediment and short-neck clam samples, respectively. The calculations of mean PEL quotients (mean-PELQs) showed that the ecological risk of PAHs in the sediment samples was low to moderate-high level, whereas the total health risk through ingestion and dermal contact was considerably high. The PAHs biota sediment accumulation factors data for short-neck clam were obtained in this study, indicating a preferential accumulation of lower molecular weight PAHs. The source apportionment of PAHs in sediment using positive matrix factorization model indicated that the highest contribution to the PAHs was from diesel emissions (30.38%) followed by oil and oil derivate and incomplete coal combustion (23.06%), vehicular emissions (16.43%), wood combustion (15.93%), and natural gas combustion (14.2%). A preliminary evaluation of human health risk using chronic daily intake, hazard index, benzo[a]pyrene-equivalent (BaP eq ) concentration, and the incremental lifetime cancer risk indicated that PAHs in short-neck clam would induce potential carcinogenic effects in the consumers.

Cadmium sulfide quantum dots induce oxidative stress and behavioral impairments in the marine clam Scrobicularia plana.

PubMed

Buffet, Pierre-Emmanuel; Zalouk-Vergnoux, Aurore; Poirier, Laurence; Lopes, Christelle; Risso-de-Faverney, Christine; Guibbolini, Marielle; Gilliland, Douglas; Perrein-Ettajani, Hanane; Valsami-Jones, Eugenia; Mouneyrac, Catherine

2015-07-01

Cadmium sulfide (CdS) quantum dots have a number of current applications in electronics and solar cells and significant future potential in medicine. The aim of the present study was to examine the toxic effects of CdS quantum dots on the marine clam Scrobicularia plana exposed for 14 d to these nanomaterials (10 µg Cd L(-1) ) in natural seawater and to compare them with soluble Cd. Measurement of labile Cd released from CdS quantum dots showed that 52% of CdS quantum dots remained in the nanoparticulate form. Clams accumulated the same levels of Cd regardless of the form in which it was delivered (soluble Cd vs CdS quantum dots). However, significant changes in biochemical responses were observed in clams exposed to CdS quantum dots compared with soluble Cd. Increased activities of catalase and glutathione-S-transferase were significantly higher in clams exposed in seawater to Cd as the nanoparticulate versus the soluble form, suggesting a specific nano effect. The behavior of S. plana in sediment showed impairments of foot movements only in the case of exposure to CdS quantum dots. The results show that oxidative stress and behavior biomarkers are sensitive predictors of CdS quantum dots toxicity in S. plana. Such responses, appearing well before changes might occur at the population level, demonstrate the usefulness of this model species and type of biomarker in the assessment of nanoparticle contamination in estuarine ecosystems. © 2015 SETAC.

Biomarker responses and contamination levels in the clam Ruditapes philippinarum for biomonitoring the Lagoon of Venice (Italy).

PubMed

Matozzo, Valerio; Binelli, Andrea; Parolini, Marco; Locatello, Lisa; Marin, Maria Gabriella

2010-03-01

A multibiomarker approach was used to assess effects of environmental contaminants in the clam Ruditapes philippinarum from the Lagoon of Venice. Bivalves were collected in 8 sites of the Lagoon (Campalto, Marghera, Palude del Monte, Valle di Brenta, Cà Roman, San Servolo, Fusina and Canale Dese), differently influenced by both anthropogenic impact and natural conditions. The following biomarkers were chosen: total haemocyte count and lysozyme activity in cell-free haemolymph as immunomarkers, acetylcholinesterase activity in gills as a biomarker of exposure to neurotoxic compounds, vitellogenin-like protein levels in both digestive gland and cell-free haemolymph as a biomarker of exposure to estrogenic compounds, and survival-in-air widely used to evaluate general stress conditions in clams. In addition, polychlorinated biphenyls (PCBs), polycyclic aromatic hydrocarbons (PAHs), 1,1,1-Trichloro-2,2-bis(p-chlorophenyl)ethane (p,p'-DDT) and its breakdown products (DDE, DDD), hexachlorobenzene (HCB) and hexachlorocyclohexane (HCH) were measured in clams. Results demonstrated that the integrated approach between biomarkers and chemical analyses in R. philippinarum is a useful tool in biomonitoring the Lagoon of Venice. The biomarker responses suggested quite similar contamination levels in the entire Lagoon, although the relative impact of differing classes of pollutants changed among sites according to potential sources, as chemical analyses demonstrated. Overall, among the sampling sites investigated, Palude del Monte can represent an environmental risk area, bearing in mind its peculiar use for clam culture.

mRNA-Seq and microarray development for the Grooved carpet shell clam, Ruditapes decussatus: a functional approach to unravel host -parasite interaction

PubMed Central

2013-01-01

Background The Grooved Carpet shell clam Ruditapes decussatus is the autochthonous European clam and the most appreciated from a gastronomic and economic point of view. The production is in decline due to several factors such as Perkinsiosis and habitat invasion and competition by the introduced exotic species, the manila clam Ruditapes philippinarum. After we sequenced R. decussatus transcriptome we have designed an oligo microarray capable of contributing to provide some clues on molecular response of the clam to Perkinsiosis. Results A database consisting of 41,119 unique transcripts was constructed, of which 12,479 (30.3%) were annotated by similarity. An oligo-DNA microarray platform was then designed and applied to profile gene expression in R. decussatus heavily infected by Perkinsus olseni. Functional annotation of differentially expressed genes between those two conditionswas performed by gene set enrichment analysis. As expected, microarrays unveil genes related with stress/infectious agents such as hydrolases, proteases and others. The extensive role of innate immune system was also analyzed and effect of parasitosis upon expression of important molecules such as lectins reviewed. Conclusions This study represents a first attempt to characterize Ruditapes decussatus transcriptome, an important marine resource for the European aquaculture. The trancriptome sequencing and consequent annotation will increase the available tools and resources for this specie, introducing the possibility of high throughput experiments such as microarrays analysis. In this specific case microarray approach was used to unveil some important aspects of host-parasite interaction between the Carpet shell clam and Perkinsus, two non-model species, highlighting some genes associated with this interaction. Ample information was obtained to identify biological processes significantly enriched among differentially expressed genes in Perkinsus infected versus non-infected gills. An overview on the genes related with the immune system on R. decussatus transcriptome is also reported. PMID:24168212

Sampling trace organic compounds in water: a comparison of a continuous active sampler to continuous passive and discrete sampling methods

USGS Publications Warehouse

Coes, Alissa L.; Paretti, Nicholas V.; Foreman, William T.; Iverson, Jana L.; Alvarez, David A.

2014-01-01

A continuous active sampling method was compared to continuous passive and discrete sampling methods for the sampling of trace organic compounds (TOCs) in water. Results from each method are compared and contrasted in order to provide information for future investigators to use while selecting appropriate sampling methods for their research. The continuous low-level aquatic monitoring (CLAM) sampler (C.I.Agent® Storm-Water Solutions) is a submersible, low flow-rate sampler, that continuously draws water through solid-phase extraction media. CLAM samplers were deployed at two wastewater-dominated stream field sites in conjunction with the deployment of polar organic chemical integrative samplers (POCIS) and the collection of discrete (grab) water samples. All samples were analyzed for a suite of 69 TOCs. The CLAM and POCIS samples represent time-integrated samples that accumulate the TOCs present in the water over the deployment period (19–23 h for CLAM and 29 days for POCIS); the discrete samples represent only the TOCs present in the water at the time and place of sampling. Non-metric multi-dimensional scaling and cluster analysis were used to examine patterns in both TOC detections and relative concentrations between the three sampling methods. A greater number of TOCs were detected in the CLAM samples than in corresponding discrete and POCIS samples, but TOC concentrations in the CLAM samples were significantly lower than in the discrete and (or) POCIS samples. Thirteen TOCs of varying polarity were detected by all of the three methods. TOC detections and concentrations obtained by the three sampling methods, however, are dependent on multiple factors. This study found that stream discharge, constituent loading, and compound type all affected TOC concentrations detected by each method. In addition, TOC detections and concentrations were affected by the reporting limits, bias, recovery, and performance of each method.

Sampling trace organic compounds in water: a comparison of a continuous active sampler to continuous passive and discrete sampling methods.

PubMed

Coes, Alissa L; Paretti, Nicholas V; Foreman, William T; Iverson, Jana L; Alvarez, David A

2014-03-01

A continuous active sampling method was compared to continuous passive and discrete sampling methods for the sampling of trace organic compounds (TOCs) in water. Results from each method are compared and contrasted in order to provide information for future investigators to use while selecting appropriate sampling methods for their research. The continuous low-level aquatic monitoring (CLAM) sampler (C.I.Agent® Storm-Water Solutions) is a submersible, low flow-rate sampler, that continuously draws water through solid-phase extraction media. CLAM samplers were deployed at two wastewater-dominated stream field sites in conjunction with the deployment of polar organic chemical integrative samplers (POCIS) and the collection of discrete (grab) water samples. All samples were analyzed for a suite of 69 TOCs. The CLAM and POCIS samples represent time-integrated samples that accumulate the TOCs present in the water over the deployment period (19-23 h for CLAM and 29 days for POCIS); the discrete samples represent only the TOCs present in the water at the time and place of sampling. Non-metric multi-dimensional scaling and cluster analysis were used to examine patterns in both TOC detections and relative concentrations between the three sampling methods. A greater number of TOCs were detected in the CLAM samples than in corresponding discrete and POCIS samples, but TOC concentrations in the CLAM samples were significantly lower than in the discrete and (or) POCIS samples. Thirteen TOCs of varying polarity were detected by all of the three methods. TOC detections and concentrations obtained by the three sampling methods, however, are dependent on multiple factors. This study found that stream discharge, constituent loading, and compound type all affected TOC concentrations detected by each method. In addition, TOC detections and concentrations were affected by the reporting limits, bias, recovery, and performance of each method. Published by Elsevier B.V.

mRNA-Seq and microarray development for the Grooved Carpet shell clam, Ruditapes decussatus: a functional approach to unravel host-parasite interaction.

PubMed

Leite, Ricardo B; Milan, Massimo; Coppe, Alessandro; Bortoluzzi, Stefania; dos Anjos, António; Reinhardt, Richard; Saavedra, Carlos; Patarnello, Tomaso; Cancela, M Leonor; Bargelloni, Luca

2013-10-29

The Grooved Carpet shell clam Ruditapes decussatus is the autochthonous European clam and the most appreciated from a gastronomic and economic point of view. The production is in decline due to several factors such as Perkinsiosis and habitat invasion and competition by the introduced exotic species, the manila clam Ruditapes philippinarum. After we sequenced R. decussatus transcriptome we have designed an oligo microarray capable of contributing to provide some clues on molecular response of the clam to Perkinsiosis. A database consisting of 41,119 unique transcripts was constructed, of which 12,479 (30.3%) were annotated by similarity. An oligo-DNA microarray platform was then designed and applied to profile gene expression in R. decussatus heavily infected by Perkinsus olseni. Functional annotation of differentially expressed genes between those two conditionswas performed by gene set enrichment analysis. As expected, microarrays unveil genes related with stress/infectious agents such as hydrolases, proteases and others. The extensive role of innate immune system was also analyzed and effect of parasitosis upon expression of important molecules such as lectins reviewed. This study represents a first attempt to characterize Ruditapes decussatus transcriptome, an important marine resource for the European aquaculture. The trancriptome sequencing and consequent annotation will increase the available tools and resources for this specie, introducing the possibility of high throughput experiments such as microarrays analysis. In this specific case microarray approach was used to unveil some important aspects of host-parasite interaction between the Carpet shell clam and Perkinsus, two non-model species, highlighting some genes associated with this interaction. Ample information was obtained to identify biological processes significantly enriched among differentially expressed genes in Perkinsus infected versus non-infected gills. An overview on the genes related with the immune system on R. decussatus transcriptome is also reported.

Contrasting Physiological Responses of Two Populations of the Razor Clam Tagelus dombeii with Different Histories of Exposure to Paralytic Shellfish Poisoning (PSP)

PubMed Central

Navarro, Jorge M.; González, Katerina; Cisternas, Barbara; López, Jorge A.; Chaparro, Oscar R.; Segura, Cristian J.; Córdova, Marco; Suárez-Isla, Benjamín; Fernandez-Reiriz, María J.; Labarta, Uxio

2014-01-01

This study describes the physiological performance of two populations of the razor clam Tagelus dombeii from two geographic areas with different histories of exposure to paralytic shellfish poisoning (PSP) linked to the toxic dinoflagellate Alexandrium catenella. Clams from Melinka-Aysén, which are frequently exposed to PSP, were not affected by the presence of toxins in the diet. However, clams from Corral-Valdivia, which have never been exposed to PSP, exhibited significantly reduced filtration activity and absorption, affecting the energy allocated to scope for growth (SFG). Ammonia excretion and oxygen uptake were not affected significantly by the presence of A. catenella in the diet. Measurements of energy acquisition and expenditure were performed during a 12-day intoxication period. According to three-way repeated measure ANOVAs, the origin of the clams had a highly significant effect on all physiological variables, and the interaction between diet and origin was significant for the clearance and absorption rates and for the scope for growth. The scope for growth index showed similar positive values for both the toxic and non-toxic individuals from the Melinka-Aysén population. However, it was significantly reduced in individuals from Corral-Valdivia when exposed to the diet containing A. catenella. The absence of differences between the physiological response of the toxic and non-toxic clams from Melinka-Aysén may be related to the frequent presence of A. catenella in the environment, indicating that this bivalve does not suffer negative consequences from PSP. By contrast, A. catenella has a negative effect on the physiological performance, primarily on the energy gained from the environment, on T. dombeii from Corral-Valdivia. This study supports the hypothesis that the history of PSP exposure plays an important role in the physiological performance and fitness of filter feeding bivalves. PMID:25153329

The Evolution of Human Handedness

PubMed Central

Smaers, Jeroen B; Steele, James; Case, Charleen R; Amunts, Katrin

2013-01-01

There is extensive evidence for an early vertebrate origin of lateralized motor behavior and of related asymmetries in underlying brain systems. We investigate human lateralized motor functioning in a broad comparative context of evolutionary neural reorganization. We quantify evolutionary trends in the fronto-cerebellar system (involved in motor learning) across 46 million years of divergent primate evolution by comparing rates of evolution of prefrontal cortex, frontal motor cortex, and posterior cerebellar hemispheres along individual branches of the primate tree of life. We provide a detailed evolutionary model of the neuroanatomical changes leading to modern human lateralized motor functioning, demonstrating an increased role for the fronto-cerebellar system in the apes dating to their evolutionary divergence from the monkeys (∼30 million years ago (Mya)), and a subsequent shift toward an increased role for prefrontal cortex over frontal motor cortex in the fronto-cerebellar system in the Homo-Pan ancestral lineage (∼10 Mya) and in the human ancestral lineage (∼6 Mya). We discuss these results in the context of cortico-cerebellar functions and their likely role in the evolution of human tool use and speech. PMID:23647442

Toxicological effects of paracetamol on the clam Ruditapes philippinarum: exposure vs recovery.

PubMed

Nunes, Bruno; Nunes, Joana; Soares, Amadeu M V M; Figueira, Etelvina; Freitas, Rosa

2017-11-01

Exposure of wild organisms to anthropogenic substances never follows a definite time-course and pulsed events can often determine biological responses to such chemicals, confounding the interpretation of toxicological data. This is the case of specific chemicals such as pharmaceutical drugs, which are commonly released by sewage systems into sensitive areas, including estuaries. The presence and amount of these chemicals in the wild can be modulated by events such as dilution due to heavy rain, floods, or by varying patterns of domestic water use (daily vs. seasonal). The present study aimed to obtain additional data about the toxicity of paracetamol towards the marine clam species Ruditapes philippinarum, following realistic modes of exposure. Thus, the toxicity assessment was made after an acute exposure to different concentrations of paracetamol, followed by a recovery period. The adopted toxicological endpoints included energy-related parameters (glycogen content, GLY; protein content, PROT; electron transport system activity, ETS), activity of antioxidant and biotransformation enzymes (superoxide dismutase, SOD; glutathione peroxidase, GPx; Glutathione-S-transferases, GSTs), levels of reduced glutathione (GSH), neurotoxicity (cholinesterases activity, ChEs), and indicators of oxidative damage (lipid peroxidation, LPO). The here obtained results showed an increase in SOD and GPx activities after exposure. In organisms exposed to the highest concentration tested it was also possible to observe a significant increase in GSTs activity. However, these alterations in the antioxidant defence system were not able to prevent the occurrence of oxidative stress in exposed organisms. Furthermore, exposure to paracetamol induced neurotoxicity in clams, with a concentration-dependent ChEs inhibition along the exposure concentrations. Exposure to paracetamol also led to an increase of GLY content which resulted from metabolic activity depression along the increasing exposure gradient. In recovering organisms the activities of SOD, GPx and GSTs decreased back towards control values presenting lower values than the ones observed in organisms after acute exposure to paracetamol. No LPO was registered in organisms after the recovery period. In addition, after recovery, clams showed no signs of neurotoxicity, with ChEs activities in previously exposed organisms similar to control clams. After recovery clams seemed to re-establish their metabolic capacity, especially evidenced in clams previously exposed to the highest paracetamol concentration as demonstrated by the increase of ETS activity up to control values. Furthermore, the decrease of GLY content after recovery may indicate that clams increased their metabolic activity and started to use their energetic reserves to re-establish their oxidative status. This set of data shows that an acute exposure to paracetamol can exert deleterious effects that may compromise specific biochemical pathways in sensitive aquatic species, such as R. philippinarum, but organisms can re-establish their biochemical status to control levels after a recovery period. Copyright © 2017 Elsevier B.V. All rights reserved.

Comparative study of the shell development of hard- and soft-shelled turtles

PubMed Central

Nagashima, Hiroshi; Shibata, Masahiro; Taniguchi, Mari; Ueno, Shintaro; Kamezaki, Naoki; Sato, Noboru

2014-01-01

The turtle shell provides a fascinating model for the investigation of the evolutionary modifications of developmental mechanisms. Different conclusions have been put forth for its development, and it is suggested that one of the causes of the disagreement could be the differences in the species of the turtles used – the differences between hard-shelled turtles and soft-shelled turtles. To elucidate the cause of the difference, we compared the turtle shell development in the two groups of turtle. In the dorsal shell development, these two turtle groups shared the gene expression profile that is required for formation, and shared similar spatial organization of the anatomical elements during development. Thus, both turtles formed the dorsal shell through a folding of the lateral body wall, and the Wnt signaling pathway appears to have been involved in the development. The ventral portion of the shell, on the other hand, contains massive dermal bones. Although expression of HNK-1 epitope has suggested that the trunk neural crest contributed to the dermal bones in the hard-shelled turtles, it was not expressed in the initial anlage of the skeletons in either of the types of turtle. Hence, no evidence was found that would support a neural crest origin. PMID:24754673

KENNEDY SPACE CENTER, FLA. - A soft-shell turtle with only three legs is seen crossing the tow-way at KSC. The turtle is one of 65 amphibians and reptiles found in the Merritt Island National Wildlife Refuge, which surrounds KSC. The Wildlife Refuge encompasses 92,000 acres that are also a habitat for more than 331 species of birds, 31 mammals and 117 fishes. The marshes and open water of the refuge provide wintering areas for 23 species of migratory waterfowl, as well as a year-round home for great blue herons, great egrets, wood storks, cormorants, brown pelicans and other species of marsh and shore birds, plus a variety of insects.

NASA Image and Video Library

2003-05-29

KENNEDY SPACE CENTER, FLA. - A soft-shell turtle with only three legs is seen crossing the tow-way at KSC. The turtle is one of 65 amphibians and reptiles found in the Merritt Island National Wildlife Refuge, which surrounds KSC. The Wildlife Refuge encompasses 92,000 acres that are also a habitat for more than 331 species of birds, 31 mammals and 117 fishes. The marshes and open water of the refuge provide wintering areas for 23 species of migratory waterfowl, as well as a year-round home for great blue herons, great egrets, wood storks, cormorants, brown pelicans and other species of marsh and shore birds, plus a variety of insects.

KENNEDY SPACE CENTER, FLA. - A closeup of a soft-shell turtle seen crossing the tow-way at KSC. The turtle is one of 65 amphibians and reptiles found in the Merritt Island National Wildlife Refuge, which surrounds KSC. The Wildlife Refuge encompasses 92,000 acres that are also a habitat for more than 331 species of birds, 31 mammals and 117 fishes. The marshes and open water of the refuge provide wintering areas for 23 species of migratory waterfowl, as well as a year-round home for great blue herons, great egrets, wood storks, cormorants, brown pelicans and other species of marsh and shore birds, plus a variety of insects.

NASA Image and Video Library

2003-05-29

KENNEDY SPACE CENTER, FLA. - A closeup of a soft-shell turtle seen crossing the tow-way at KSC. The turtle is one of 65 amphibians and reptiles found in the Merritt Island National Wildlife Refuge, which surrounds KSC. The Wildlife Refuge encompasses 92,000 acres that are also a habitat for more than 331 species of birds, 31 mammals and 117 fishes. The marshes and open water of the refuge provide wintering areas for 23 species of migratory waterfowl, as well as a year-round home for great blue herons, great egrets, wood storks, cormorants, brown pelicans and other species of marsh and shore birds, plus a variety of insects.

Comparative study of the shell development of hard- and soft-shelled turtles.

PubMed

Nagashima, Hiroshi; Shibata, Masahiro; Taniguchi, Mari; Ueno, Shintaro; Kamezaki, Naoki; Sato, Noboru

2014-07-01

The turtle shell provides a fascinating model for the investigation of the evolutionary modifications of developmental mechanisms. Different conclusions have been put forth for its development, and it is suggested that one of the causes of the disagreement could be the differences in the species of the turtles used - the differences between hard-shelled turtles and soft-shelled turtles. To elucidate the cause of the difference, we compared the turtle shell development in the two groups of turtle. In the dorsal shell development, these two turtle groups shared the gene expression profile that is required for formation, and shared similar spatial organization of the anatomical elements during development. Thus, both turtles formed the dorsal shell through a folding of the lateral body wall, and the Wnt signaling pathway appears to have been involved in the development. The ventral portion of the shell, on the other hand, contains massive dermal bones. Although expression of HNK-1 epitope has suggested that the trunk neural crest contributed to the dermal bones in the hard-shelled turtles, it was not expressed in the initial anlage of the skeletons in either of the types of turtle. Hence, no evidence was found that would support a neural crest origin. © 2014 Anatomical Society.

Lymphocyte migration in the micro-channel of splenic sheathed capillaries in Chinese soft-shelled turtles, Pelodiscus sinensis.

PubMed

Zhang, Qian; Ullah, Shakeeb; Liu, Yi; Yang, Ping; Chen, Bing; Waqas, Yasir; Bao, Huijun; Hu, Lisi; Li, Quanfu; Chen, Qiusheng

2016-01-01

The structural characteristics of the splenic sheathed capillary were investigated using light microscopy and transmission electron microscopy (TEM). This study mainly focused on lymphocyte migration to the splenic white pulp via micro-channels in Chinese soft-shelled turtles, Pelodiscus sinensis. The results showed that the sheathed capillaries in the turtle spleen were high endothelial venule (HEV)-like vessels. These capillaries consist of micro-channels that facilitate lymphocyte migration to the splenic white pulp. The micro-channel is a dynamic structure comprising processes of endothelial cells, supporting cells, and ellipsoid-associated cells (EACs), which provides a microenvironment for lymphocyte migration. The pattern of lymphocyte migration in the micro-channel of the turtle spleen includes the following steps: (i) lymphocyte first adheres to the endothelium of the sheathed capillary, passes through the endothelial cells, and traverses through the basement membrane of the sheathed capillary; (ii) it then enters into the ellipsoid combined with supporting cells and EACs; and (iii) lymphocyte migrates from the ellipsoid to the periellipsoidal lymphatic sheath (PELS) via the micro-channel. This study provides morphological evidence for lymphocyte migration in the micro-channels of turtle spleens and also an insight into the mechanism of lymphocyte homing to the splenic white pulp of reptiles. Copyright © 2015 Elsevier Ltd. All rights reserved.

The Quiet Clam Is Quite Calm: Transposed-Letter Neighborhood Effects on Eye Movements during Reading

ERIC Educational Resources Information Center

Johnson, Rebecca L.

2009-01-01

In responses time tasks, inhibitory neighborhood effects have been found for word pairs that differ in a transposition of two adjacent letters (e.g., "clam/calm"). Here, the author describes two eye-tracking experiments conducted to explore transposed-letter (TL) neighborhood effects within the context of normal silent reading. In…

Publications - GMC 94 | Alaska Division of Geological & Geophysical Surveys

Science.gov Websites

and Facilities Staff Seismic and Well Data Data Reports Contact Us Frequently Asked Questions Ask a Oil Company Clam Gulch 1-X well Authors: Makada, R. Publication Date: 1988 Publisher: Alaska Division , Vitrinite reflectance data of ditch cuttings from the Marathon Oil Company Clam Gulch 1-X well: Alaska

Species Profiles: Life Histories and Environmental Requirements of Coastal Fishes and Invertebrates (Pacific Southwest). Common Littleneck Clam.

DTIC Science & Technology

1986-04-01

cells in clam (P. tenerrima) in having December and January (Quayle 1943). w , , radiating ribs more prominent than The growth of gametes reaches a...reproductive cycle levels in intertidal mollusks of of Protothaca stamine ’ using histo- California. Veliger 14(4):365-372. logical, wet weight-dry

Cloning and localization of MCdef, a defensin from Manila clams (Ruditapes philippinarum).

PubMed

Adhya, Mausumi; Jeung, Hee-Do; Kang, Hyun-Sil; Choi, Kwang-Sik; Lee, Dong Sun; Cho, Moonjae

2012-01-01

A defensin-like peptide was previously detected in hemocytes of Manila clams (Ruditapes philippinarum). In the current study, we cloned and characterized this defensin, designated MCdef. Cloning produced a full-length gene sequence of 201 bp predicted to encode a 66-amino-acid precursor protein maturing to a 44-amino-acid residue. Amino acid sequence analysis showed that MCdef is similar to defensins from marine mollusks and ticks. Phylogenetic analysis suggested that MCdef is closely related to defensins from Mytilus galloprovincialis (Mediterranean mussel) and Crassostrea gigas (Pacific cupped oyster). The three-dimensional structure of MCdef was modeled using the solution structure of C. gigas defensin as a template. With the exception of three variable loop areas, the modeled structure of MCdef was identical to that of C. gigas defensin. MCdef antiserum was raised against a synthetic MCdef peptide and verified by Western blotting using recombinant MCdef. RT-PCR analysis demonstrated high levels of MCdef mRNA in hemocytes and adductor, foot, gill, mantle, palp, and siphon tissues of Vibrio tapetis-infected Manila clams, whereas in V. tapetis-uninfected Manila clams, the level of MCdef mRNA was low in adductor, palp, and siphon tissues and even lower in the other tested tissues. Immunohistochemical analysis revealed high MCdef expression was detected in the gill, the mantle, and the digestive tubules of the diverticulum of V. tapetis-infected Manila clams. Minimum inhibitory concentration (MIC) of the purified rMCdef was determined. MCdef showed highest activity against Streptococcus iniae and Staphylococcus aureus. Copyright © 2011 Elsevier Inc. All rights reserved.

Identification of larvae: The zebra mussel (Dreissena polymorpha), quagga mussel (Dreissena rosteriformis bugensis), and Asian clam (Corbicula fluminea)

USGS Publications Warehouse

Nichols, S. Jerrine; Black, M.G.

1994-01-01

There are presently four freshwater bivalves in the United States that produce larvae or veligers commonly found in the water column: two forms of Asian clams and two species of dreissenids. Portions of the geographic range of three of these bivalves, one species of Asian clam (Corbicula fluminea), zebra mussels (Dreissena polymorpha), and quagga mussels (Dreissena rosteriformis bugensis), overlap, causing problems with larval identification. To determine which characteristics can be used to separate larval forms, adult Asian clams, quaggas, and zebra mussels were brought into the laboratory and induced to spawn, and the resulting larvae were reared. Hybrids between quaggas and zebra mussels were also produced, but not reared to maturity. Characteristics allowing for the most rapid and accurate separation of larvae were hinge length, shell length/height, shell shape, shell size, and the presence or absence of a foot and velum. These characteristics were observed in laboratory-reared larvae of known parentage and field-caught larvae of unknown parentage. In most cases, larvae of the Asian clam can be readily separated from those produced by either type of dreissenid on the basis of shell size and presence of a foot. Separating the gametes and embryos of the two types of dreissenids is not possible, but after shell formation, most of the larval stages can be distinguished. Hinge length, shell length/height, and the similarity in size of the shell valves can be used to separate straight-hinged, umbonal, pediveliger, and plantigrade larvae. Quagga × zebra mussel hybrids show characteristics of both parents and are difficult to identify.

Demographic History of the Genus Pan Inferred from Whole Mitochondrial Genome Reconstructions

PubMed Central

Tucci, Serena; de Manuel, Marc; Ghirotto, Silvia; Benazzo, Andrea; Prado-Martinez, Javier; Lorente-Galdos, Belen; Nam, Kiwoong; Dabad, Marc; Hernandez-Rodriguez, Jessica; Comas, David; Navarro, Arcadi; Schierup, Mikkel H.; Andres, Aida M.; Barbujani, Guido; Hvilsom, Christina; Marques-Bonet, Tomas

2016-01-01

The genus Pan is the closest genus to our own and it includes two species, Pan paniscus (bonobos) and Pan troglodytes (chimpanzees). The later is constituted by four subspecies, all highly endangered. The study of the Pan genera has been incessantly complicated by the intricate relationship among subspecies and the statistical limitations imposed by the reduced number of samples or genomic markers analyzed. Here, we present a new method to reconstruct complete mitochondrial genomes (mitogenomes) from whole genome shotgun (WGS) datasets, mtArchitect, showing that its reconstructions are highly accurate and consistent with long-range PCR mitogenomes. We used this approach to build the mitochondrial genomes of 20 newly sequenced samples which, together with available genomes, allowed us to analyze the hitherto most complete Pan mitochondrial genome dataset including 156 chimpanzee and 44 bonobo individuals, with a proportional contribution from all chimpanzee subspecies. We estimated the separation time between chimpanzees and bonobos around 1.15 million years ago (Mya) [0.81–1.49]. Further, we found that under the most probable genealogical model the two clades of chimpanzees, Western + Nigeria-Cameroon and Central + Eastern, separated at 0.59 Mya [0.41–0.78] with further internal separations at 0.32 Mya [0.22–0.43] and 0.16 Mya [0.17–0.34], respectively. Finally, for a subset of our samples, we compared nuclear versus mitochondrial genomes and we found that chimpanzee subspecies have different patterns of nuclear and mitochondrial diversity, which could be a result of either processes affecting the mitochondrial genome, such as hitchhiking or background selection, or a result of population dynamics. PMID:27345955

Molecular phylogeny and taxonomy of wood mice (genus Apodemus Kaup, 1829) based on complete mtDNA cytochrome b sequences, with emphasis on Chinese species.

PubMed

Liu, Xiaoming; Wei, Fuwen; Li, Ming; Jiang, Xuelong; Feng, Zuojian; Hu, Jinchu

2004-10-01

Phylogenetic relationships among 15 species of wood mice (genus Apodemus) were reconstructed to explore some long-standing taxonomic problems. The results provided support for the monophyly of the genus Apodemus, but could not reject the hypothesis of paraphyly for this genus. Our data divided the 15 species into four major groups: (1) the Sylvaemus group (A. sylvaticus, A. flavicollis, A. alpicola, and A. uralensis), (2) the Apodemus group (A. peninsulae, A. chevreri, A. agrarius, A. speciosus, A. draco, A. ilex, A. semotus, A. latronum, and A. mystacinus), (3) A. argenteus, and (4) A. gurkha. Our results also suggested that orestes should be a valid subspecies of A. draco rather than an independent species; in contrast, A. ilex from Yunnan may be regarded as a separate species rather than a synonym of orestes or draco. The species level status of A. latronum, tscherga as synonyms of A. uralensis, and A. chevrieri as a valid species and the closest sibling species of A. agrarius were further corroborated by our data. Applying a molecular clock with the divergences of Mus and Rattus set at 12 million years ago (Mya) as a calibration point, it was estimated that five old lineages (A. mystacinus and four major groups above) diverged in the late Miocene (7.82-12.74 Mya). Then the Apodemus group (excluding A. mystacinus) split into two subgroups: agrarius and draco, at about 7.17-9.95 Mya. Four species of the Sylvaemus group were estimated to diverge at about 2.92-5.21 Mya. The Hengduan Mountains Region was hypothesized to have played important roles in Apodemus evolutionary histories since the Pleistocene.

A Phylogenetic Perspective on the Evolution of Mediterranean Teleost Fishes

PubMed Central

Meynard, Christine N.; Mouillot, David; Mouquet, Nicolas; Douzery, Emmanuel J. P.

2012-01-01

The Mediterranean Sea is a highly diverse, highly studied, and highly impacted biogeographic region, yet no phylogenetic reconstruction of fish diversity in this area has been published to date. Here, we infer the timing and geographic origins of Mediterranean teleost species diversity using nucleotide sequences collected from GenBank. We assembled a DNA supermatrix composed of four mitochondrial genes (12S ribosomal DNA, 16S ribosomal DNA, cytochrome c oxidase subunit I and cytochrome b) and two nuclear genes (rhodopsin and recombination activating gene I), including 62% of Mediterranean teleost species plus 9 outgroups. Maximum likelihood and Bayesian phylogenetic and dating analyses were calibrated using 20 fossil constraints. An additional 124 species were grafted onto the chronogram according to their taxonomic affinity, checking for the effects of taxonomic coverage in subsequent diversification analyses. We then interpreted the time-line of teleost diversification in light of Mediterranean historical biogeography, distinguishing non-endemic natives, endemics and exotic species. Results show that the major Mediterranean orders are of Cretaceous origin, specifically ∼100–80 Mya, and most Perciformes families originated 80–50 Mya. Two important clade origin events were detected. The first at 100–80 Mya, affected native and exotic species, and reflects a global diversification period at a time when the Mediterranean Sea did not yet exist. The second occurred during the last 50 Mya, and is noticeable among endemic and native species, but not among exotic species. This period corresponds to isolation of the Mediterranean from Indo-Pacific waters before the Messinian salinity crisis. The Mediterranean fish fauna illustrates well the assembly of regional faunas through origination and immigration, where dispersal and isolation have shaped the emergence of a biodiversity hotspot. PMID:22590545

A phylogeographic investigation of the kelp genus Laminaria (Laminariales, Phaeophyceae), with emphasis on the South Atlantic Ocean.

PubMed

Rothman, Mark D; Mattio, Lydiane; Anderson, Robert J; Bolton, John J

2017-08-01

The genus Laminaria has a wide distribution range compared with other kelp genera because it is found in both the North and the South Atlantic, on both sides of the North Pacific, as well as in the Mediterranean. Hypotheses behind this biogeographical pattern have been discussed by several authors but have not yet been fully evaluated with time-calibrated phylogenies. Based on the analysis of four molecular markers (ITS2, rbcL, atp8 and trnWI), our goal was to reassess the Laminaria species diversity in South Africa, assess its relationship with the other species distributed in the South Atlantic and reconstruct the historical biogeography of the genus. Our results confirm the occurrence of a single species, L. pallida, in southern Africa, and its sister relationship with the North Atlantic L. ochroleuca. Both species belonged to a clade containing the other South Atlantic species: L. abyssalis from Brazil, and the Mediterranean L. rodriguezii. Our time-calibrated phylogenies suggest that Laminaria originated in the northern Pacific around 25 mya, followed by at least two migration events through the Bering Strait after its opening (~5.32 mya). Today, the first is represented by L. solidungula in the Arctic, while the second gave rise to the rest of the Atlantic species. The colonization of the North Atlantic was followed by a gradual colonization southward along the west coast of Europe, into the Mediterranean (~2.07 mya) and two recent, but disconnected, migrations (~1.34 and 0.87 mya) across the equator, giving rise to L. abyssalis in Brazil and L. pallida in southern Africa, respectively. © 2017 Phycological Society of America.

Patterns of diversification amongst tropical regions compared: a case study in Sapotaceae

PubMed Central

Armstrong, Kate E.; Stone, Graham N.; Nicholls, James A.; Valderrama, Eugenio; Anderberg, Arne A.; Smedmark, Jenny; Gautier, Laurent; Naciri, Yamama; Milne, Richard; Richardson, James E.

2014-01-01

Species diversity is unequally distributed across the globe, with the greatest concentration occurring in the tropics. Even within the tropics, there are significant differences in the numbers of taxa found in each continental region. Manilkara is a pantropical genus of trees in the Sapotaceae comprising c. 78 species. Its distribution allows for biogeographic investigation and testing of whether rates of diversification differ amongst tropical regions. The age and geographical origin of Manilkara are inferred to determine whether Gondwanan break-up, boreotropical migration or long distance dispersal have shaped its current disjunct distribution. Diversification rates through time are also analyzed to determine whether the timing and tempo of speciation on each continent coincides with geoclimatic events. Bayesian analyses of nuclear (ITS) and plastid (rpl32-trnL, rps16-trnK, and trnS-trnFM) sequences were used to reconstruct a species level phylogeny of Manilkara and related genera in the tribe Mimusopeae. Analyses of the nuclear data using a fossil-calibrated relaxed molecular clock indicate that Manilkara evolved 32–29 million years ago (Mya) in Africa. Lineages within the genus dispersed to the Neotropics 26–18 Mya and to Asia 28–15 Mya. Higher speciation rates are found in the Neotropical Manilkara clade than in either African or Asian clades. Dating of regional diversification correlates with known palaeoclimatic events. In South America, the divergence between Atlantic coastal forest and Amazonian clades coincides with the formation of drier Cerrado and Caatinga habitats between them. In Africa diversification coincides with Tertiary cycles of aridification and uplift of the east African plateaux. In Southeast Asia dispersal may have been limited by the relatively recent emergence of land in New Guinea and islands further east c. 10 Mya. PMID:25520736

Species Profiles. Life Histories and Environmental Requirements of Coastal Fishes and Invertebrates (Pacific Northwest). Pacific Geoduck Clam

DTIC Science & Technology

1989-12-01

PACIFIC GEODUCK CLAM by C. Lynn Goodwin and Bruce Pease Point Whitney Shellfish Laboratory Washington Department of Fisheries Brinnon, WA 98320... FISHERIES ................................. 6 POPULATION DYNAMICS ............................................. 7 GROWTH CHARACTERISTICS...authors would like to thank Bobbe Hardie, Washington State Department of Fisheries , for typing and editing early drafts and Dr. Ken Chew of the

Pixel by pixel: the evolving landscapes of remote sensing.

Treesearch

Sally Duncan

1999-01-01

This issue of "Science Findings" focuses on remote sensing research and how it can be used to assess a landscape. The work of PNW Research Station scientists Tom Spies and Warren Cohen and their use of satellite technology in developing the coastal landscape analysis and modeling study (CLAMS) is featured. The CLAMS study area includes more than 5 million...

A histopathological survey of the razor clam Ensis macha (Pharidae) along the Patagonian Argentina coast.

PubMed

Vázquez, Nuria; Bruno, Elizabeth Perez; Márquez, Federico; Van der Molen, Silvina; Gilardoni, Carmen; Cremonte, Florencia

2013-03-01

This is the first study performed to determine the health status of the razor clam, Ensis macha, including six different populations along Argentina Patagonian coast and one of Chile. The parasites and pathologies affecting E. macha were analyzed and their prevalence and mean intensity values were calculated. To establish which factors affect the presence and intensity of infection, Generalized Linear Models (GLMs) were applied. Basophilic inclusions, ciliates, coccidians protozoans and turbellarians were found. We report an Aporocotylidae digenean and hemocyte infiltrations. None of the parasites is OIE (World Organisation for Animal Health) notifiable, and none seemed to be pathogenic, with the exception of the digenean. The prevalence of the parasites was affected mainly by environmental factors (such as site of sampling and season) instead of intrinsic conditions of the clam (such as size, condition index, sex and gonadal stage). On the other hand, the maximum intensity of parasites was not only related with cold seasons but also with the partially spawned gonadal stage of E. macha. During this stage, the clams would need to store energy for the next gametogenesis cycle, might be more susceptible to infection by the parasites. Copyright © 2012 Elsevier Inc. All rights reserved.

Ontogenetic and temperature-dependent changes in tolerance to hypoxia and hydrogen sulfide during the early life stages of the Manila clam Ruditapes philippinarum.

PubMed

Kodama, Keita; Waku, Mitsuyasu; Sone, Ryota; Miyawaki, Dai; Ishida, Toshiro; Akatsuka, Tetsuji; Horiguchi, Toshihiro

2018-06-01

Wind-induced upwelling of hypoxic waters containing hydrogen sulfide (H 2 S) sometimes causes mass mortalities of aquatic organisms inhabiting coastal areas, including the hypoxia-tolerant Manila clam Ruditapes philippinarum. We examined the tolerance of Manila clam to H 2 S under controlled laboratory conditions. Larvae and juveniles obtained by artificial fertilization or from a wild population were exposed to normoxic or to hypoxic water with or without un-ionized H 2 S (concentrations, 0.2-52.2 mg/L). Twenty-four-hour exposure experiments revealed ontogenetic changes in the clam's tolerance to H 2 S exposure: tolerance was enhanced from the larval stages to juveniles just after settlement but was attenuated as juveniles grew. Tolerance of larvae and juveniles to H 2 S exposure weakened as the water temperature rose from 20 to 28 °C. Prolonged 48-h exposure to H 2 S attenuated the tolerance of juveniles to H 2 S. Temporary suspension of H 2 S exposure by 24-h reoxygenation improved the ability of juveniles to withstand repeated H 2 S exposure. Copyright © 2018 Elsevier Ltd. All rights reserved.

Relationship between gonad maturation and heavy metal accumulation in the clam, Galatea paradoxa (Born 1778) from the Volta estuary, Ghana.

PubMed

Adjei-Boateng, D; Obirikorang, K A; Amisah, S; Madkour, H A; Otchere, F A

2011-12-01

The relationship between gonadal development and the concentrations of four heavy metals Mn, Zn, Fe and Hg in the tissues of the clam Galatea paradoxa was evaluated at the Volta estuary, Ghana, over an 18-month period. Metal concentrations in the clam tissues were highly variable over the sampling period and seemed to be influenced by the reproductive cycle of the clam. Mn concentrations varied over a wide range from 49 to 867 μg/g and exhibited a significant positive correlation with gonadal development (p = 0.0146, r(2) = 0.3190). Zn and Fe concentrations ranged from 13 to 59 μg/g and 79 to 484 μg/g, respectively and both revealed negative relationships between gonad development and metal accumulation (Zn (p = 0.0554, r(2) = 0.0554) and Fe (p = 0.1040, r(2) = 0.1567)). Hg concentrations ranged from 0.026 to 0.059 μg/g over the sampling period and exhibited a slight positive relationship between gonadal development and metal accumulation (p = 0.0861, r(2) = 0.1730).

Tide-associated biological rhythms of some White Sea littoral invertebrates.

PubMed

Gusev, O A; Golubev, A I

2001-01-01

We report the results from two years of laboratory observations of the tide-associated rhythms of activity of White Sea intertidal invertebrates, Mya arenaria (Bivalvia) and Gammarus finmarchicus (Amphipoda). The tidal associated activity of these invertebrates could not be estimate as a clear circatidal clock. Gammarus activity could be phase shifted by a 0.5 h exposure to turbulent water twice a day for 2-3 days. Mya's rhythm could be changed by a single drainage of aquariums lasting about 15 min. This kind of timing system may be a relatively primitive evolution feature. c2001 COSPAR. Published by Elsevier Science Ltd. All rights reserved.

New Eocene Coleoid (Cephalopoda) Diversity from Statolith Remains: Taxonomic Assignation, Fossil Record Analysis, and New Data for Calibrating Molecular Phylogenies

PubMed Central

Neige, Pascal; Lapierre, Hervé; Merle, Didier

2016-01-01

New coleoid cephalopods are described from statolith remains from the Middle Eocene (Middle Lutetian) of the Paris Basin. Fifteen fossil statoliths are identified and assigned to the Sepiidae (Sepia boletzkyi sp. nov.,? Sepia pira sp. nov.), Loliginidae (Loligo clarkei sp. nov.), and Ommastrephidae (genus indet.) families. The sediments containing these fossils indicate permanent aquatic settings in the infralittoral domain. These sediments range in age from 46 Mya to 43 Mya. Analysis of the fossil record of statoliths (from findings described here, together with a review of previously published data) indicates marked biases in our knowledge. Fossil statoliths are known from as far back as the Early Jurassic (199.3 to 190.8 Mya) but surprisingly, to the best of our knowledge, no record occurs in the Cretaceous. This is a “knowledge bias” and clearly calls for further studies. Finally, we attempt to compare findings described here with fossils previously used to constrain divergence and/or diversification ages of some coleoid subclades in molecular phylogenies. This comparison clearly indicates that the new records detailed here will challenge some estimated divergence times of coleoid cephalopod subclades. PMID:27192490

Determining and dating recent rodent speciation events by using L1 (LINE-1) retrotransposons

PubMed Central

Verneau, Olivier; Catzeflis, François; Furano, Anthony V.

1998-01-01

Phylogenies based on the inheritance of shared derived characters will be ambiguous when the shared characters are not the result of common ancestry. Such characters are called homoplasies. Phylogenetic analysis also can be problematic if the characters have not changed sufficiently, as might be the case for rapid or recent speciations. The latter are of particular interest because evolutionary processes may be more accessible the more recent the speciation. The repeated DNA subfamilies generated by the mammalian L1 (LINE-1) retrotransposon are apparently homoplasy-free phylogenetic characters. L1 retrotransposons are transmitted only by inheritance and rapidly generate novel variants that produce distinct subfamilies of mostly defective copies, which then “age” as they diverge. Here we show that the L1 character can both resolve and date recent speciation events within the large group of very closely related rats known as Rattus sensu stricto. This lineage arose 5–6 million years ago (Mya) and subsequently underwent two episodes of speciation: an intense one, ≈2.7 Mya, produced at least five lineages in <0.3 My; a second began ≈1.2 Mya and may still be continuing. PMID:9736728

Determining and dating recent rodent speciation events by using L1 (LINE-1) retrotransposons.

PubMed

Verneau, O; Catzeflis, F; Furano, A V

1998-09-15

Phylogenies based on the inheritance of shared derived characters will be ambiguous when the shared characters are not the result of common ancestry. Such characters are called homoplasies. Phylogenetic analysis also can be problematic if the characters have not changed sufficiently, as might be the case for rapid or recent speciations. The latter are of particular interest because evolutionary processes may be more accessible the more recent the speciation. The repeated DNA subfamilies generated by the mammalian L1 (LINE-1) retrotransposon are apparently homoplasy-free phylogenetic characters. L1 retrotransposons are transmitted only by inheritance and rapidly generate novel variants that produce distinct subfamilies of mostly defective copies, which then "age" as they diverge. Here we show that the L1 character can both resolve and date recent speciation events within the large group of very closely related rats known as Rattus sensu stricto. This lineage arose 5-6 million years ago (Mya) and subsequently underwent two episodes of speciation: an intense one, approximately 2.7 Mya, produced at least five lineages in <0.3 My; a second began approximately 1.2 Mya and may still be continuing.

New Eocene Coleoid (Cephalopoda) Diversity from Statolith Remains: Taxonomic Assignation, Fossil Record Analysis, and New Data for Calibrating Molecular Phylogenies.

PubMed

Neige, Pascal; Lapierre, Hervé; Merle, Didier

2016-01-01

New coleoid cephalopods are described from statolith remains from the Middle Eocene (Middle Lutetian) of the Paris Basin. Fifteen fossil statoliths are identified and assigned to the Sepiidae (Sepia boletzkyi sp. nov.,? Sepia pira sp. nov.), Loliginidae (Loligo clarkei sp. nov.), and Ommastrephidae (genus indet.) families. The sediments containing these fossils indicate permanent aquatic settings in the infralittoral domain. These sediments range in age from 46 Mya to 43 Mya. Analysis of the fossil record of statoliths (from findings described here, together with a review of previously published data) indicates marked biases in our knowledge. Fossil statoliths are known from as far back as the Early Jurassic (199.3 to 190.8 Mya) but surprisingly, to the best of our knowledge, no record occurs in the Cretaceous. This is a "knowledge bias" and clearly calls for further studies. Finally, we attempt to compare findings described here with fossils previously used to constrain divergence and/or diversification ages of some coleoid subclades in molecular phylogenies. This comparison clearly indicates that the new records detailed here will challenge some estimated divergence times of coleoid cephalopod subclades.

Convergence in Thunniform Anatomy in Lamnid Sharks and Jurassic Ichthyosaurs.

PubMed

Lingham-Soliar, Theagarten

2016-12-01

Among extinct ichthyosaurs the Jurassic forms Ichthyosaurus and Stenopterygius share a number of anatomical specializations with lamnid sharks, characterized in the white shark, Carcharodon carcharias These features allow their inclusion within the mode of high-speed thunniform swimming to which only two other equally distinctive phylogenetic groups belong, tuna and dolphins-a striking testaments to evolutionary convergence. Jurassic ichthyosaurs evolved from reptiles that had returned to the sea (secondarily adapted) about 250 million years ago (MYA) while lamnid sharks evolved about 50 MYA from early cartilaginous fishes (originating ca. 400 MYA). Their shared independently evolved anatomical characteristics are discussed. These include a deep tear-drop body shape that helped initially define members as thunniform swimmers. Later, other critical structural characteristics were discovered such as the crossed-fiber architecture of the skin, high-speed adapted dorsal and caudal fins, a caudal peduncle and series of ligaments to enable transmission of power from the musculature located anteriorly to the caudal fin. Both groups also share a similar chemistry of the dermal fibers, i.e., the scleroprotein collagen. © The Author 2016. Published by Oxford University Press on behalf of the Society for Integrative and Comparative Biology. All rights reserved. For permissions please email: journals.permissions@oup.com.

Laterality and the evolution of the prefronto-cerebellar system in anthropoids.

PubMed

Smaers, Jeroen B; Steele, James; Case, Charleen R; Amunts, Katrin

2013-06-01

There is extensive evidence for an early vertebrate origin of lateralized motor behavior and of related asymmetries in underlying brain systems. We investigate human lateralized motor functioning in a broad comparative context of evolutionary neural reorganization. We quantify evolutionary trends in the fronto-cerebellar system (involved in motor learning) across 46 million years of divergent primate evolution by comparing rates of evolution of prefrontal cortex, frontal motor cortex, and posterior cerebellar hemispheres along individual branches of the primate tree of life. We provide a detailed evolutionary model of the neuroanatomical changes leading to modern human lateralized motor functioning, demonstrating an increased role for the fronto-cerebellar system in the apes dating to their evolutionary divergence from the monkeys (∼30 million years ago (Mya)), and a subsequent shift toward an increased role for prefrontal cortex over frontal motor cortex in the fronto-cerebellar system in the Homo-Pan ancestral lineage (∼10 Mya) and in the human ancestral lineage (∼6 Mya). We discuss these results in the context of cortico-cerebellar functions and their likely role in the evolution of human tool use and speech. © 2013 New York Academy of Sciences.

Precambrian Skeletonized Microbial Eukaryotes

NASA Astrophysics Data System (ADS)

Lipps, Jere H.

2017-04-01

Skeletal heterotrophic eukaryotes are mostly absent from the Precambrian, although algal eukaryotes appear about 2.2 billion years ago. Tintinnids, radiolaria and foraminifera have molecular origins well back into the Precambrian yet no representatives of these groups are known with certainty in that time. These data infer times of the last common ancestors, not the appearance of true representatives of these groups which may well have diversified or not been preserved since those splits. Previous reports of these groups in the Precambrian are misinterpretations of other objects in the fossil record. Reported tintinnids at 1600 mya from China are metamorphic shards or mineral artifacts, the many specimens from 635-715 mya in Mongolia may be eukaryotes but they are not tintinnids, and the putative tintinnids at 580 mya in the Doushantou formation of China are diagenetic alterations of well-known acritarchs. The oldest supposed foraminiferan is Titanotheca from 550 to 565 mya rocks in South America and Africa is based on the occurrence of rutile in the tests and in a few modern agglutinated foraminifera, as well as the agglutinated tests. Neither of these nor the morphology are characteristic of foraminifera; hence these fossils remain as indeterminate microfossils. Platysolenites, an agglutinated tube identical to the modern foraminiferan Bathysiphon, occurs in the latest Neoproterozoic in Russia, Canada, and the USA (California). Some of the larger fossils occurring in typical Ediacaran (late Neoproterozoic) assemblages may be xenophyophorids (very large foraminifera), but the comparison is disputed and flawed. Radiolaria, on occasion, have been reported in the Precambrian, but the earliest known clearly identifiable ones are in the Cambrian. The only certain Precambrian heterotrophic skeletal eukaryotes (thecamoebians) occur in fresh-water rocks at about 750 mya. Skeletonized radiolaria and foraminifera appear sparsely in the Cambrian and radiate in the Ordovician. Tintinnids first appear in the mid-Mesozoic, like other modern planktic groups, including planktic foraminifera, new types of radiolarians, and a host of skeletal micro-algae. Microbial eukaryotes track algal eukaryote and metazoan evolution—none or very few in the Precambrian, some in the early Paleozoic with radiations in the later Paleozoic, Mesozoic and Cenozoic, with extinctions ( 30) reducing their biodiversity at particular times in the fossil record—thus indicating strong environmental selection on all marine groups.

Evaluation of Dredged Material Proposed for Ocean Disposal. Testing Manual

DTIC Science & Technology

1991-02-01

should include a deposit-feeding amphipod and a polychaete. Bioaccumulation tests generally should include a deposit-feeding bivalve mollusc and a...Gibson. 1987. Regulatory identification of petroleum hydrocarbons in dredged material. Proceedings of a Workshop. Misc. Pap. D-87-3, U.S. Army... Bioaccumulation from Whole-Sediment Tests. Polychaetes Molluscs Neanthes sp.* Macoma clam, Macoma sp.* Nereis sp.* Yoldia clam, Yoldia limatula Nephiy sp.* Nucula

Development of a Fish Stress Protein Antibody/Antigen-Based Approach for Biomonitoring of Water Quality.

DTIC Science & Technology

1993-01-25

10 DISCUSSION ............................................... 14 FIELD TESTS OF ANTIBODY DETECTION OF HEAT SHOCK PROTEIN ACCUMULATION IN... TESTS OF ANTIBODY DETECTION OF HEAT SHOCK PROTEIN ACCUMULATION IN ASIAN CLAMS (CORBICULA FLUMINEA) INTRODUCTION The Trinity River flows through...the utility of induction of heat shock proteins as an indicator of stress in another test organism, the Asian clam (Corbicula fluminea). This organism

Effects of diet on rate of body mass gain by wintering canvasbacks

USGS Publications Warehouse

Jorde, Dennis G.; Haramis, G.M.; Bunck, C.M.; Pendleton, G.W.

1995-01-01

Because habitat degradation has led to the loss of submerged vegetation in Chesapeake Bay, wintering canvasbacks (Aythya valisineria) have shifted from a plant diet of American wildcelery (Vallisneria americana) to an animal diet of Baltic clams (Macoma balthica). We conducted experiments with pen-reared canvasbacks (n = 32, 1990; n = 32, 1991) to assess the effect of this diet change on mass recovery rate following a simulated period of food deprivation. During the recovery phase, canvasbacks were fed ad libitum either (1) Baltic clams (1991 only), (2) tubers of wildcelery, 3) corn, or (4) commercial control diet. Initial body mass of ducks did not differ between years (P = 0.754) or among pens (P > 0.264) or diets within years (1990, P = 0.520; 1991, P = 0.684). Body mass decline during food deprivation (x super(-) = 26.0 g/day plus or minus 0.6 SE) did not differ among diets (1990, P = 0.239; 1991, P = 0.062) or between sexes in 1990 (P = 0.197), but was greater (P = 0.039) for males (x super(-) = 28 g/day plus or minus 0.8 SE) than females (x super(-) = 25 g/day plus or minus 0.9) in 1991. Mass recovery rate differed between diets (clams excluded) in 1990 (P = 0.003) and 1991 (clams included) (P = 0.011); mean = 42 g/bird super(-1)/day super(-1) plus or minus 3.8 (SE) control diet, mean = 32 g/bird super(-1)/day super(-1) plus or minus 2.8 wildcelery tubers, mean = 24 g/bird super(-1)/day super(-1) plus or minus 4.9 whole corn, and mean = 23 g/bird super(-1)/day super(-1) plus or minus 1.0 Baltic clams. Canvasbacks consumed an average of 2,169 g/bird super(-1)/day super(-1) of Baltic clams, 1,158 g/bird super(-1)/day super(-1) of wildcelery tubers, 152 g/bird super(-1)/day super(-1) whole corn, and 208 g/bird super(-1)/day super(-1) (dry mass) control diet during recovery. Managers should restore and maintain aquatic plant foods that enhance winter survival of canvasbacks and other waterfowl in response to declining habitat quality.

Characterisation of 12 microsatellite loci in the Vietnamese commercial clam Lutraria rhynchaena Jonas 1844 (Heterodonta: Bivalvia: Mactridae) through next-generation sequencing.

PubMed

Thai, Binh Thanh; Tan, Mun Hua; Lee, Yin Peng; Gan, Han Ming; Tran, Trang Thi; Austin, Christopher M

2016-05-01

The marine clam Lutraria rhynchaena is gaining popularity as an aquaculture species in Asia. Lutraria populations are present in the wild throughout Vietnam and several stocks have been established and translocated for breeding and aquaculture grow-out purposes. In this study, we demonstrate the feasibility of utilising Illumina next-generation sequencing technology to streamline the identification and genotyping of microsatellite loci from this clam species. Based on an initial partial genome scan, 48 microsatellite markers with similar melting temperatures were identified and characterised. The 12 most suitable polymorphic loci were then genotyped using 51 individuals from a population in Quang Ninh Province, North Vietnam. Genetic variation was low (mean number of alleles per locus = 2.6; mean expected heterozygosity = 0.41). Two loci showed significant deviation from Hardy-Weinberg equilibrium (HWE) and the presence of null alleles, but there was no evidence of linkage disequilibrium among loci. Three additional populations were screened (n = 7-36) to test the geographic utility of the 12 loci, which revealed 100 % successful genotyping in two populations from central Vietnam (Nha Trang). However, a second population from north Vietnam (Co To) could not be successfully genotyped and morphological evidence and mitochondrial variation suggests that this population represents a cryptic species of Lutraria. Comparisons of the Qang Ninh and Nha Trang populations, excluding the 2 loci out of HWE, revealed statistically significant allelic variation at 4 loci. We reported the first microsatellite loci set for the marine clam Lutraria rhynchaena and demonstrated its potential in differentiating clam populations. Additionally, a cryptic species population of Lutraria rhynchaena was identified during initial loci development, underscoring the overlooked diversity of marine clam species in Vietnam and the need to genetically characterise population representatives prior to microsatellite development. The rapid identification and validation of microsatellite loci using next-generation sequencing technology warrant its integration into future microsatellite loci development for key aquaculture species in Vietnam and more generally, aquaculture countries in the South East Asia region.

Identification of a Serum amyloid A gene and the association of SNPs with Vibrio-resistance and growth traits in the clam Meretrix meretrix.

PubMed

Zou, Linhu; Liu, Baozhong

2015-04-01

Serum amyloid A (SAA), an acute response protein as well as an apolipoprotein, is considered to play crucial roles in both innate immunity and lipid metabolism. In this study, a SAA gene (MmSAA) was identified in the clam Meretrix meretrix. The full length DNA of MmSAA was 1407bp, consisting of three exons and two introns. The distribution of MmSAA in clam tissues was examined with the highest expression in hepatopancreas. In response to the Vibrio parahaemolyticus challenge, MmSAA mRNA showed significantly higher expression at 24 h post-challenge in experimental clams (P < 0.05). Forty-eight single nucleotide polymorphisms (SNPs) in the DNA partial sequence of MmSAA were discovered and examined for their association with Vibrio-resistance and growth traits, respectively. The single SNP association analysis indicated that five single SNPs (g.42, g.72, g.82, g.147 and g.165) were significantly associated with Vibrio-resistance (P < 0.05). Haplotype analysis produced additional support for association with the Chi-square values 6.393 (P = 0.012). Among the five selected SNPs, the effect of a missense mutation (g.82, A → G) was detected by site-directed mutagenesis with fusion expression of protein assay, and the result showed that the recombinant plasmids containing wild-type pET30a-MmSAA had more inhibition effect than the mutant ones on the growth rate of the host bacteria. In addition, four growth traits of the clams in 09G3SPSB population were recorded and the SNP g.176 was found to be significantly associated with the growth traits with the Global score value 0.790 (P = 0.015). Our findings suggested that common genetic variation in MmSAA might contribute to the risk of susceptibility to Vibrio infection and might be associated with the growth traits in the clams M. meretrix, and more works are still needed to validate these SNPs as potential markers for actual selective breeding. Copyright © 2015 Elsevier Ltd. All rights reserved.

Concentrations of metals in aquatic invertebrates from the Ozark National Scenic Riverways, Missouri

USGS Publications Warehouse

Schmitt, Christopher J.; Brumbaugh, William G.; Besser, John M.; May, Thomas W.

2007-01-01

This report summarizes the findings of a study conducted as a pilot for part of a park-wide monitoring program being developed for the Ozark National Scenic Riverways (ONSR) of southeastern Missouri. The objective was to evaluate using crayfish (Orconectes spp.) and Asian clam (Corbicula fluminea) for monitoring concentrations of metals associated with lead-zinc mining. Lead-zinc mining presently (2007) occurs near the ONSR and additional mining has been proposed. Three composite samples of each type (crayfish and Asian clam), each comprising ten animals of approximately the same size, were collected during late summer and early fall of 2005 from five sites on the Current River and Jacks Fork within the ONSR and from one site on the Eleven Point River and the Big River, which are outside the ONSR. The Big River has been contaminated by mine tailings from historical leadzinc mining. Samples were analyzed by inductively coupled plasma mass spectrometry for lead, zinc, cadmium, cobalt, and nickel concentrations. All five metals were detected in all samples; concentrations were greatest in samples of both types from the Big River, and lowest in samples from sites within the ONSR. Concentrations of zinc and cadmium typically were greater in Asian clams than in crayfish, but differences were less evident for the other metals. In addition, differences among sites were small for cobalt in Asian clams and for zinc in crayfish, indicating that these metals are internally regulated to some extent. Consequently, both sample types are recommended for monitoring. Concentrations of metals in crayfish and Asian clams were consistent with those reported by other studies and programs that sampled streams in southeast Missouri.

Accumulation and sub-cellular partitioning of metals and As in the clam Venerupis corrugata: Different strategies towards different elements.

PubMed

Velez, Cátia; Figueira, Etelvina; Soares, Amadeu M V M; Freitas, Rosa

2016-08-01

The main goal of the present study was to assess accumulation, tolerance and sub-cellular partitioning of As, Hg, Cd and Pb in Venerupis corrugata. Results showed an increase of elements accumulation in V. corrugata with the increase of exposure. However, organisms presented higher capacity to accumulate Hg, Cd and Pb (BCF ≥ 12.8) than As (BCF ≤ 2.1) and higher accumulation rate for Cd and Pb than for Hg and As. With the increase of Hg exposure concentrations clams tended to increase the amount of metal bound to metal-sensitive fractions, which may explain the mortality recorded at the highest exposure concentration. Cd sub-cellular partitioning showed that with the increase of exposure concentrations V. corrugata increased the amount of metal in the cellular debris fraction, probably bound to the cellular membranes which explain the mortality recorded at the highest concentration. Results on As partitioning demonstrated that most of the metalloid was associated with fractions in the biologically detoxified metal compartment (BDM). Since high mortality was observed in clams exposed to As our results may indicate that this strategy was not enough to prevent clams from toxic effects and mortality occurred. When exposed to Pb most of the metal was in the BDM compartment, but in this case the metal was mostly in the metal-rich granules fraction which seemed to be efficient in preventing clams from toxicity, and no mortality was recorded. Our study further revealed that As and Hg were the most available elements to be biomagnified through the food chain. Copyright © 2016 Elsevier Ltd. All rights reserved.

Stable-isotope analysis of canvasback winter diet in upper Chesapeake Bay

USGS Publications Warehouse

Haramis, G.M.; Jorde, Dennis G.; Macko, S.A.; Walker, J.L.

2001-01-01

A major decline in submerged aquatic vegetation (SAV) in Chesapeake Bay has altered the diet of wintering Canvasbacks (Aythya valisineria) from historically plant to a combination of benthic animal foods, especially the ubiquitous Baltic clam (Macoma balthica), supplemented with anthropogenic corn (Zea mays). Because the isotopic signature of corn is readily discriminated from bay benthos, but not SAV, we used stable-isotope methodology to investigate the corn–SAV component of the winter diet of Canvasbacks. Feeding trials with penned Canvasbacks were conducted to establish turnover rates and fractionation end-point loci of δ13C and δ15N signatures of whole blood for individual ducks fed ad libitum diets of (1) Baltic clams, (2) Baltic clams and corn, and (3) tubers of wild celery (Vallisneria americana). Turnover time constants averaged 4.5 weeks, indicating that signatures of wild ducks would be representative of bay diets by late February. Isotopic signatures of wild Canvasbacks sampled in February fell on a continuum between end-point loci for the Baltic clam and the combination Baltic clam and corn diet. Although that finding verifies a clear dependence on corn–SAV for wintering Canvasbacks, it also reveals that not enough corn–SAV is available to establish ad libitum consumption for the 15,000+ Canvasbacks wintering in the upper bay. On the basis of mean δ13C signature of bay Canvasbacks (n = 59) and ingestion rates from feeding trials, we estimated that 258 kg corn per day would account for the observed δ13C enrichment and supply 18% of daily energetic needs for 15,000 Canvasbacks. That level of corn availability is so realistic that we conclude that SAV is likely of little dietary importance to Canvasbacks in that portion of the bay.

Benthic metabolism over the emersion - immersion alternation in sands colonized by the invasive Manila clam Ruditapes philippinarum

NASA Astrophysics Data System (ADS)

Migné, Aline; Trigui, Rima Jihane; Davoult, Dominique; Desroy, Nicolas

2018-01-01

The effect of an invasive infaunal suspension-feeding bivalve, the Manila clam Ruditapes philippinarum, on benthic inorganic carbon and nutrient fluxes was examined through in situ incubations. Measurements were performed in spring and summer on a tidal sandflat of the Rance estuary (south part of the Western English Channel) colonized by the Manila clam after its deliberate introduction in the 1990's. Benthic inorganic carbon fluxes were measured using light and dark benthic chambers both at emersion and immersion. Benthic nutrient fluxes were measured using dark benthic chambers at immersion. Inorganic carbon (IC) and ammonium sediment release under darkness at immersion reached 5.60 mmol m-2 h-1 and 441 μmol m-2 h-1 respectively for a clam density of 291 ind m-2. The sediment IC-release under darkness was lower during emersion than during immersion, probably due to the reduced activity of infauna at low tide. Under ambient light, a sediment IC-uptake was systematically measured at emersion, indicating a net autotrophy under the condition of measurements (125 < surface PAR < 1670 μmol m-2 s-1), while either sediment IC-uptake or release was measured at immersion according to light variation (20 < underwater PAR < 990 μmol m-2 s-1). The highest gross community primary production, calculated from highest IC-fluxes at light (i.e. net community production) and highest IC-fluxes at dark (i.e. community respiration), was similar at emersion and immersion and reached 6.2 mmolC m-2 h-1. These results suggest that the metabolic activity of the invasive Manila clam Ruditapes philippinarum contributes to increase inorganic C and ammonium sediment release. These regenerated nutrients may support microphytobenthic production which appeared particularly high on this intertidal sand flat.

Functional morphology of amplexus (clasping) in spinicaudatan clam shrimps (Crustacea, Branchiopoda) and its evolution in bivalved branchiopods: A video-based analysis.

PubMed

Sigvardt, Zandra M S; Rogers, D Christopher; Olesen, Jørgen

2017-04-01

Male clam shrimps (Crustacea: Branchiopoda: Laevicaudata, Spinicaudata, and Cyclestherida) have their first one or two trunk limb pairs modified as "claspers," which are used to hold the female during mating and mate guarding. Clasper morphology has traditionally been important for clam shrimp taxonomy and classification, but little is known about how the males actually use the claspers during amplexus (clasping). Homologies of the various clasper parts ("movable finger," "large palp," "palm," "gripping area," and "small palp") have long been discussed between the three clam shrimp taxa, and studies have shown that only some structures are homologous while others are convergent ("partial homology"). We studied the clasper functionality in four spinicaudatan species using video recordings and scanning electron microscopy, and compared our results with other clam shrimp groups. General mating behavior and carapace morphology was also studied. Generally, spinicaudatan and laevicaudatan claspers function similarly despite some parts being nonhomologous. We mapped clasper morphology and functionality aspects on a branchiopod phylogeny. We suggest that the claspers of the three groups were adapted from an original, simpler clasper, each for a "stronger" grip on the female's carapace margin: 1) Spinicaudata have two clasper pairs bearing an elongated apical club/gripping area with one setal type; 2); Cyclestherida have one clasper pair with clusters of molariform setae on the gripping area and at the movable finger apex; and 3) Laevicaudata have one clasper pair, but have incorporated an additional limb portion into the clasper palm and bear a diverse set of setae. J. Morphol. 278:523-546, 2017. © 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.

Microbiota and environmental stress: how pollution affects microbial communities in Manila clams.

PubMed

Milan, M; Carraro, L; Fariselli, P; Martino, M E; Cavalieri, D; Vitali, F; Boffo, L; Patarnello, T; Bargelloni, L; Cardazzo, B

2018-01-01

Given the crucial role of microbiota in host development, health, and environmental interactions, genomic analyses focusing on host-microbiota interactions should certainly be considered in the investigation of the adaptive mechanisms to environmental stress. Recently, several studies suggested that microbiota associated to digestive tract is a key, although still not fully understood, player that must be considered to assess the toxicity of environmental contaminants. Bacteria-dependent metabolism of xenobiotics may indeed modulate the host toxicity. Conversely, environmental variables (including pollution) may alter the microbial community and/or its metabolic activity leading to host physiological alterations that may contribute to their toxicity. Here, 16s rRNA gene amplicon sequencing has been applied to characterize the hepatopancreas microbiota composition of the Manila clam, Ruditapes philippinarum. The animals were collected in the Venice lagoon area, which is subject to different anthropogenic pressures, mainly represented by the industrial activities of Porto Marghera (PM). Seasonal and geographic differences in clam microbiotas were explored and linked to host response to chemical stress identified in a previous study at the transcriptome level, establishing potential interactions among hosts, microbes, and environmental parameters. The obtained results showed the recurrent presence of putatively detoxifying bacterial taxa in PM clams during winter and over-representation of several metabolic pathways involved in xenobiotic degradation, which suggested the potential for host-microbial synergistic detoxifying actions. Strong interaction between seasonal and chemically-induced responses was also observed, which partially obscured such potentially synergistic actions. Seasonal variables and exposure to toxicants were therefore shown to interact and substantially affect clam microbiota, which appeared to mirror host response to environmental variation. It is clear that understanding how animals respond to chemical stress cannot ignore a key component of such response, the microbiota. Copyright © 2017 Elsevier B.V. All rights reserved.

Facilitation and Dominance in a Schooling Predator: Foraging Behavior of Florida Pompano, Trachinotus carolinus

PubMed Central

2015-01-01

Presumably an individual’s risk of predation is reduced by group membership and this ‘safety in numbers’ concept has been readily applied to investigations of schooling prey; however, foraging in groups may also be beneficial. We tested the hypothesis that, when feeding in groups, foraging of a coastal fish (Florida Pompano, Trachinotus carolinus) on a benthic prey source would be facilitated (i.e. fish feeding in groups will consume more prey items). Although this question has been addressed for other fish species, it has not been previously addressed for Florida Pompano, a fish known to exhibit schooling behavior and that is used for aquaculture, where understanding the feeding ecology is important for healthy and efficient grow-out. In this experiment, juvenile Florida Pompano were offered a fixed number of coquina clams (Donax spp.) for one hour either in a group or as individuals. The following day they were tested in the opposite configuration. Fish in groups achieved greater consumption (average of 26 clams consumed by the entire group) than the individuals comprising the group (average of 14 clams consumed [sum of clams consumed by all individuals of the group]). Fish in groups also had fewer unsuccessful foraging attempts (2.75 compared to 4.75 hr-1) and tended to have a shorter latency until the first feeding activity. Our results suggest fish in groups were more comfortable feeding and more successful in their feeding attempts. Interestingly, the consumption benefit of group foraging was not shared by all – not all fish within a group consumed equal numbers of clams. Taken together, the results support our hypothesis that foraging in a group provides facilitation, but the short-term benefits are not equally shared by all individuals. PMID:26068114

The effects of clam fishing on the properties of surface sediments in the lagoon of Venice, Italy

NASA Astrophysics Data System (ADS)

Aspen, R. J.; Vardy, S.; Perkins, R. G.; Davidson, I. R.; Bates, R.; Paterson, D. M.

Harvesting of clams(Tapes philippinarum) has important socio-economic and environmental implications for the Venice lagoon area, Italy. Clam harvesting disrupts the structure of benthic communities but the effects upon sediment stability and surface structure remain unclear. The effect of clam fishing on the sediment properties of the lagoon bed was investigated at two different sites, a heavily fished site (San Angelo) and an infrequently fished site (San Giaccomo). Both sites were assessed for immediate impacts of fishing, using indicators of biogenic sediment stabilisation. Samples were taken at three points along three 100 m linear transects at each site prior to and post fishing. Paired samples were also taken parallel to each transect at a distance of 5m, to allow for temporal variation. Sediment stability, measured with a cohesive strength meter (CSM), was significantly higher at the less impacted site (F1,34 = 6.23, p < 0.018), was correlated with indicators of biogenic sediment stabilisation and decreased by approximately 50% following the trawling event. Concomitant decreases in chlorophyll a (chl a), colloidal-S carbohydrate and dry bulk density were observed on the transect after fishing but not adjacent to the fishing path. At the heavily impacted site, clam fishing by trawling had, in general, no significant effect on the biological and physical properties (although chl a did decrease significantly after fishing). The lack of a significant impact from fishing at the impacted site was attributed to the higher frequency of fishing occurring in this area. Hence, frequent fishing of the lagoon prevents establishment of biotic communities, preventing biostabilisation and thus reduces the stability of the surface sediment.

Microplastics effects in Scrobicularia plana.

PubMed

Ribeiro, Francisca; Garcia, Ana R; Pereira, Beatriz P; Fonseca, Maria; Mestre, Nélia C; Fonseca, Tainá G; Ilharco, Laura M; Bebianno, Maria João

2017-09-15

One of the most common plastics in the marine environment is polystyrene (PS) that can be broken down to micro sized particles. Marine organisms are vulnerable to the exposure to microplastics. This study assesses the effects of PS microplastics in tissues of the clam Scrobicularia plana. Clams were exposed to 1mgL -1 (20μm) for 14days, followed by 7days of depuration. A qualitative analysis by infrared spectroscopy in diffuse reflectance mode period detected the presence of microplastics in clam tissues upon exposure, which were not eliminated after depuration. The effects of microplastics were assessed by a battery of biomarkers and results revealed that microplastics induce effects on antioxidant capacity, DNA damage, neurotoxicity and oxidative damage. S. plana is a significant target to assess the environmental risk of PS microplastics. Copyright © 2017 Elsevier Ltd. All rights reserved.

Domoic acid excretion in dungeness crabs, razor clams and mussels.

PubMed

Schultz, Irvin R; Skillman, Ann; Woodruff, Dana

2008-07-01

Domoic acid (DA) is a neurotoxic amino acid produced by several marine algal species of the Pseudo-nitzschia (PN) genus. We studied the elimination of DA from hemolymph after intravascular (IV) injection in razor clams (Siliqua patula), mussels (Mytilus edulis) and Dungeness crabs (Cancer magister). Crabs were also injected with two other organic acids, dichloroacetic acid (DCAA) and kainic acid (KA). For IV dosing, hemolymph was repetitively sampled and DA concentrations measured by HPLC-UV. Toxicokinetic analysis of DA in crabs suggested most of the injected dose remained within hemolymph compartment with little extravascular distribution. This observation is in sharp contrast to results obtained from clams and mussels which exhibited similarly large apparent volumes of distribution despite large differences in overall clearance. These findings suggest fundamentally different storage and elimination processes are occurring for DA between bivalves and crabs.

De novo transcriptome analysis reveals insights into different mechanisms of growth and immunity in a Chinese soft-shelled turtle hybrid and the parental varieties.

PubMed

Zhang, Haiqi; Xu, Xiaojun; He, Zhongyang; Zheng, Tianlun; Shao, Jianzhong

2017-03-20

The Chinese soft-shelled turtle (Pelodiscus sinensis) is a highly important freshwater aquaculture species in China. The molecular mechanisms underlying changes in immunity and growth in hybrid vigor are not well understood. In the present study, the transcriptomes from significantly different P. sinensis strains (Qingxi black turtle, B and Japanese strain, J) and the resulting hybrid (Zajiao-1, F) were sequenced using an Illumina sequencing platform. Differentially expressed genes (DEGs) between Zajiao-1 and the Qingxi black turtle were enriched mainly in the HTLV-I infection and Hippo signaling pathways, while DEGs between the Zajiao-1 and Japanese strain were enriched mainly in tryptophan metabolism, caner-associated pathways, transcriptional dysregulation in cancer, amebiasis, Fcγ-mediated phagocytosis and the peroxisome pathway. Highly expressed genes involved in the regulation of disorders of the fatty acid biosynthesis, immune and cardiovascular systems in P. sinensis were found among the DEGs. Enrichment categories for gene ontology included cellular processes, metabolic pathways, and the actin cytoskeleton pathway. The reliability of the sequencing data was verified through quantitative real-time polymerase chain reaction analysis of 20 immunity or growth-related genes. These findings offer new insights into heterosis of growth traits and resistance to stresses and potential strategies for selective breeding. Copyright © 2016 Elsevier B.V. All rights reserved.

Middle Holocene daily light cycle reconstructed from the strontium/calcium ratios of a fossil giant clam shell

PubMed Central

Hori, Masako; Sano, Yuji; Ishida, Akizumi; Takahata, Naoto; Shirai, Kotaro; Watanabe, Tsuyoshi

2015-01-01

Insolation is an important component of meteorological data because solar energy is the primary and direct driver of weather and climate. Previous analyses of cultivated giant clam shells revealed diurnal variation in the Sr/Ca ratio, which might reflect the influence of the daily light cycle. We applied proxy method to sample from prehistoric era, a fossil giant clam shell collected at Ishigaki Island in southern Japan. The specimen was alive during the middle Holocene and thus exposed to the warmest climate after the last glacial period. This bivalve species is known to form a growth line each day, as confirmed by the analysis of the Sr enrichment bands using EPMA and facilitated age-model. We analyzed the Sr/Ca, Mg/Ca and Ba/Ca ratios along the growth axis, measuring a 2-μm spot size at 2-μm interval using NanoSIMS. The Sr/Ca ratios in the winter layers are characterized by a striking diurnal cycle consisting of narrow growth lines with high Sr/Ca ratios and broad growth bands with low Sr/Ca ratios. These variations, which are consistent with those of the cultivated clam shell, indicate the potential for the reconstruction of the variation in solar insolation during the middle Holocene at a multi-hourly resolution. PMID:25736488

Thermal sensitivity of mitochondrial respiration efficiency and protein phosphorylation in the clam Mercenaria mercenaria.

PubMed

Ulrich, P N; Marsh, A G

2009-01-01

The mitochondria of intertidal invertebrates continue to function when organisms are exposed to rapid substantial shifts in temperature. To test if mitochondrial physiology of the clam Mercenaria mercenaria is compromised under elevated temperatures, we measured mitochondrial respiration efficiency at 15 degrees C, 18 degrees C, and 21 degrees C using a novel, high-throughput, microplate respirometry methodology developed for this study. Though phosphorylating (state 3) and resting (state 4) respiration rates were unaffected over this temperature range, respiratory control ratios (RCRs: ratio of state 3 to state 4 respiration rates) decreased significantly above 18 degrees C (p < 0.05). The drop in RCR was not associated with reduction of phosphorylation efficiency, suggesting that, while aerobic scope of mitochondrial respiration is limited at elevated temperatures, mitochondria continue to efficiently produce adenosine triphosphate. We further investigated the response of clam mitochondria to elevated temperatures by monitoring phosphorylation of mitochondrial protein. Three proteins clearly demonstrated significant time- and temperature-specific phosphorylation patterns. The protein-specific patterns of phosphorylation may suggest that a suite of protein kinases and phosphatases regulate mitochondrial physiology in response to temperature. Thus, while aerobic scope of clam mitochondrial respiration is reduced at moderate temperatures, specific protein phosphorylation responses reflect large shifts in function that are initiated within the organelle at higher temperatures.

A metabolic profile in Ruditapes philippinarum associated with growth-promoting effects of alginate hydrolysates

NASA Astrophysics Data System (ADS)

Yamasaki, Yasuhiro; Taga, Shigeru; Kishioka, Masanobu; Kawano, Shuichi

2016-07-01

The aim of this study is to demonstrate the growth-promoting effect of alginate hydrolysates (AHs) on the Manila clam Ruditapes philippinarum, and to verify the physiological change occurring within a living R. philippinarum stimulated by AHs. We show that growth of clams was dramatically promoted by supplementing a diet of the diatom Chaetoceros neogracile with AHs at 4 mg/mL. Furthermore, metabolomics indicates that each state of starvation, food satiation, and sexual maturation have a characteristic pattern. In the groups given AHs in addition to C. neogracile in particular, excess carbohydrate was actively utilized for the development of reproductive tissue. In contrast, it appeared that clams in the groups given C. neogracile only were actively growing, utilizing their adequate carbohydrate resources. Meanwhile, the unfed groups have slowed growth because of the lack of an energy source. Hence, supplementation of AHs in addition to the algal diet may be an inexpensive way to shorten the rearing period of R. philippinarum. Moreover, metabolomics can evaluate the growth condition of R. philippinarum in a comprehensive way, and this approach is crucially important for not only the development of a mass culture method but also for the conservation of the clam resource in the field.

Meretrix lusoria--a natural biocomposite material: in situ analysis of hierarchical fabrication and micro-hardness.

PubMed

Zhu, Zhihong; Tong, Hua; Ren, Yaoyao; Hu, Jiming

2006-01-01

The ultrastructure of clam (Meretrix lusoria) was investigated by means of scanning electron microscope (SEM), transmission electron microscope (TEM) and X-ray diffraction analyzer (XRD) combining with in situ texture decalcified technique and the micro-hardness of clam was determined, in order to understand the spatial relationship between the mineral phase and organic matrix and further explain the correlation between the property and structure. The results showed that hierarchical fabrication is the major structure character of this mollusc shell. There is specific braided structure forming from domains composed of needle-like structure made up of the single crystal of aragonite. High magnification TEM image of clam indicates the intracrystal region of the aragonite single crystal is made up of subgrain phase and some amorphous substance. There are various crystal grain growth preferential orientations in the different growth direction of the shell. An amount of organic microtubule distribute evenly in the base of calcium carbonate as reinforcement phase. The mechanical property of this natural biological composite is better than other aragonite layer of mollusc shells and pearls according to the data of micro-hardness testing. The braided structure and organic microtubule reinforcement phase are responsible for its high mechanical performance. The stereo hierarchical fabrication of clam was elucidated for the first time.

Atypical feeding behavior of Long-tailed Ducks in the wake of a commercial fishing boat while clamming

USGS Publications Warehouse

Perry, Matthew; Osenton, Peter C.; White, Timothy P.

2017-01-01

A foraging group of Clangula hyemalis (Long-tailed Duck) was observed on 10 February 2010 diving behind a commercial boat that was clamming near Monomoy Island, Nantucket Sound, MA. We used a shotgun to collect 9 of the ducks, and our analyses of gizzard and gullet (esophagus and proventriculus) revealed 37 food items in the gizzard and 16 in the gullet. Mollusca were the dominant food in the gizzard (49%), whereas Crustacea were dominant in the gullet (57%). Crustacea were the second most important food in the gizzard (38%), whereas Mollusca were the second most important food in the gullet (31%). Relatively high volumes of the Amphipoda Caprella sp. (skeleton shrimp) and the Decopoda Crangon septemspinosa (Sand Shrimp) were recorded in the gullet and gizzard. Ensis directus (Atlantic Jackknife Clam) formed the greatest volume of Mollusca in the gizzard (15%) and in the gullet (15%). Long-tailed Ducks had fed on this Bivalvia and several other species of Mollusca that had no shell or broken shell when consumed. Many of the food organisms were apparently dislodged and some damaged by the clamming operation creating an opportunistic feeding strategy for the Long-tailed Ducks.

Histopathology and stress biomarkers in the clam Venerupis philippinarum from the Venice Lagoon (Italy).

PubMed

Boscolo Papo, Michele; Bertotto, Daniela; Quaglio, Francesco; Vascellari, Marta; Pascoli, Francesco; Negrato, Elena; Binato, Giovanni; Radaelli, Giuseppe

2014-07-01

The aim of this study was to evaluate the histomorphology and the stress response in the bivalve Venerupis philippinarum sampled in four differently polluted sites of the Venice Lagoon (Palude del Monte, Marghera, Ca' Roman and Val di Brenta). This species is often used as bioindicator of environmental pollution since it can bioaccumulate a large variety of pollutants because of its filter feeding. Chemical analyses for heavy metals (Cd, Cu, Hg and Pb) and polycyclic aromatic hydrocarbons (PAHs) were performed on whole soft tissues of V. philippinarum. The histological evaluation of clams revealed the presence of Perkinsus sp. infection in animals from all sites, although a very high prevalence of parasites was evidenced in clams from Ca' Roman. Perkinsus sp. were systemically distributed in the mantle, in the intestine and digestive gland, in gonads and gills. The trophozoites of Perkinsus sp. were found isolated or in cluster surrounded by a heavy hemocitical response. Haemocytes always exhibited an immunopositivity to cytochrome P4501A (CYP1A), heat shock protein 70 (HSP70), 4-hydroxy-2-nonenal (HNE) and nitrotyrosine (NT) antibodies. The digestive gland of animals from Palude del Monte showed the highest malondialdehyde (MDA) concentration, whereas clams from Ca' Roman exhibited the highest quantity of metallothioneins. Copyright © 2014 Elsevier Ltd. All rights reserved.

Physiological responses to copper in giant clams: a comparison of two methods in revealing effects on photosynthesis in zooxanthellae.

PubMed

Elfwing, Tina; Blidberg, Eva; Tedengren, Michael

2002-08-01

In the present work physiological responses to a short term, sub-lethal exposure to copper (5 microg Cu2 l(-1) were studied on two species of giant clams, Tridacna gigas and Hippopus hippopus. All giant clams (fam. Tridacnidae) maintain a symbiotic relationship with photo-synthesising microalgae (zooxanthellae) and the phytotoxic effects of this copper concentration were approached with two different end points: changes in oxygen production and maximal quantum yield (Fv/Fm). Additionally we measured respiration, whereby Pg:R ratios could be calculated for the system (algae and clam) and used as an indicator of stress. Cu accumulation was only determined for T. gigas and showed significantly higher tissue concentrations in exposed specimens (11.3 microg Cu g(-1) dry wt) compared to the controls (4.2 microg Cu g(-1)). Both species displayed significantly reduced Pg:R ratios due to exposure, mainly explained by lowered gross production. No indication of stress was shown in the fluorescence measurements and possible explanations are discussed in the paper. We propose that inhibitions in the slow kinetics of photosynthesis were not captured by this fluorescence parameter. Accordingly we suggest that measurements of maximum fluorescence yield should be accompanied by complementary parameters when studying pollutants with unclear phytotoxic mechanisms.

Physiological performance of the intertidal Manila clam (Ruditapes philippinarum) to long-term daily rhythms of air exposure

PubMed Central

Yin, Xuwang; Chen, Peng; Chen, Hai; Jin, Wen; Yan, Xiwu

2017-01-01

Intertidal organisms, especially the sessile species, often experience long-term periodic air exposure during their lives. Learning the biochemical and physiological responses of intertidal organisms to long-term periodic air exposure and the relationship to duration of air exposure provides insight into adaptation to this variably stressful environment. We studied the Manila clam, Ruditapes philippinarum, an important species in world aquaculture, as a model to evaluate survival, growth, lipid composition, oxygen consumption, oxidative damage, and antioxidant enzyme activity in relation to the duration of air exposure in a long-term (60 days) laboratory study of varying durations of periodic emersion and re-immersion. Our results show: (1) clams undergoing a longer period of air exposure had lower survival and growth compared to those given a shorter exposure, (2) levels of oxidative damage and activities of antioxidant enzymes were higher in all air exposure treatments, but did not increase with duration of air exposure, and (3) the content of docosahexaenoic acid increased with duration of air exposure. Our results can largely be interpreted in the context of the energy expenditure by the clams caused by aerobic metabolism during the daily cycle of emersion and re-immersion and the roles of docosahexaenoic acid against oxidative stress. PMID:28128354

Extreme Glacial Legacies: A Synthesis of the Antarctic Springtail Phylogeographic Record

PubMed Central

McGaughran, Angela; Stevens, Mark I.; Hogg, Ian D.; Carapelli, Antonio

2011-01-01

We review current phylogeographic knowledge from across the Antarctic terrestrial landscape with a focus on springtail taxa. We describe consistent patterns of high genetic diversity and structure among populations which have persisted in glacial refugia across Antarctica over both short (<2 Mya) and long (>10 Mya) timescales. Despite a general concordance of results among species, we explain why location is important in determining population genetic patterns within bioregions. We complete our review by drawing attention to the main limitations in the field of Antarctic phylogeography, namely that the scope of geographic focus is often lacking within studies, and that large gaps remain in our phylogeographic knowledge for most terrestrial groups. PMID:26467614

Behind the energetics of the asiatic clam, Potamocorbula amurensis, in San Francisco Bay

USGS Publications Warehouse

Thompson, Janet K.; Parchaso, Francis

2001-01-01

The Asian clam (Potamocorbula amurensis) has played a key role in the food web of northern San Francisco Bay since its invasion in the fall of 1986. It has been associated with a dramatic decline in primary production, loss of a zooplankton species and a native mysid shrimp, the probable decline in striped bass, and has introduced alternative pathways for contaminant cycling in the bay food web.

Developmental Transcriptome Analysis and Identification of Genes Involved in Larval Metamorphosis of the Razor Clam, Sinonovacula constricta.

PubMed

Niu, Donghong; Wang, Fei; Xie, Shumei; Sun, Fanyue; Wang, Ze; Peng, Maoxiao; Li, Jiale

2016-04-01

The razor clam Sinonovacula constricta is an important commercial species. The deficiency of developmental transcriptomic data is becoming the bottleneck of further researches on the mechanisms underlying settlement and metamorphosis in early development. In this study, de novo transcriptome sequencing was performed for S. constricta at different early developmental stages by using Illumina HiSeq 2000 paired-end (PE) sequencing technology. A total of 112,209,077 PE clean reads were generated. De novo assembly generated 249,795 contigs with an average length of 585 bp. Gene annotation resulted in the identification of 22,870 unigene hits against the NCBI database. Eight unique sequences related to metamorphosis were identified and analyzed using real-time PCR. The razor clam reference transcriptome would provide useful information on early developmental and metamorphosis mechanisms and could be used in the genetic breeding of shellfish.

Creep deformation and rupture behavior of CLAM steel at 823 K and 873 K

NASA Astrophysics Data System (ADS)

Zhong, Boyu; Huang, Bo; Li, Chunjing; Liu, Shaojun; Xu, Gang; Zhao, Yanyun; Huang, Qunying

2014-12-01

China Low Activation Martensitic (CLAM) steel is selected as the candidate structural material in Fusion Design Study (FDS) series fusion reactor conceptual designs. The creep property of CLAM steel has been studied in this paper. Creep tests have been carried out at 823 K and 873 K over a stress range of 150-230 MPa. The creep curves showed three creep regimes, primary creep, steady-state creep and tertiary creep. The relationship between minimum creep rate (ε˙min) and the applied stress (σ) could be described by Norton power law, and the stress exponent n was decreased with the increase of the creep temperature. The creep mechanism was analyzed with the fractographes of the rupture specimens which were examined by scanning electron microscopy (SEM). The coarsening of precipitates observed with transmission electron microscope (TEM) indicated the microstructural degradation after creep test.

Environmental genotoxicity and risk assessment in the Gulf of Riga (Baltic Sea) using fish, bivalves, and crustaceans.

PubMed

Butrimavičienė, Laura; Baršienė, Janina; Greiciūnaitė, Janina; Stankevičiūtė, Milda; Valskienė, Roberta

2018-06-21

Environmental genotoxicity in the Gulf of Riga was assessed using different bioindicators (fish, clams, and isopods) collected from 14 study stations. Comparison of genotoxicity responses (micronuclei (MN) and nuclear buds (NB)) in blood erythrocytes of herring (Clupea harengus), eelpout (Zoarces viviparous), and flounder (Platichthys flesus) revealed the species- and site-specific differences. For the first time, the analysis of genotoxicity was carried out in gill cells of isopods Saduria entomon. The highest inductions of MN and NB in gill cells of investigated S. entomon and clams (Macoma balthica) were evaluated in specimens from station 111A (offshore zone). In fish, the highest incidences of MN were measured in eelpout and in herring collected in the southern part of Gulf of Riga (station GOR3/41S). Moreover, in the southern coastal area, the assessment of genotoxicity risk (according to micronuclei levels) indicated exceptionally high risk for flounder, eelpout, and clams.

Evolutionary and comparative analyses of the soybean genome

PubMed Central

Cannon, Steven B.; Shoemaker, Randy C.

2012-01-01

The soybean genome assembly has been available since the end of 2008. Significant features of the genome include large, gene-poor, repeat-dense pericentromeric regions, spanning roughly 57% of the genome sequence; a relatively large genome size of ~1.15 billion bases; remnants of a genome duplication that occurred ~13 million years ago (Mya); and fainter remnants of older polyploidies that occurred ~58 Mya and >130 Mya. The genome sequence has been used to identify the genetic basis for numerous traits, including disease resistance, nutritional characteristics, and developmental features. The genome sequence has provided a scaffold for placement of many genomic feature elements, both from within soybean and from related species. These may be accessed at several websites, including http://www.phytozome.net, http://soybase.org, http://comparative-legumes.org, and http://www.legumebase.brc.miyazaki-u.ac.jp. The taxonomic position of soybean in the Phaseoleae tribe of the legumes means that there are approximately two dozen other beans and relatives that have undergone independent domestication, and which may have traits that will be useful for transfer to soybean. Methods of translating information between species in the Phaseoleae range from design of markers for marker assisted selection, to transformation with Agrobacterium or with other experimental transformation methods. PMID:23136483

Complete Chloroplast Genome Sequence of Coptis chinensis Franch. and Its Evolutionary History

PubMed Central

He, Yang; Deng, Cao; Fan, Gang; Qin, Shishang

2017-01-01

The Coptis chinensis Franch. is an important medicinal plant from the Ranunculales. We used next generation sequencing technology to determine the complete chloroplast genome of C. chinensis. This genome is 155,484 bp long with 38.17% GC content. Two 26,758 bp long inverted repeats separated the genome into a typical quadripartite structure. The C. chinensis chloroplast genome consists of 128 gene loci, including eight rRNA gene loci, 28 tRNA gene loci, and 92 protein-coding gene loci. Most of the SSRs in C. chinensis are poly-A/T. The numbers of mononucleotide SSRs in C. chinensis and other Ranunculaceae species are fewer than those in Berberidaceae species, while the number of dinucleotide SSRs is greater than that in the Berberidaceae. C. chinensis diverged from other Ranunculaceae species an estimated 81 million years ago (Mya). The divergence between Ranunculaceae and Berberidaceae was ~111 Mya, while the Ranunculales and Magnoliaceae shared a common ancestor during the Jurassic, ~153 Mya. Position 104 of the C. chinensis ndhG protein was identified as a positively selected site, indicating possible selection for the photosystem-chlororespiration system in C. chinensis. In summary, the complete sequencing and annotation of the C. chinensis chloroplast genome will facilitate future studies on this important medicinal species. PMID:28698879

Phylogeny and biogeography of the genus Stevia (Asteraceae: Eupatorieae): an example of diversification in the Asteraceae in the new world.

PubMed

Soejima, Akiko; Tanabe, Akifumi S; Takayama, Izumi; Kawahara, Takayuki; Watanabe, Kuniaki; Nakazawa, Miyuki; Mishima, Misako; Yahara, Tetsukazu

2017-11-01

The genus Stevia comprises approximately 200 species, which are distributed in North and South America, and are representative of the species diversity of the Asteraceae in the New World. We reconstructed the phylogenetic relationships using sequences of ITS and cpDNA and estimated the divergence times of the major clade of this genus. Our results suggested that Stevia originated in Mexico 7.0-7.3 million years ago (Mya). Two large clades, one with shrub species and another with herb species, were separated at about 6.6 Mya. The phylogenetic reconstruction suggested that an ancestor of Stevia was a small shrub in temperate pine-oak forests and the evolutionary change from a shrub state to a herb state occurred only once. A Brazilian clade was nested in a Mexican herb clade, and its origin was estimated to be 5.2 Mya, suggesting that the migration from North America to South America occurred after the formation of the Isthmus of Panama. The species diversity in Mexico appears to reflect the habitat diversity within the temperate pine-oak forest zone. The presence of many conspecific diploid-polyploid clades in the phylogenetic tree reflects the high frequency of polyploidization among the perennial Stevia species.

Phylogeny of Dictyoptera: Dating the Origin of Cockroaches, Praying Mantises and Termites with Molecular Data and Controlled Fossil Evidence

PubMed Central

Legendre, Frédéric; Nel, André; Svenson, Gavin J.; Robillard, Tony; Pellens, Roseli; Grandcolas, Philippe

2015-01-01

Understanding the origin and diversification of organisms requires a good phylogenetic estimate of their age and diversification rates. This estimate can be difficult to obtain when samples are limited and fossil records are disputed, as in Dictyoptera. To choose among competing hypotheses of origin for dictyopteran suborders, we root a phylogenetic analysis (~800 taxa, 10 kbp) within a large selection of outgroups and calibrate datings with fossils attributed to lineages with clear synapomorphies. We find the following topology: (mantises, (other cockroaches, (Cryptocercidae, termites)). Our datings suggest that crown-Dictyoptera—and stem-mantises—would date back to the Late Carboniferous (~ 300 Mya), a result compatible with the oldest putative fossil of stem-dictyoptera. Crown-mantises, however, would be much more recent (~ 200 Mya; Triassic/Jurassic boundary). This pattern (i.e., old origin and more recent diversification) suggests a scenario of replacement in carnivory among polyneopterous insects. The most recent common ancestor of (cockroaches + termites) would date back to the Permian (~275 Mya), which contradicts the hypothesis of a Devonian origin of cockroaches. Stem-termites would date back to the Triassic/Jurassic boundary, which refutes a Triassic origin. We suggest directions in extant and extinct species sampling to sharpen this chronological framework and dictyopteran evolutionary studies. PMID:26200914

Multilocus resolution of phylogeny and timescale in the extant adaptive radiation of Hawaiian honeycreepers.

PubMed

Lerner, Heather R L; Meyer, Matthias; James, Helen F; Hofreiter, Michael; Fleischer, Robert C

2011-11-08

Evolutionary theory has gained tremendous insight from studies of adaptive radiations. High rates of speciation, morphological divergence, and hybridization, combined with low sequence variability, however, have prevented phylogenetic reconstruction for many radiations. The Hawaiian honeycreepers are an exceptional adaptive radiation, with high phenotypic diversity and speciation that occurred within the geologically constrained setting of the Hawaiian Islands. Here we analyze a new data set of 13 nuclear loci and pyrosequencing of mitochondrial genomes that resolves the Hawaiian honeycreeper phylogeny. We show that they are a sister taxon to Eurasian rosefinches (Carpodacus) and probably came to Hawaii from Asia. We use island ages to calibrate DNA substitution rates, which vary substantially among gene regions, and calculate divergence times, showing that the radiation began roughly when the oldest of the current large Hawaiian Islands (Kauai and Niihau) formed, ~5.7 million years ago (mya). We show that most of the lineages that gave rise to distinctive morphologies diverged after Oahu emerged (4.0-3.7 mya) but before the formation of Maui and adjacent islands (2.4-1.9 mya). Thus, the formation of Oahu, and subsequent cycles of colonization and speciation between Kauai and Oahu, played key roles in generating the morphological diversity of the extant honeycreepers. Copyright © 2011 Elsevier Ltd. All rights reserved.

Combined effects of seawater acidification and salinity changes in Ruditapes philippinarum.

PubMed

Velez, Catia; Figueira, Etelvina; Soares, Amadeu M V M; Freitas, Rosa

2016-07-01

Due to human activities, predictions for the coming years indicate increasing frequency and intensity of extreme weather events (rainy and drought periods) and pollution levels, leading to salinity shifts and ocean acidification. Therefore, several authors have assessed the effects of seawater salinity shifts and pH decrease on marine bivalves, but most of these studies evaluated the impacts of both factors independently. Since pH and salinity may act together in the environment, and their impacts may differ from their effects when acting alone, there is an urgent need to increase our knowledge when these environmental changes act in combination. Thus, the present study assessed the effects of seawater acidification and salinity changes, both acting alone and in combination, on the physiological (condition index, Na and K concentrations) and biochemical (oxidative stress related biomarkers) performance of Ruditapes philippinarum. For that, specimens of R. philippinarum were exposed for 28days to the combination of different pH levels (7.8 and 7.3) and salinities (14, 28 and 35). The results obtained showed that under control pH (7.8) and low salinity (14) the physiological status and biochemical performance of clams was negatively affected, revealing oxidative stress. However, under the same pH and at salinities 28 and 35 clams were able to maintain/regulate their physiological status and biochemical performance. Moreover, our findings showed that clams under low pH (7.3) and different salinities were able to maintain their physiological status and biochemical performance, suggesting that the low pH tested may mask the negative effects of salinity. Our results further demonstrated that, in general, at each salinity, similar physiological and biochemical responses were found in clams under both tested pH levels. Also, individuals under low pH (salinities 14, 28 and 25) and exposed to pH 7.8 and salinity 28 (control) tend to present a similar response pattern. These results indicate that pH may have a lower impact on clams than salinity. Thus, our findings point out that the predicted increase of CO2 in seawater and consequent seawater acidification will have fewer impacts on physiological and biochemical performance of R. philippinarum clams than salinity shifts. Copyright © 2016 Elsevier B.V. All rights reserved.

Acidified seawater increases accumulation of cobalt but not cesium in manila clam Ruditapes philippinarum.

PubMed

Sezer, Narin; Kocaoğlan, Hasan Oğuz; Kılıç, Önder; Lacoue-Labarthe, Thomas; Belivermiş, Murat

2018-04-01

The pH of seawater around the world is expected to continue its decline in the near future in response to ocean acidification that is driven by heightened atmospheric CO 2 emissions. Concomitantly, economically-important molluscs that live in coastal waters including estuaries and embayments, may be exposed to a wide assortment of contaminants, including trace metals and radionuclides. Seawater acidification may alter both the chemical speciation of select elements as well as the physiology of organisms, and may thus pose at risk to many shellfish species, including the manila clam Ruditapes philippinarum. The bioconcentration efficiency of two common radionuclides associated with the nuclear fuel cycle, 134 Cs and 57 Co, were investigated by exposing live clams to dissolved 134 Cs and 57 Co at control (pH = 8.1) and two lowered pH (pH = 7.8 and 7.5) levels using controlled aquaria. The uptake and depuration kinetics of the two radionuclides in the whole-body clam were followed for 21 and 35 days, respectively. At steady-state equilibrium, the concentration factor (CF ss ) for 57 Co increased as the pH decreased (i.e. 130 ± 5, 194 ± 6, and 258 ± 10 at pH levels 8.1, 7.8 and 7.5, respectively), whereas the 134 Cs uptake was not influenced by a change in pH conditions. During depuration, the lowest depuration rate constant of 57 Co by the manila clam was observed at the intermediate pH of 7.8. An increase in the accumulation of 57 Co at the intermediate pH value was thought to be caused mainly by the aragonitic shell of the clam, as well as the low salinity and alkalinity of seawater used in the experiment. Considering that accumulation consists of uptake and depuration, among the three pH conditions moderately acidified seawater enhanced most the accumulation of 57 Co. Accumulation of 134 Cs was not strongly influenced by a reduced pH condition, as represented by an analogous uptake constant rate and CF ss in each treatment. Such results suggest that future seawater pH values that are projected to be lower in the next decades, may pose a risk for calcium-bearing organisms such as shellfish. Copyright © 2018. Published by Elsevier Ltd.

Time-calibrated molecular phylogeny of pteropods

PubMed Central

Hörnlein, Christine; Janssen, Arie W.; Hughes, Martin; Bush, Stephanie L.; Marlétaz, Ferdinand; Gasca, Rebeca; Pierrot-Bults, Annelies C.; Michel, Ellinor; Todd, Jonathan A.; Young, Jeremy R.; Osborn, Karen J.; Menken, Steph B. J.

2017-01-01

Pteropods are a widespread group of holoplanktonic gastropod molluscs and are uniquely suitable for study of long-term evolutionary processes in the open ocean because they are the only living metazoan plankton with a good fossil record. Pteropods have been proposed as bioindicators to monitor the impacts of ocean acidification and in consequence have attracted considerable research interest, however, a robust evolutionary framework for the group is still lacking. Here we reconstruct their phylogenetic relationships and examine the evolutionary history of pteropods based on combined analyses of Cytochrome Oxidase I, 28S, and 18S ribosomal rRNA sequences and a molecular clock calibrated using fossils and the estimated timing of the formation of the Isthmus of Panama. Euthecosomes with uncoiled shells were monophyletic with Creseis as the earliest diverging lineage, estimated at 41–38 million years ago (mya). The coiled euthecosomes (Limacina, Heliconoides, Thielea) were not monophyletic contrary to the accepted morphology-based taxonomy; however, due to their high rate heterogeneity no firm conclusions can be drawn. We found strong support for monophyly of most euthecosome genera, but Clio appeared as a polyphyletic group, and Diacavolinia grouped within Cavolinia, making the latter genus paraphyletic. The highest evolutionary rates were observed in Heliconoides inflatus and Limacina bulimoides for both 28S and 18S partitions. Using a fossil-calibrated phylogeny that sets the first occurrence of coiled euthecosomes at 79–66 mya, we estimate that uncoiled euthecosomes evolved 51–42 mya and that most extant uncoiled genera originated 40–15 mya. These findings are congruent with a molecular clock analysis using the Isthmus of Panama formation as an independent calibration. Although not all phylogenetic relationships could be resolved based on three molecular markers, this study provides a useful resource to study pteropod diversity and provides general insight into the processes that generate and maintain their diversity in the open ocean. PMID:28604805

Time-calibrated molecular phylogeny of pteropods.

PubMed

Burridge, Alice K; Hörnlein, Christine; Janssen, Arie W; Hughes, Martin; Bush, Stephanie L; Marlétaz, Ferdinand; Gasca, Rebeca; Pierrot-Bults, Annelies C; Michel, Ellinor; Todd, Jonathan A; Young, Jeremy R; Osborn, Karen J; Menken, Steph B J; Peijnenburg, Katja T C A

2017-01-01

Pteropods are a widespread group of holoplanktonic gastropod molluscs and are uniquely suitable for study of long-term evolutionary processes in the open ocean because they are the only living metazoan plankton with a good fossil record. Pteropods have been proposed as bioindicators to monitor the impacts of ocean acidification and in consequence have attracted considerable research interest, however, a robust evolutionary framework for the group is still lacking. Here we reconstruct their phylogenetic relationships and examine the evolutionary history of pteropods based on combined analyses of Cytochrome Oxidase I, 28S, and 18S ribosomal rRNA sequences and a molecular clock calibrated using fossils and the estimated timing of the formation of the Isthmus of Panama. Euthecosomes with uncoiled shells were monophyletic with Creseis as the earliest diverging lineage, estimated at 41-38 million years ago (mya). The coiled euthecosomes (Limacina, Heliconoides, Thielea) were not monophyletic contrary to the accepted morphology-based taxonomy; however, due to their high rate heterogeneity no firm conclusions can be drawn. We found strong support for monophyly of most euthecosome genera, but Clio appeared as a polyphyletic group, and Diacavolinia grouped within Cavolinia, making the latter genus paraphyletic. The highest evolutionary rates were observed in Heliconoides inflatus and Limacina bulimoides for both 28S and 18S partitions. Using a fossil-calibrated phylogeny that sets the first occurrence of coiled euthecosomes at 79-66 mya, we estimate that uncoiled euthecosomes evolved 51-42 mya and that most extant uncoiled genera originated 40-15 mya. These findings are congruent with a molecular clock analysis using the Isthmus of Panama formation as an independent calibration. Although not all phylogenetic relationships could be resolved based on three molecular markers, this study provides a useful resource to study pteropod diversity and provides general insight into the processes that generate and maintain their diversity in the open ocean.

Phylogeny of world stag beetles (Coleoptera: Lucanidae) reveals a Gondwanan origin of Darwin's stag beetle.

PubMed

Kim, Sang Il; Farrell, Brian D

2015-05-01

Stag beetles (family Lucanidae Latreille, 1804) are one of the earliest branching lineages of scarab beetles that are characterized by the striking development of the male mandibles. Despite stag beetles' popularity among traditional taxonomists and amateur collectors, there has been almost no study of lucanid relationships and evolution. Entomologists, including Jeannel (1942), have long recognized resemblance between the austral stag beetles of the tribes Chiasognathini, Colophonini, Lamprimini, Pholidotini, Rhyssonotini, and Streptocerini, but this hypothesis of their close relationship across the continents has never been tested. To gain further insight into lucanid phylogeny and biogeography, we reconstructed the first molecular phylogeny of world stag beetles using DNA sequences from mitochondrial 16S rDNA, nuclear 18S and 28S rDNA, and the nuclear protein-coding (NPC) gene wingless for 93 lucanid species representing all extant subfamilies and 24 out of the 27 tribes, together with 14 representative samples of other early branching scarabaeoid families and two staphyliniform beetle families as outgroups. Both Bayesian inference (BI) and maximum likelihood inference (MLI) strongly supported the monophyly of Lucanidae sensu lato that includes Diphyllostomatidae. Within Lucanidae sensu stricto, the subfamilies Lucaninae and Lampriminae appeared monophyletic under both methods of phylogenetic inferences; however, Aesalinae and Syndesinae were found to be polyphyletic. A time-calibrated phylogeny based on five fossil data estimated the origin of crown group Lucanidae as circa 160 million years ago (MYA). Divergence between the Neotropical and Australasian groups of the Chiasognathini was estimated to be circa 47MYA, with the South African Colophonini branching off from the ancient Chiasognathini lineage around 87MYA. Another Gondwanan relationship was recovered between the Australasian Eucarteria and the Neotropical Casignetus, which diverged circa 58MYA. Lastly, as Jeannel's hypothesis predicted, divergence within Lampriminae between the Australasian Lamprima and the Neotropical Streptocerus was estimated to be circa 37MYA. The split of these lineages were generally concordant with the pattern of continental break-up of the super-continent Gondwana, and our biogeographic reconstructions based on the dispersal-extinction-cladogenesis model (DEC) corroborate our view that the divergences in these austral lineages were caused by vicariance events following the Gondwanan break-up. In addition, the phylogenetic position and geographic origin of the Hawaiian genus Apterocyclus was revealed for the first time. Overall, our results provide the framework toward studying lucanid relationships and divergence time estimates, which allowed for more accurate biogeographic explanations and discussions on ancestral lucanids and the evolutionary origin of the enlarged male mandibles. Copyright © 2015 Elsevier Inc. All rights reserved.

Roughans Point, Revere, Massachusetts Coastal Flood Protection Study. Volume I. Main Report.

DTIC Science & Technology

1982-12-01

1982 conducted bT, Rusty Iwanowicz , Massachusetts Division of Marine Fisheries, concluded that the shoreline area that would be impacted by the... Iwanowicz , DMF, and Charles Freeman of my staff. In this survey, five test holes were dug seaward of the area of project impact in areas which Mr... Iwanowicz felt would indicate the productivity of the clam flat. Two holes revealed no shellfish, and the best hole produced two razor clams, two

Gulf Coast Deep Water Port Facilities Study. Appendix D. Adverse Environmental Effects.

DTIC Science & Technology

1973-04-01

mds 2. Thigmotropic effect of submerged structures 3. Attachment or shelter for marine organisms 4. Gain of sheltered habitat (lee of islands) 5...marshplants Bay margin marine grass, clams, snails and blue crab Grass flats marine grass, clams, snails, black drum and t other fish Open bay with tidal...surrounding area. F. CONCLUSION The most direct and easily understood effects of dredging projects on marine biota are: I) the destruction and removal of

Sublethal Effects of Tributyltin on the Hard Shell Clam, Mercenaria mercenaria,

DTIC Science & Technology

1988-01-01

tributyltin compounds ( TBT ). Post-set clams microalgae, Isochyis galmna Tahiti strain. TBT survived exposures up to 7.5 1i / for 25 days. No corentrations in...acute effects of TBT exposure. None survived eight Experience in Europe with effects of tributyltin days exposure to 1 pg/i or higher (Fig. 2). At the...7) Laughlin, R.8., Jr., R.G. Gustafson and Peter Distribution/ Pendoley. 1987. Acute toxicity of tributyltin Avaiabilty Cdes( TBT ) to early life

University of Washington Airborne Studies in Support of the CLAMS-2001 Field Study

NASA Technical Reports Server (NTRS)

Hobbs, Peter V.

2003-01-01

The main activity under this grant was participation in the Chesapeake Lighthouse and Aircraft Measurements for Satellites (CLAMS) field study from 10 July through 2 August 2001. The Cloud and Aerosol Research Group (CARG) from the University of Washington (UW) flew its Convair-580 research aircraft on thirteen occasions, for a total of 45 research flight hours, in support of CLAMS. Some of the main accomplishments of these flights were: 1) Aerosol and trace gas measurements and sunphotometer measurements of aerosol optical depth and column water vapor and ozone from close to Ocean surface to approx. 10,000 ft off Delmarva Peninsula on various occasions; 2) Measurements of aerosol properties on seven occasions beneath the Terra satellite, once beneath AVHRR, and five times beneath the ER-2 aircraft; 3) Measurements of aerosol properties in the vicinity of the (CERES instrumented) Chesapeake Bay lighthouse (COVE) on nine occasions; 4) Use of the NASA Goddard Cloud Absorption Radiometer (CAR) to obtain measurements of BRDF of the ocean surface on fifteen occasions and over Great Dismal Swamp on two occasions; 5) Measurements of aerosol properties over instrumented buoys 44014, 44004, and 41001. 6) On July 17 (a CLAMS 'Golden Day') six aircraft, including the Convair-580 and ER-2, were stacked above the Chesapeake Bay lighthouse under clear skies at the time of the Terra overpass.

Bioaccumulation of polycyclic aromatic hydrocarbons in bivalves from Sugarland Run and the Potomac River

DOE Office of Scientific and Technical Information (OSTI.GOV)

Barber, T.R.; Lauren, D.J.; Dimitry, J.A.

1995-12-31

A bioaccumulation study was conducted following a release of Fuel Oil {number_sign}2 into Sugarland Run, a small northern Virginia stream. Caged clams (Corbicula sp.) were placed in 3 downstream locations and 2 upstream reference areas for an exposure period of approximately 28 days. In addition, resident clams from the Potomac River were sampled at the start of the study and at 4 and 8 weeks. Chemical fingerprinting techniques were employed to identify spill-related polycyclic aromatic hydrocarbons (PAHs) and to differentiate these compounds from background sources of contamination. The greatest concentration of spill-related PAHs (2 and 3-ring compounds) were measured inmore » clams placed immediately downstream of the spill site, and tissue concentrations systematically decreased with distance from the spill site. PAHs that were not related to Fuel Oil {number_sign}2 were found in all clams and accounted for up to 90% of the total body burden at downstream locations. Furthermore, the highest concentrations of 4-, 5-, and 6-ring PAH were found at the upstream reference location, and indicated an important source of PAHs into the environment. Body burdens measured in this study were compared to ambient concentrations reported for bivalves from a variety of environments. Tissue concentrations were also compared to concentrations that have been reported to cause adverse biological effects.« less

Effects of multi-walled carbon nanotube materials on Ruditapes philippinarum under climate change: The case of salinity shifts.

PubMed

De Marchi, Lucia; Neto, Victor; Pretti, Carlo; Figueira, Etelvina; Chiellini, Federica; Morelli, Andrea; Soares, Amadeu M V M; Freitas, Rosa

2018-06-01

The toxicity of carbon nanotubes (CNTs) is closely related to their physico-chemical characteristics as well as the physico-chemical parameters of the media where CNTs are dispersed. In a climate change scenario, changes in seawater salinity are becoming a topic of concern particularly in estuarine and coastal areas. Nevertheless, to our knowledge no information is available on how salinity shifts may alter the sensitivity (in terms of biochemical responses) of bivalves when exposed to different CNTs. For this reason, a laboratory experiment was performed exposing the Manila clam Ruditapes philippinarum, one of the most dominant bivalves of the estuarine and coastal lagoon environments, for 28 days to unfunctionalized multi-walled carbon nanotube MWCNTs (Nf-MWCNTs) and carboxylated MWCNTs (f-MWCNTs), maintained at control salinity (28) and low salinity 21. Concentration-dependent toxicity was demonstrated in individuals exposed to both MWCNT materials and under both salinities, generating alterations of energy reserves and metabolism, oxidative status and neurotoxicity compared to non-contaminated clams. Moreover, our results showed greater toxic impacts induced in clams exposed to f-MWCNTs compared to Nf-MWCNTs. In the present study it was also demonstrated how salinity shifts altered the toxicity of both MWCNT materials as well as the sensitivity of R. philippinarum exposed to these contaminates in terms of clam metabolism, oxidative status and neurotoxicity. Copyright © 2018 Elsevier B.V. All rights reserved.

Laboratory simulation reveals significant impacts of ocean acidification on microbial community composition and host-pathogen interactions between the blood clam and Vibrio harveyi.

PubMed

Zha, Shanjie; Liu, Saixi; Su, Wenhao; Shi, Wei; Xiao, Guoqiang; Yan, Maocang; Liu, Guangxu

2017-12-01

It has been suggested that climate change may promote the outbreaks of diseases in the sea through altering the host susceptibility, the pathogen virulence, and the host-pathogen interaction. However, the impacts of ocean acidification (OA) on the pathogen components of bacterial community and the host-pathogen interaction of marine bivalves are still poorly understood. Therefore, 16S rRNA high-throughput sequencing and host-pathogen interaction analysis between blood clam (Tegillarca granosa) and Vibrio harveyi were conducted in the present study to gain a better understanding of the ecological impacts of ocean acidification. The results obtained revealed a significant impact of ocean acidification on the composition of microbial community at laboratory scale. Notably, the abundance of Vibrio, a major group of pathogens to many marine organisms, was significantly increased under ocean acidification condition. In addition, the survival rate and haemolytic activity of V. harveyi were significantly higher in the presence of haemolymph of OA treated T. granosa, indicating a compromised immunity of the clam and enhanced virulence of V. harveyi under future ocean acidification scenarios. Conclusively, the results obtained in this study suggest that future ocean acidification may increase the risk of Vibrio pathogen infection for marine bivalve species, such as blood clams. Copyright © 2017 Elsevier Ltd. All rights reserved.

Growth, Survival and Reproduction of the Giant Clam Tridacna maxima (Röding 1798, Bivalvia) in Two Contrasting Lagoons in French Polynesia

PubMed Central

Van Wynsberge, Simon; Andréfouët, Serge; Gaertner-Mazouni, Nabila; Wabnitz, Colette C. C.; Menoud, Mathilde; Le Moullac, Gilles; Levy, Peva; Gilbert, Antoine; Remoissenet, Georges

2017-01-01

Shell growth, reproduction, and natural mortality of the giant clam Tridacna maxima were characterized over a two-year-period in the lagoon of the high island of Tubuai (Austral Archipelago) and in the semi-closed lagoon of Tatakoto (Tuamotu Archipelago) in French Polynesia. We also recorded temperature, water level, tidal slope, tidal range, and mean wave height in both lagoons. Lower lagoon aperture and exposure to oceanic swells at Tatakoto than at Tubuai was responsible for lower lagoon water renewal, as well as higher variability in temperature and water level at Tatakoto across the studied period. These different environmental conditions had an impact on giant clams. Firstly, spawning events in the lagoon of Tatakoto, detected by gonad maturity indices in June and July 2014, were timed with high oceanic water inflow and a decrease in lagoon water temperature. Secondly, temperature explained differences in shell growth rates between seasons and lagoons, generating different growth curves for the two sites. Thirdly, local mortality rates were also found to likely be related to water renewal patterns. In conclusion, our study suggests that reef aperture and lagoon water renewal rates play an integral role in giant clam life history, with significant differences in rates of shell growth, mortality and fertility found between open versus semi-closed atoll lagoons in coral reef ecosystems. PMID:28118406

Persistence of sucrose fermenting and nonfermenting vibrios in tissues of Manila clam species, Ruditapes philippinarum, depurated in seawater at two different temperatures.

PubMed

Lopez-Joven, C; Ruiz-Zarzuela, I; de Blas, I; Furones, M D; Roque, A

2011-08-01

Effective post-harvest treatment to eliminate toxigenic vibrios is an important measure to reduce risk associated with seafood consumption. In the present study, we examined whether natural populations of sucrose nonfermenting (SNFV) and sucrose fermenting vibrios (SFV) persisted in Ruditapes philippinarum, after depuration at two different temperatures. Two experiments (one in Spring and one in Summer) were performed. Clams were depurated in duplicate tanks in an open-circuit seawater system using filtration and ultraviolet treatment. Clams were sampled daily (9 days), individually processed and inoculated on thiosulphate-citrate-bile salts-sucrose (TCBS) agar plates to estimate the density of SNFV and SFV. Results showed that depuration was less effective in Summer than in Spring, for SNFV and SFV. Despite an initial lower presence in the Summer experiment, clearance of SNFV was less efficient than in Spring, with 22.2% of clams presenting SNFV on day 8 and without significant changes on day 9. When compared, daily proportion of presence of SNFV and SFV in Spring, it was observed that SFV were more frequent than SNFV on days 8 and 9. In Summer these differences were significant on days 7-9. Present study demonstrated that SNFV (involved in food poisoning) are purged, at any temperature, faster than SFV. Copyright © 2011 Elsevier Ltd. All rights reserved.

Molecular characterization of a novel algal glutamine synthetase (GS) and an algal glutamate synthase (GOGAT) from the colorful outer mantle of the giant clam, Tridacna squamosa, and the putative GS-GOGAT cycle in its symbiotic zooxanthellae.

PubMed

Fam, Rachel R S; Hiong, Kum C; Choo, Celine Y L; Wong, Wai P; Chew, Shit F; Ip, Yuen K

2018-05-20

Giant clams harbor symbiotic zooxanthellae (Symbiodinium), which are nitrogen-deficient, mainly in the fleshy and colorful outer mantle. This study aimed to sequence and characterize the algal Glutamine Synthetase (GS) and Glutamate Synthase (GLT), which constitute the glutamate synthase cycle (or GS-GOGAT cycle, whereby GOGAT is the protein acronym of GLT) of nitrogen assimilation, from the outer mantle of the fluted giant clam, Tridacna squamosa. We had identified a novel GS-like cDNA coding sequence of 2325 bp, and named it as T. squamosa Symbiodinium GS1 (TSSGS1). The deduced TSSGS1 sequence had 774 amino acids with a molecular mass of 85 kDa, and displayed the characteristics of GS1 and Nucleotide Diphosphate Kinase. The cDNA coding sequence of the algal GLT, named as T. squamosa Symbiodinium GLT (TSSGLT), comprised 6399 bp, encoding a protein of 2133 amino acids and 232.4 kDa. The zooxanthellal origin of TSSGS1 and TSSGOGAT was confirmed by sequence comparison and phylogenetic analyses. Indeed, TSSGS1 and TSSGOGAT were expressed predominately in the outer mantle, which contained the majority of the zooxanthellae. Immunofluorescence microscopy confirmed the expression of TSSGS1 and TSSGOGAT in the cytoplasm and the plastids, respectively, of the zooxanthellae in the outer mantle. It can be concluded that the symbiotic zooxanthellae of T. squamosa possesses a glutamate synthase (TSSGS1-TSSGOGAT) cycle that can assimilate endogenous ammonia produced by the host clam into glutamate, which can act as a substrate for amino acid syntheses. Thus, our results provide insights into why intact giant clam-zooxanthellae associations do not excrete ammonia under normal circumstances. Copyright © 2018 Elsevier B.V. All rights reserved.

Mating Behaviour in Laevicaudatan Clam Shrimp (Crustacea, Branchiopoda) and Functional Morphology of Male Claspers in a Phylogenetic Context: A Video-Based Analysis

PubMed Central

Sigvardt, Zandra M. S.; Olesen, Jørgen

2014-01-01

Clam shrimps are freshwater branchiopod crustaceans which often present complicated breeding systems including asexual reproduction (parthenogenesis) and mixed mating systems (in androdioecious species both selfing and outcrossing occurs due to the co-presence of hermaphrodites and males). Reproductive patterns of Spinicaudata, which contains most clam shrimp species, have received much attention. Another group of clam shrimps, Laevicaudata, which holds a key position in branchiopod phylogeny, has practically not been studied. As a part of the mating process, males clasp to the carapace margin of the females with a pair (or two pairs) of anterior trunk limbs modified as claspers. Previous studies have shown that clasper morphology is important in a phylogenetic context, and that some parts of the claspers in Spinicaudata and Laevicaudata may have undergone a remarkable parallel evolution. Here we have used video microscopy to study aspects of the mating behaviour, egg extrusion, and fertilization in Lynceus brachyurus (Laevicaudata). It is shown that fertilization is likely to be external and that the peculiar tri-lobed lateral lamellae of female's hind body assist in guiding the egg mass to the exopodal egg carriers where they are collected by their distal setation. The functional morphology of the male claspers was studied in detail by close-up video recordings. The movable “finger” of the clasper bends around the female's carapace edge and serves to hold the female during mating. The larger palp grasps around the female carapace margin in a way very similar to the movable “finger”, possibly indirectly providing sensory input on the “finger” position. A brief comparative study of the claspers of a spinicaudatan clam shrimp showed both similarities and differences to the laevicaudatan claspers. The presence of two pairs of claspers in Spinicaudata seems to give males a better hold of the female which may play a role during extended mate guarding. PMID:24392104

Multi-species generalist predation on the stochastic harvested clam Tivela mactroides (Mollusca, Bivalvia)

NASA Astrophysics Data System (ADS)

Turra, Alexander; Fernandez, Wellington S.; Bessa, Eduardo; Santos, Flavia B.; Denadai, Márcia R.

2015-12-01

Top-down control is an important force modulating the abundance of prey and structuring marine communities. The harvested trigonal clam Tivela mactroides is hypothesized to be part of the diet of a variety of marine organisms, with its stock influencing predator abundance and being influenced by them. Here we analyzed the diet of potential predators of T. mactroides in Caraguatatuba Bay, northern coast of São Paulo State, Brazil, to identify the main consumers of this marine resource, and also to address the importance of this clam in the diet of each predator. Samples were taken year-round by trawls; all specimens collected were identified and measured and the food items identified and quantified. Twenty-one species consumed T. mactroides, whose importance in the diet varied greatly in both the volume ingested and the frequency of occurrence (pompano Trachinotus carolinus > blue crab Callinectes danae > starfish Astropecten marginatus). Top-down influence on T. mactroides was also dependent on the abundance of consumers (yellow catfish Cathorops spixii > rake stardrum Stellifer rastrifer > barred grunt Conodon nobilis > A. marginatus). Considering the mean volume ingested, the frequency of occurrence of T. mactroides in the diet, and the relative abundance of consumers, the predators that most influenced T. mactroides were T. carolinus, A. marginatus, and C. danae, in decreasing order. Large numbers of small-sized individuals of T. mactroides (<10 mm) were generally preyed upon by A. marginatus, which may have a stronger effect on clam abundance in comparison to C. danae and T. carolinus, which preyed upon larger clams. In conclusion, the results of this study indicate that predators' consumption of T. mactroides in Caraguatatuba Bay can influence its stocks, mainly due to the type and/or abundance of predator species, the volume and number of individuals of T. mactroides preyed upon, and the temporal variations in the abundance of predators.

Mating behaviour in laevicaudatan clam shrimp (Crustacea, Branchiopoda) and functional morphology of male claspers in a phylogenetic context: a video-based analysis.

PubMed

Sigvardt, Zandra M S; Olesen, Jørgen

2014-01-01

Clam shrimps are freshwater branchiopod crustaceans which often present complicated breeding systems including asexual reproduction (parthenogenesis) and mixed mating systems (in androdioecious species both selfing and outcrossing occurs due to the co-presence of hermaphrodites and males). Reproductive patterns of Spinicaudata, which contains most clam shrimp species, have received much attention. Another group of clam shrimps, Laevicaudata, which holds a key position in branchiopod phylogeny, has practically not been studied. As a part of the mating process, males clasp to the carapace margin of the females with a pair (or two pairs) of anterior trunk limbs modified as claspers. Previous studies have shown that clasper morphology is important in a phylogenetic context, and that some parts of the claspers in Spinicaudata and Laevicaudata may have undergone a remarkable parallel evolution. Here we have used video microscopy to study aspects of the mating behaviour, egg extrusion, and fertilization in Lynceus brachyurus (Laevicaudata). It is shown that fertilization is likely to be external and that the peculiar tri-lobed lateral lamellae of female's hind body assist in guiding the egg mass to the exopodal egg carriers where they are collected by their distal setation. The functional morphology of the male claspers was studied in detail by close-up video recordings. The movable "finger" of the clasper bends around the female's carapace edge and serves to hold the female during mating. The larger palp grasps around the female carapace margin in a way very similar to the movable "finger", possibly indirectly providing sensory input on the "finger" position. A brief comparative study of the claspers of a spinicaudatan clam shrimp showed both similarities and differences to the laevicaudatan claspers. The presence of two pairs of claspers in Spinicaudata seems to give males a better hold of the female which may play a role during extended mate guarding.

Lethal and sub-lethal effects of elevated CO2 concentrations on marine benthic invertebrates and fish.

PubMed

Lee, Changkeun; Hong, Seongjin; Kwon, Bong-Oh; Lee, Jung-Ho; Ryu, Jongseong; Park, Young-Gyu; Kang, Seong-Gil; Khim, Jong Seong

2016-08-01

Concern about leakage of carbon dioxide (CO2) from deep-sea storage in geological reservoirs is increasing because of its possible adverse effects on marine organisms locally or at nearby coastal areas both in sediment and water column. In the present study, we examined how elevated CO2 affects various intertidal epibenthic (benthic copepod), intertidal endobenthic (Manila clam and Venus clam), sub-tidal benthic (brittle starfish), and free-living (marine medaka) organisms in areas expected to be impacted by leakage. Acute lethal and sub-lethal effects were detected in the adult stage of all test organisms exposed to varying concentrations of CO2, due to the associated decline in pH (8.3 to 5.2) during 96-h exposure. However, intertidal organisms (such as benthic copepods and clams) showed remarkable resistance to elevated CO2, with the Venus clam being the most tolerant (LpH50 = 5.45). Sub-tidal species (such as brittle starfish [LpH50 = 6.16] and marine medaka [LpH50 = 5.91]) were more sensitive to elevated CO2 compared to intertidal species, possibly because they have fewer defensive capabilities. Of note, the exposure duration might regulate the degree of acute sub-lethal effects, as evidenced by the Venus clam, which showed a time-dependent effect to elevated CO2. Finally, copper was chosen as a model toxic element to find out the synergistic or antagonistic effects between ocean acidification and metal pollution. Combination of CO2 and Cu exposure enhances the adverse effects to organisms, generally supporting a synergistic effect scenario. Overall, the significant variation in the degree to which CO2 adversely affected organisms (viz., working range and strength) was clearly observed, supporting the general concept of species-dependent effects of elevated CO2.

Food selection among Atlantic Coast seaducks in relation to historic food habits

USGS Publications Warehouse

Perry, M.C.; Osenton, P.C.; Wells-Berlin, A. M.; Kidwell, D.M.

2005-01-01

Food selection among Atlantic Coast seaducks during 1999-2005 was determined from hunter-killed ducks and compared to data from historic food habits file (1885-1985) for major migrational and wintering areas in the Atlantic Flyway. Food selection was determined by analyses of the gullet (esophagus and proventriculus) and gizzard of 860 ducks and summarized by aggregate percent for each species. When sample size was adequate comparisons were made among age and sex groupings and also among local sites in major habitat areas. Common eiders in Maine and the Canadian Maritimes fed predominantly (53%) on the blue mussel (Mytilus edulis). Scoters in Massachusetts, Maine, and the Canadian Maritimes fed predominantly on the blue mussel (46%), Atlantic jackknife clam (Ensis directus; 19%), and Atlantic surf clam (Spisula solidissima; 15%), whereas scoters in the Chesapeake Bay fed predominantly on hooked mussel (Ischadium recurvum; 42%), the stout razor clam (Tagelus plebeius; 22%), and dwarf surf clam (Mulinia lateralis; 15%). The amethyst gem clam (Gemma gemma) was the predominant food (45%) of long-tailed ducks in Chesapeake Bay. Buffleheads and common goldeneyes fed on a mixed diet of mollusks and soft bodied invertebrates (amphipods, isopods and polychaetes). No major differences were noticed between the sexes in regard to food selection in any of the wintering areas. Comparisons to historic food habits in all areas failed to detect major differences. However, several invertebrate species recorded in historic samples were not found in current samples and two invasive species (Atlantic Rangia, Rangia cuneata and green crab, Carcinas maenas) were recorded in modem samples, but not in historic samples. Benthic sampling in areas where seaducks were collected showed a close correlation between consumption and availability. Each seaduck species appears to fill a unique niche in regard to feeding ecology, although there is much overlap of prey species selected. Understanding the trophic relationships of seaducks in coastal wintering areas will give managers a better understanding of habitat changes in regard to future environmental perturbations.

Species Profiles. Life Histories and Environmental Requirements of Coastal Fishes and Invertebrates (Pacific Northwest). Common Littleneck Clam.

DTIC Science & Technology

1987-08-01

Fishery in coastal communities and is a factor in Washington the economies of some rural areas. Of the annual commercial catch of clams, In Washington...AD-A199 654 SPECIES PROFILES LIFE HISTORIES AND ENVIRONMENTAL / REQUIREMENTS OF COASTAL.. (U) MASHINGTON UNIV SEATTLE SCHOOL OF FISHERIES K K CHEM ET...P. Ma Division of Fishery Science and Aquaculture School of Fisheries University of Washington 0 Seattle, WA 98195 Project Officer David Moran 0

Species Profiles: Life Histories and Environmental Requirements of Coastal Fishes and Invertebrates (Pacific Northwest) Pacific Razor Clam

DTIC Science & Technology

1989-01-01

Kalaloch Quinault Indian Reservation - MOcrocks Beach - SEATTLE u Copalis Beahch Grays Harbor- PUGET SOUND Twin Harbors Beach- Willapa Bay detached...margin of the shell on the Pismo Beach in southern California inside." to the Aleutian Islands in Alaska. The distribution in the Pacific Weymouth and...This to disease. increasing popularity led Browning (1980) to write that "many Washington Individual razor clams are either residents , as well as a great

Identification of five reptile egg whites protein using MALDI-TOF mass spectrometry and LC/MS-MS analysis.

PubMed

Prajanban, Bung-on; Shawsuan, Laoo; Daduang, Sakda; Kommanee, Jintana; Roytrakul, Sittiruk; Dhiravisit, Apisak; Thammasirirak, Sompong

2012-03-16

Proteomics of egg white proteins of five reptile species, namely Siamese crocodile (Crocodylus siamensis), soft-shelled turtle (Trionyx sinensis taiwanese), red-eared slider turtle (Trachemys scripta elegans), hawksbill turtle (Eretmochelys imbricate) and green turtle (Chelonia mydas) were studied by 2D-PAGE using IPG strip pH 4-7 size 7 cm and IPG strip pH 3-10 size 24 cm. The protein spots in the egg white of the five reptile species were identified by MALDI-TOF mass spectrometry and LC/MS-MS analysis. Sequence comparison with the database revealed that reptile egg white contained at least seven protein groups, such as serpine, transferrin precursor/iron binding protein, lysozyme C, teneurin-2 (fragment), interferon-induced GTP-binding protein Mx, succinate dehydrogenase iron-sulfur subunit and olfactory receptor 46. This report confirms that transferrin precursor/iron binding protein is the major component in reptile egg white. In egg white of Siamese crocodile, twenty isoforms of transferrin precursor were found. Iron binding protein was found in four species of turtle. In egg white of soft-shelled turtle, ten isoforms of lysozyme were found. Apart from well-known reptile egg white constituents, this study identified some reptile egg white proteins, such as the teneurin-2 (fragment), the interferon-induced GTP-binding protein Mx, the olfactory receptor 46 and the succinate dehydrogenase iron-sulfur subunit. Copyright © 2012 Elsevier B.V. All rights reserved.

Effects of brown fish meal replacement with fermented soybean meal on growth performance, feed efficiency and enzyme activities of Chinese soft-shelled turtle, Pelodiscus sinensis

NASA Astrophysics Data System (ADS)

Zou, Yurong; Ai, Qinghui; Mai, Kangsen; Zhang, Wenbing; Zhang, Yanjiao; Xu, Wei

2012-06-01

A 120-day feeding experiment was conducted to investigate the effects of partial replacement of brown fish meal (BFM) by fermented soybean meal (FSBM) in diets of Chinese soft-shelled turtle ( Pelodiscus sinensis). The turtles (initial mean body weight, (115.52 ± 1.05) g) were fed with three experimental diets, in which 0%, 4.72% and 9.44% BFM protein was replaced by 0%, 3% and 6% FSBM, respectively. Results showed that the feeding rate (FR), specific growth rate (SGR) and feed efficiency ratio (FER) of turtles fed with the diet containing 3% FSBM were not significantly different from the control group (0% FSBM) ( P > 0.05). However, FR, SGR and FER of turtles fed with the diet containing 6% FSBM were significantly lower than those of the control group ( P < 0.05). No significant differences were observed in the activities of serum glutamic-oxalacetic transaminase and glutamic-pyruvic transaminase among dietary treatments ( P > 0.05). However, the uric acid concentration in turtles fed with the diet containing 3% or 6% FSBM was significantly lower than that in the control group ( P < 0.05). There were no significant differences in the activities of lysozyme, alkaline phosphatase and total superoxide dismutase among dietary treatments ( P > 0.05). The results suggested that FSBM could replace 4.72% BFM protein in turtle diets without exerting adverse effects on turtle growth, feed utilization and measured immune parameters.

Using stable isotope systematics and trace metals to constrain the dispersion of fish farm pollution

NASA Astrophysics Data System (ADS)

Torchinsky, A.; Shiel, A. E.; Price, M.; Weis, D. A.

2010-12-01

Fish farming is a growing industry of great economic importance to coastal communities. Unfortunately, open-net fish farming is associated with the release of organic and metal pollution, which has the potential to adversely affect the coastal marine environment. The dispersion of fish farm pollution and its environmental impact are not well understood/quantified. Pollutants released by fish farms include organic products such as uneaten feed pellets and fish feces, as well as chemicals and pharmaceuticals, all of which may enter marine ecosystems. In this study, we took advantage of bioaccumulation in passive suspension feeding Manila Clams collected at varying distances from an open-net salmon farm located in the Discovery Islands of British Columbia. Measurements of stable C and N isotopes, as well as trace metal concentrations, in the clams were used to investigate the spread of pollutants by detecting the presence of fish farm waste in the clams’ diet. Lead isotopic measurements were used to identify other significant anthropogenic pollution sources, which may impact the study area. Clams located within the areal extent of waste discharged by a fish farm are expected to exhibit anomalous light stable isotope ratios and metal concentrations, reflecting the presence of pollutants accumulated directly from seawater and from their diet. Clams were collected in the Discovery Islands from three sites in the Octopus Islands, located 850 m, 2100 m and 3000 m north of the Cyrus Rocks salmon farm (near Quadra Island) and from a reference site on Penn Island. Light stable isotope ratios (δN = ~10‰, with little variation between sites, and δC from -14.5 to -17.3‰) of the clams suggest that the most distal site (i.e., 3000 m away) is most impacted by organic fish farm waste (i.e., food pellets and feces) and that contributions of organic waste actually decrease closer to the farm. Not surprisingly, the smallest contribution of organic waste was detected in clams from the reference site. It is thought that resuspension of particulate waste could be responsible for concentrating waste far from the fish farm. No pattern was observed in the trace metal concentration measurements (Cu = 4.11 - 9.64 ppm, Zn 40.0 - 107 ppm and Pb 0.008 - 0.086 ppm) of the clams suggesting differences in the dispersion of metal contaminants and organic waste. Lead isotope ratios (1.14874 to 1.74100 for 206Pb /207Pb and 2.07579 to 2.10615 for 208Pb /206Pb) indicate the importance of anthropogenic Pb sources in the study area (i.e., unleaded gasoline and diesel fuel consumption and metal smelting), however, the anthropogenic Pb sources are unlikely to be associated with the open-net salmon farm. Waste dispersion from open-net fish farms is complicated by physical oceanographic conditions, which characterize individual study areas, this must be taken into account when interpreting results and designing future studies.

Identification of Marteilia refringens infecting the razor clam Solen marginatus by PCR and in situ hybridization.

PubMed

López-Flores, Inmaculada; Garrido-Ramos, Manuel A; de la Herran, Roberto; Ruiz-Rejón, Carmelo; Ruiz-Rejón, Manuel; Navas, José I

2008-06-01

Marteilia refringens is a protozoan parasite recognized as a significant pathogen of the European flat oyster Ostrea edulis. It is believed to have a complex life-cycle involving several hosts. In this study, we applied molecular approaches to identify this parasite in samples of the razor clam Solen marginatus from the south west coast of Spain. We used a PCR assay to amplify a fragment of the IGS rDNA region. PCR products were sequenced and the phylogenetic affinity of the sequences was determined. In situ hybridization analysis showed tissue distribution and presence of different developmental stages of the parasite in the digestive diverticula epithelium, which suggested a true parasitism in these individuals. This is the first report of the occurrence of M. refringens in the razor clam S. marginatus in the south Atlantic. The methodology described herein may be useful for accurate identification of the parasite strain in different hosts and thus provide valuable information for marteiliosis control programmes.

Trace metals in sediments and benthic animals from aquaculture ponds near a mangrove wetland in Southern China.

PubMed

Wu, Hao; Liu, Jinling; Bi, Xiangyang; Lin, Guanghui; Feng, Christopher C; Li, Zhengjie; Qi, Fei; Zheng, Tianling; Xie, Liqi

2017-04-15

In this study, we measured the concentrations of trace metals (Cr, Cu, Zn, As, Cd, Pb and Hg) in typical cultured animals (crabs, clams, and shrimps) and sediments from aquaculture ponds nearby mangrove wetlands in Zhangjiang estuary, China. The contents of Cr, Cu, Cd, and Pb in mangrove sediments were significantly higher than those in pond sediments, while an inverse distribution was observed for Zn, As, and Hg. Significantly higher concentrations of trace metals were found in clams from the mangrove mudflats compared to those from the aquaculture ponds. The sources of trace metals in the clams were primarily from organic fertilizer, whereas those in the shrimp were from contaminated sediment. The results of geo-accumulation index and the ecological risk assessment indicated that the aquaculture ponds near the mangrove wetlands in this subtropical estuary posed a special risk of endogenous and exogenous trace metal pollution to nearby systems. Copyright © 2017 Elsevier Ltd. All rights reserved.

Recovery from TBT pollution in English Channel environments: A problem solved?

PubMed

Langston, W J; Pope, N D; Davey, M; Langston, K M; O' Hara, S C M; Gibbs, P E; Pascoe, P L

2015-06-30

Following recognition of effects in the 1980s, tributyltin (TBT) has been monitored at sites in the English Channel to evaluate the prognosis for biota - spanning the introduction of restrictions on TBT use on small boats and the recent phase-out on the global fleet. We describe how persistence and impact of TBT in clams Scrobicularia plana has changed during this period in Southampton Water and Poole Harbour. TBT contamination (and loss) in water, sediment and clams reflects the abundance and type of vessel activity: half-times in sediment (up to 8y in Poole, 33y in Southampton) are longest near commercial shipping. Recovery of clam populations - slowest in TBT-contaminated deposits - provides a useful biological measure of legislative efficacy in estuaries. On rocky shores, recovery from imposex in Nucella lapillus is evident at many sites but, near ports, is prolonged by shipping impacts, including sediment legacy, for example, in the Fal. Copyright © 2014 Elsevier Ltd. All rights reserved.

Acid secretion by the boring organ of the burrowing giant clam, Tridacna crocea.

PubMed

Hill, Richard W; Armstrong, Eric J; Inaba, Kazuo; Morita, Masaya; Tresguerres, Martin; Stillman, Jonathon H; Roa, Jinae N; Kwan, Garfield T

2018-06-01

The giant clam Tridacna crocea , native to Indo-Pacific coral reefs, is noted for its unique ability to bore fully into coral rock and is a major agent of reef bioerosion. However, T. crocea 's mechanism of boring has remained a mystery despite decades of research. By exploiting a new, two-dimensional pH-sensing technology and manipulating clams to press their presumptive boring tissue (the pedal mantle) against pH-sensing foils, we show that this tissue lowers the pH of surfaces it contacts by greater than or equal to 2 pH units below seawater pH day and night. Acid secretion is likely mediated by vacuolar-type H + -ATPase, which we demonstrate (by immunofluorescence) is abundant in the pedal mantle outer epithelium. Our discovery of acid secretion solves this decades-old mystery and reveals that, during bioerosion, T. crocea can liberate reef constituents directly to the soluble phase, rather than producing sediment alone as earlier assumed. © 2018 The Author(s).

Effect of the Combined Addition of Y and Ti on the Second Phase and Mechanical Properties of China Low-Activation Martensitic Steel

NASA Astrophysics Data System (ADS)

Zhang, Yangpeng; Zhan, Dongping; Qi, Xiwei; Jiang, Zhouhua; Zhang, Huishu

2018-05-01

In this study, approximately 0.35% Ti and two different Y contents were added to China low-activation martensitic (CLAM) steel during melting in a vacuum induction melting furnace. Scanning electron microscopy, transmission electron microscopy, x-ray diffraction, tensile tests, and Charpy impact tests were used to investigate the effects of the combined addition of Y and Ti on the second phase and mechanical properties. The results indicated that Y and Fe formed the large intermetallic compound Fe-Y; the compound easily aggregated in the grain boundaries and exhibited the strength of CLAM steel. Ti did not combine with Y to form the Y-Ti-O phase; however, it could combine with Ta and W to form MC precipitates, which were generally in the 20-50 nm size range. The CLAM steel with a higher Y content exhibited lower yield and tensile strengths at room temperature, with both steels yielding almost identical strengths at 600 °C.

Removal of methyl orange and methylene blue dyes from aqueous solution using lala clam (Orbicularia orbiculata) shell

NASA Astrophysics Data System (ADS)

Eljiedi, Arwa Alseddig Ahmed; Kamari, Azlan

2017-05-01

Textile effluents are considered as potential sources of water pollution because they contain toxic dyes. In the present study, lala clam shell was used as an alternative low-cost adsorbent for the removal of two harmful dyes, namely methyl orange (MO) and methylene blue (MB) from aqueous solution. Batch adsorption studies were carried out by varying experimental parameters such as solution pH, initial concentration and adsorbent dosage. The optimum pH values for MO and MB removal were pH 2.0 and pH 8.0, respectively. At an initial MO and MB concentration of 20 mg/L, the maximum removal percentage of MO and MB were 18.9 % and 81.3 %, respectively. The adsorption equilibrium data were correlated with both Langmuir and Freundlich isotherm models. The biomass adsorbent was characterised using Field Emission Scanning Electron Microscope (FESEM) and Fourier Transform Infrared Spectrometer (FTIR). Results from this study suggest that lala clam shell, a fishery waste, can be beneficial for water treatment.

Comparative Studies on the Toxicokinetics of Benzo[a]pyrene in Pinctada martensii and Perna viridis.

PubMed

Wang, Haihua; Cui, Lili; Cheng, Huamin; Zhang, Yu; Diao, Xiaoping; Wang, Jun

2017-05-01

Research on the kinetics of Benzo[a]pyrene (B[a]P) bioaccumulation in the clam Pinctada martensii and mussel Perna viridis showed that the initial rate of uptake was directly related to the PAH concentrations in the ambient environment. The uptake and depuration rate constants were different at the four B[a]P exposure levels, which indicated that the toxicokinetic rate constants mainly depended on the exposure levels of pollutants to the environment. In addition, the uptake rate constants of B[a]P were higher than the depuration rate constants in the entire experiment. The comparison demonstrated that mussels release B[a]P more rapidly than clams. The bioconcentration factors (BCFs) of B[a]P varied from 3335 to 12892 in the clam and 2373-6235 in the mussel. These findings on the bioaccumulation kinetics for petroleum hydrocarbons, in association with the critical body residue, will be valuable when choosing sensitive organisms to assess the potential ecotoxicological risk to the marine environment.

Effect of the Combined Addition of Y and Ti on the Second Phase and Mechanical Properties of China Low-Activation Martensitic Steel

NASA Astrophysics Data System (ADS)

Zhang, Yangpeng; Zhan, Dongping; Qi, Xiwei; Jiang, Zhouhua; Zhang, Huishu

2018-04-01

In this study, approximately 0.35% Ti and two different Y contents were added to China low-activation martensitic (CLAM) steel during melting in a vacuum induction melting furnace. Scanning electron microscopy, transmission electron microscopy, x-ray diffraction, tensile tests, and Charpy impact tests were used to investigate the effects of the combined addition of Y and Ti on the second phase and mechanical properties. The results indicated that Y and Fe formed the large intermetallic compound Fe-Y; the compound easily aggregated in the grain boundaries and exhibited the strength of CLAM steel. Ti did not combine with Y to form the Y-Ti-O phase; however, it could combine with Ta and W to form MC precipitates, which were generally in the 20-50 nm size range. The CLAM steel with a higher Y content exhibited lower yield and tensile strengths at room temperature, with both steels yielding almost identical strengths at 600 °C.

Characterization of transposable elements in the ectomycorrhizal fungus Laccaria bicolor.

PubMed

Labbé, Jessy; Murat, Claude; Morin, Emmanuelle; Tuskan, Gerald A; Le Tacon, François; Martin, Francis

2012-01-01

The publicly available Laccaria bicolor genome sequence has provided a considerable genomic resource allowing systematic identification of transposable elements (TEs) in this symbiotic ectomycorrhizal fungus. Using a TE-specific annotation pipeline we have characterized and analyzed TEs in the L. bicolor S238N-H82 genome. TEs occupy 24% of the 60 Mb L. bicolor genome and represent 25,787 full-length and partial copy elements distributed within 171 families. The most abundant elements were the Copia-like. TEs are not randomly distributed across the genome, but are tightly nested or clustered. The majority of TEs exhibits signs of ancient transposition except some intact copies of terminal inverted repeats (TIRS), long terminal repeats (LTRs) and a large retrotransposon derivative (LARD) element. There were three main periods of TE expansion in L. bicolor: the first from 57 to 10 Mya, the second from 5 to 1 Mya and the most recent from 0.5 Mya ago until now. LTR retrotransposons are closely related to retrotransposons found in another basidiomycete, Coprinopsis cinerea. This analysis 1) represents an initial characterization of TEs in the L. bicolor genome, 2) contributes to improve genome annotation and a greater understanding of the role TEs played in genome organization and evolution and 3) provides a valuable resource for future research on the genome evolution within the Laccaria genus.

Bandoniozyma gen. nov., a Genus of Fermentative and Non-Fermentative Tremellaceous Yeast Species

PubMed Central

Landell, Melissa Fontes; Crestani, Juliana; Pagnocca, Fernando Carlos; Sette, Lara Durães; Passarini, Michel Rodrigo Zambrano; Rosa, Carlos Augusto; Brandão, Luciana R.; Pimenta, Raphael S.; Ribeiro, José Roberto; Garcia, Karina Marques; Lee, Ching-Fu; Suh, Sung-Oui; Péter, Gábor; Dlauchy, Dénes; Fell, Jack W.; Scorzetti, Gloria; Theelen, Bart; Vainstein, Marilene H.

2012-01-01

Background Independent surveys across the globe led to the proposal of a new basidiomycetous yeast genus within the Bulleromyces clade of the Tremellales, Bandoniozyma gen. nov., with seven new species. Methodology/Principal Findings The species were characterized by multiple methods, including the analysis of D1/D2 and ITS nucleotide sequences, and morphological and physiological/biochemical traits. Most species can ferment glucose, which is an unusual trait among basidiomycetous yeasts. Conclusions/Significance In this study we propose the new yeast genus Bandoniozyma, with seven species Bandoniozyma noutii sp. nov. (type species of genus; CBS 8364T  =  DBVPG 4489T), Bandoniozyma aquatica sp. nov. (UFMG-DH4.20T  =  CBS 12527T  =  ATCC MYA-4876T), Bandoniozyma complexa sp. nov. (CBS 11570T  =  ATCC MYA-4603T  =  MA28aT), Bandoniozyma fermentans sp. nov. (CBS 12399T  =  NU7M71T  =  BCRC 23267T), Bandoniozyma glucofermentans sp. nov. (CBS 10381T  =  NRRL Y-48076T  =  ATCC MYA-4760T  =  BG 02-7-15-015A-1-1T), Bandoniozyma tunnelae sp. nov. (CBS 8024T  =  DBVPG 7000T), and Bandoniozyma visegradensis sp. nov. (CBS 12505T  =  NRRL Y-48783T  =  NCAIM Y.01952T). PMID:23056233

Early evolution of the angiosperm clade Asteraceae in the Cretaceous of Antarctica.

PubMed

Barreda, Viviana D; Palazzesi, Luis; Tellería, Maria C; Olivero, Eduardo B; Raine, J Ian; Forest, Félix

2015-09-01

The Asteraceae (sunflowers and daisies) are the most diverse family of flowering plants. Despite their prominent role in extant terrestrial ecosystems, the early evolutionary history of this family remains poorly understood. Here we report the discovery of a number of fossil pollen grains preserved in dinosaur-bearing deposits from the Late Cretaceous of Antarctica that drastically pushes back the timing of assumed origin of the family. Reliably dated to ∼76-66 Mya, these specimens are about 20 million years older than previously known records for the Asteraceae. Using a phylogenetic approach, we interpreted these fossil specimens as members of an extinct early diverging clade of the family, associated with subfamily Barnadesioideae. Based on a molecular phylogenetic tree calibrated using fossils, including the ones reported here, we estimated that the most recent common ancestor of the family lived at least 80 Mya in Gondwana, well before the thermal and biogeographical isolation of Antarctica. Most of the early diverging lineages of the family originated in a narrow time interval after the K/P boundary, 60-50 Mya, coinciding with a pronounced climatic warming during the Late Paleocene and Early Eocene, and the scene of a dramatic rise in flowering plant diversity. Our age estimates reduce earlier discrepancies between the age of the fossil record and previous molecular estimates for the origin of the family, bearing important implications in the evolution of flowering plants in general.

Karyotype Stability and Unbiased Fractionation in the Paleo-Allotetraploid Cucurbita Genomes.

PubMed

Sun, Honghe; Wu, Shan; Zhang, Guoyu; Jiao, Chen; Guo, Shaogui; Ren, Yi; Zhang, Jie; Zhang, Haiying; Gong, Guoyi; Jia, Zhangcai; Zhang, Fan; Tian, Jiaxing; Lucas, William J; Doyle, Jeff J; Li, Haizhen; Fei, Zhangjun; Xu, Yong

2017-10-09

The Cucurbita genus contains several economically important species in the Cucurbitaceae family. Here, we report high-quality genome sequences of C. maxima and C. moschata and provide evidence supporting an allotetraploidization event in Cucurbita. We are able to partition the genome into two homoeologous subgenomes based on different genetic distances to melon, cucumber, and watermelon in the Benincaseae tribe. We estimate that the two diploid progenitors successively diverged from Benincaseae around 31 and 26 million years ago (Mya), respectively, and the allotetraploidization happened at some point between 26 Mya and 3 Mya, the estimated date when C. maxima and C. moschata diverged. The subgenomes have largely maintained the chromosome structures of their diploid progenitors. Such long-term karyotype stability after polyploidization has not been commonly observed in plant polyploids. The two subgenomes have retained similar numbers of genes, and neither subgenome is globally dominant in gene expression. Allele-specific expression analysis in the C. maxima × C. moschata interspecific F 1 hybrid and their two parents indicates the predominance of trans-regulatory effects underlying expression divergence of the parents, and detects transgressive gene expression changes in the hybrid correlated with heterosis in important agronomic traits. Our study provides insights into polyploid genome evolution and valuable resources for genetic improvement of cucurbit crops. Copyright © 2017 The Author. Published by Elsevier Inc. All rights reserved.

Phylogeography of Liquidambar styraciflua (Altingiaceae) in Mesoamerica: survivors of a Neogene widespread temperate forest (or cloud forest) in North America?

PubMed Central

Ruiz-Sanchez, Eduardo; Ornelas, Juan Francisco

2014-01-01

We investigate the genetic variation between populations of the American sweetgum (Liquidambar styraciflua), a tree species with a disjunct distribution between northeastern Texas and Mexico, by analyzing sequences of two chloroplast DNA plastid regions in Mesoamerica. Our results revealed phylogeographical structure, with private haplotypes distributed in unique environmental space at either side of the Trans-Mexican Volcanic Belt, and a split in the absence of gene flow dating back ca. 4.2–1.4 million years ago (MYA). Species distribution modeling results fit a model of refugia along the Gulf and Atlantic coasts but the present ranges of US and Mesoamerican populations persisted disjunct during glacial/interglacial cycles. Divergence between the US and Mesoamerican (ca. 8.4–2.8 MYA) populations of L. styraciflua and asymmetrical gene flow patterns support the hypothesis of a long-distance dispersal during the Pliocene, with fragmentation since the most recent glacial advance (120,000 years BP) according to coalescent simulations and high effective migration rates from Mesoamerica to the USA and close to zero in the opposite direction. Our findings implicate the Trans-Mexican Volcanic Belt as a porous barrier driving genetic divergence of L. styraciflua, corresponding with environmental niche differences, during the Pliocene to Quaternary volcanic arc episode 3.6 MYA, and a Mesoamerican origin of populations in the USA. PMID:24634718

Characterization of Transposable Elements in the Ectomycorrhizal Fungus Laccaria bicolor

DOE Office of Scientific and Technical Information (OSTI.GOV)

Labbe, Jessy L; Murat, Claude; Morin, Emmanuelle

2012-01-01

Background: The publicly available Laccaria bicolor genome sequence has provided a considerable genomic resource allowing systematic identification of transposable elements (TEs) in this symbiotic ectomycorrhizal fungus. Using a TEspecific annotation pipeline we have characterized and analyzed TEs in the L. bicolor S238N-H82 genome. Methodology/Principal Findings: TEs occupy 24% of the 60 Mb L. bicolor genome and represent 25,787 full-length and partial copy elements distributed within 171 families. The most abundant elements were the Copia-like. TEs are not randomly distributed across the genome, but are tightly nested or clustered. The majority of TEs exhibits signs of ancient transposition except some intactmore » copies of terminal inverted repeats (TIRS), long terminal repeats (LTRs) and a large retrotransposon derivative (LARD) element. There were three main periods of TE expansion in L. bicolor: the first from 57 to 10 Mya, the second from 5 to 1 Mya and the most recent from 0.5 Mya ago until now. LTR retrotransposons are closely related to retrotransposons found in another basidiomycete, Coprinopsis cinerea. Conclusions: This analysis 1) represents an initial characterization of TEs in the L. bicolor genome, 2) contributes to improve genome annotation and a greater understanding of the role TEs played in genome organization and evolution and 3) provides a valuable resource for future research on the genome evolution within the Laccaria genus.« less

Metabolic physiology of the invasive clam, Potamocorbula amurensis: the interactive role of temperature, salinity, and food availability.

PubMed

Miller, Nathan A; Chen, Xi; Stillman, Jonathon H

2014-01-01

In biological systems energy serves as the ultimate commodity, often determining species distributions, abundances, and interactions including the potential impact of invasive species on native communities. The Asian clam Potamocorbula amurensis invaded the San Francisco Estuary (SFE) in 1986 and is implicated in the decline of native fish species through resource competition. Using a combined laboratory/field study we examined how energy expenditure in this clam is influenced by salinity, temperature and food availability. Measures of metabolism were made at whole organism (metabolic rate) and biochemical (pyruvate kinase (PK) and citrate synthase (CS) enzyme activities) levels. We found in the field, over the course of a year, the ratio of PK to CS was typically 1.0 suggesting that aerobic and fermentative metabolism were roughly equivalent, except for particular periods characterized by low salinity, higher temperatures, and intermediate food availabilities. In a 30-day laboratory acclimation experiment, however, neither metabolic rate nor PK:CS ratio was consistently influenced by the same variables, though the potential for fermentative pathways did predominate. We conclude that in field collected animals, the addition of biochemical measures of energetic state provide little additional information to the previously measured whole organism metabolic rate. In addition, much of the variation in the laboratory remained unexplained and additional variables, including reproductive stage or body condition may influence laboratory-based results. Further study of adult clams must consider the role of organismal condition, especially reproductive state, in comparisons of laboratory experiments and field observations.

Total and inorganic arsenic in Mid-Atlantic marine fish and shellfish and implications for fish advisories.

PubMed

Greene, Richard; Crecelius, Eric

2006-10-01

Sampling was conducted in 2002 to determine the total concentration and chemical speciation of arsenic in several marine fish and shellfish species collected from the Delaware Inland Bays and the Delaware Estuary, both of which are important estuarine waterbodies in the US Mid-Atlantic region that support recreational and commercial fishing. Edible meats from summer flounder (Paralicthys dentatus), striped bass (Marone saxatilis), Atlantic croaker (Micropogonias undulates), and hard clam (Mercenaria mercenaria) were tested. Total arsenic was highest in summer flounder, followed by hard clam, then striped bass, and finally, Atlantic croaker. Total arsenic was higher in summer flounder collected during the spring, as these fish migrated into the Inland Bays from the continental shelf, compared with levels in summer flounder collected during the fall, after these fish had spent the summer in the Inland Bays. Similarly, striped bass collected in the early spring close to the ocean had higher total arsenic levels compared with levels detected in striped bass collected later during the year in waters with lower salinity. Speciation of arsenic revealed low concentrations (0.00048-0.02 microg/g wet wt) of toxic inorganic arsenic. Dimethylarsinic acid was more than an order of magnitude greater in hard clam meats than in the other species tested, a finding that was attributed to arsenic uptake by phytoplankton and subsequent dietary uptake by the clam. Risk assessment using the inorganic arsenic concentrations was used to conclude that a fish consumption advisory is not warranted.

Dynamic changes in the accumulation of metabolites in brackish water clam Corbicula japonica associated with alternation of salinity.

PubMed

Koyama, Hiroki; Okamoto, Seiji; Watanabe, Naoki; Hoshino, Naoshige; Jimbo, Mitsuru; Yasumoto, Ko; Watabe, Shugo

2015-03-01

The brackish water clam Corbicula japonica inhabits rivers and brackish waters throughout Japan where the major fishing grounds in the Ibaraki Prefecture, Japan, are located at the Hinuma Lake and Hinuma River. Water salinity in the Lake Hinuma is low and stable due to the long distance from the Pacific Ocean, whereas that in the downstream of the river varies daily due to a strong effect of tidal waters. In the present study, we dissected the gill and foot muscle of brackish water clam collected from these areas, and subjected them to metabolome analysis by capillary electrophoresis-time-of-flight mass spectrometry. More than 200 metabolites including free amino acids, peptides and organic acids were identified, and their amounts from the foot muscle tend to be higher than those from the gill. The principal component analysis revealed that the amount of each metabolite was different among sampling areas and between the gill and foot muscle, whereas no apparent differences were observed between male and female specimens. When the metabolites in the female clam at high salinity were compared with those at low salinity, concentrations of β-alanine, choline, γ-aminobutyric acid, ornithine and glycine betaine were found to be changed in association with salinity. We also compared various metabolites in relation to metabolic pathways, suggesting that many enzymes were involved in their changes depending on salinity. Copyright © 2014 Elsevier Inc. All rights reserved.

Bioavailability and toxicity of metals from a contaminated sediment by acid mine drainage: linking exposure-response relationships of the freshwater bivalve Corbicula fluminea to contaminated sediment.

PubMed

Sarmiento, Aguasanta M; Bonnail, Estefanía; Nieto, José Miguel; DelValls, Ángel

2016-11-01

Streams and rivers strongly affected by acid mine drainage (AMD) have legal vacuum in terms of assessing the water toxicity, since the use of conventional environmental quality biomarkers is not possible due to the absence of macroinvertebrate organisms. The Asian clam Corbicula fluminea has been widely used as a biomonitor of metal contamination by AMD in freshwater systems. However, these clams are considered an invasive species in Spain and the transplantation in the field study is not allowed by the Environmental Protection Agency. To evaluate the use of the freshwater bivalve C. fluminea as a potential biomonitor for sediments contaminated by AMD, the metal bioavailability and toxicity were investigated in laboratory by exposure of clams to polluted sediments for 14 days. The studied sediments were classified as slightly contaminated with As, Cr, and Ni; moderately contaminated with Co; considerably contaminated with Pb; and heavily contaminated with Cd, Zn, and specially Cu, being reported as very toxic to Microtox. On the fourth day of the exposure, the clams exhibited an increase in concentration of Ga, Ba, Sb, and Bi (more than 100 %), followed by Co, Ni, and Pb (more than 60 %). After the fourth day, a decrease in concentration was observed for almost all metals studied except Ni. An allometric function was used to determine the relationship between the increases in metal concentration in soft tissue and the increasing bioavailable metal concentrations in sediments.

Discovery of 5R-lipoxygenase activity in oocytes of the surf clam, Spisula solidissima.

PubMed

Hada, T; Swift, L L; Brash, A R

1997-06-02

Arachidonic acid and 5-hydroxyeicosatetraenoic acid (5-HETE) are reported to induce reinitiation of meiosis in oocytes of the surf clam Spisula sachalinensis from the Sea of Japan (Varaksin et al., Comp. Biochem. Physiol. 101C, 627-630 (1992). As the Atlantic surf clam Spisula solidissima is a commonly used model for the study of meiosis reinitiation, we examined these cells for the possible occurrence of lipoxygenases and for the bioactivity of the products. Incubation of [14C]arachidonic acid with homogenates of S. solidissima oocytes led to the formation of two major metabolites: 5R-HETE, a novel lipoxygenase product, and 8R-HETE. The products were identified by HPLC, uv spectroscopy, and GC-MS. The corresponding hydroperoxy fatty acids, the primary lipoxygenase products, were isolated from incubations of ammonium sulfate fractionated oocyte cytosol. Arachidonic and eicosapentaenoic acids were identified as constituents of S. solidissima oocyte lipids and the free acids were equally good lipoxygenase substrates. We examined the activity of C18 and C20 polyunsaturated fatty acids and their lipoxygenase products on meiosis reinitiation in Spisula solidissima oocytes, using serotonin and ionophore A23187 as positive controls. The fatty acids and their derivatives were inactive. We conclude that in the surf clam, (as in starfish), there are responding and non-responding species in regard to the maturation-inducing activity of the oocyte lipoxygenase products, and that the lipoxygenase has another, as yet uncharacterized, function in oocyte physiology.

Accumulation of trace elements, pesticides, and polychlorinated biphenyls in sediments and the clam Corbicula manilensis of the Apalachicola River, Florida

USGS Publications Warehouse

Elder, J.F.; Mattraw, H.C.

1984-01-01

A survey of trace element and synthetic organic compound concentrations in botton materials was conducted on the Apalachichola River in northwest Florida in 1979-80 as part of the Apalachicola River Quality Assessment. Substances analyzed included trace elements (predominantly heavy metals), organochlorine insecticides, organophosphorus insecticides, chlorinated phenoxy-acid herbicides, and polychlorinated biphenyls (PCBs). Three kinds of materials were surveyed: fine-grained sediments, whole-body tissue of the Asiatic clam Corbicula manilensis, and bottom-load organic detritus. No hazardous levels of any of the substances were found. Concentrations in the fine-grained sediments and clams were generally at least ten times lower than maximum limits considered safe for biota of aquatic systems. A comparison of trace-substance data from the Apalachicola River with data from Lake Seminole (upstream) and Apalachicola Bay (downstream) showed lower concentrations in riverine clams. Sediment concentrations in all parts of the system were comparable. Most trace substances in the Apalachicola River enter the river from the upstream part of the basin (the Chattahoochee and Flint Rivers in Georgia and Alabama) and from nonpoint sources throughout the basin. There are no major point discharges along the Apalachicola. Trend analysis was limited by the scope of the study, but did not reveal any spatial or temporal trends in concentrations of any of the substances analyzed. Concentrations of organic compounds and most metals in Corbicula manilensis did not correlate with those in sediments.

Assessment of relationship between rainfall and Escherichia coli in clams (Chamelea gallina) using the Bayes Factor.

PubMed

Ciccarelli, Cesare; Semeraro, Angela Marisa; Leinoudi, Melina; Trani, Vittoria Di; Murru, Sandra; Capocasa, Piero; Ciccarelli, Elena; Sacchini, Luca

2017-08-16

Consumption of bivalve shellfish harvested from water contaminated with sewage pollution presents a risk of human infections and targeting control measures require a good understanding of environmental factors influencing the transport and the fate of faecal contaminants within the hydrological catchments. Although there has been extensive development of regression models, the point of this paper, focused on the relationship between rainfall events and concentrations of Escherichia coli monitored in clams, was the use of a Bayesian approach, by the Bayes Factor. The study was conducted on clams harvested from the south coast of Marche Region (Italy), a coastal area impacted by continuous treated effluents, intermittent rainfalldependent untreated sewage spillage - as a consequence of stormwater overflowing - and rivers with an ephemeral flow regime. The work compared the different interpretation criteria of Bayes Factor, confirmed that E. coli concentrations in clams from the studied area varied in correlation with rainfall events, and demonstrated the effectiveness of Bayes Factor in the assessment of shellfish quality in coastal marine waters. However, it suggested that further investigations would be warranted to determine which environmental factors provide the better basis for accurate and timely predictions. Furthermore the gathered data could be useful, to the local authorities of Marche Region, in the definition of flexible monitoring programmes, taking into account the atmospheric events that could affect the correct functioning of sewage managing systems and the flow of tributary rivers.

The Whitish Inner Mantle of the Giant Clam, Tridacna squamosa, Expresses an Apical Plasma Membrane Ca2+-ATPase (PMCA) Which Displays Light-Dependent Gene and Protein Expressions

PubMed Central

Ip, Yuen K.; Hiong, Kum C.; Goh, Enan J. K.; Boo, Mel V.; Choo, Celine Y. L.; Ching, Biyun; Wong, Wai P.; Chew, Shit F.

2017-01-01

Giant clams live in symbiosis with extracellular zooxanthellae and display high rates of growth and shell formation (calcification) in light. Light-enhanced calcification requires an increase in the supply of Ca2+ to, and simultaneously an augmented removal of H+ from, the extrapallial fluid where shell formation occurs. We have obtained the complete coding cDNA sequence of Plasma Membrane Ca2+-ATPase (PMCA) from the thin and whitish inner mantle, which is in touch with the extrapallial fluid, of the giant clam Tridacna squamosa. The deduced PMCA sequence consisted of an apical targeting element. Immunofluorescence microscopy confirmed that PMCA had an apical localization in the shell-facing epithelium of the inner mantle, whereby it can actively secrete Ca2+ in exchange for H+. More importantly, the apical PMCA-immunofluorescence of the shell-facing epithelium of the inner mantle increased significantly after 12 h of exposure to light. The transcript and protein levels of PMCA/PMCA also increased significantly in the inner mantle after 6 or 12 h of light exposure. These results offer insights into a light-dependable mechanism of shell formation in T. squamosa and a novel explanation of light-enhanced calcification in general. As the inner mantle normally lacks light sensitive pigments, our results support a previous proposition that symbiotic zooxanthellae, particularly those in the colorful and extensible outer mantle, may act as light-sensing elements for the host clam. PMID:29066980

The Whitish Inner Mantle of the Giant Clam, Tridacna squamosa, Expresses an Apical Plasma Membrane Ca2+-ATPase (PMCA) Which Displays Light-Dependent Gene and Protein Expressions.

PubMed

Ip, Yuen K; Hiong, Kum C; Goh, Enan J K; Boo, Mel V; Choo, Celine Y L; Ching, Biyun; Wong, Wai P; Chew, Shit F

2017-01-01

Giant clams live in symbiosis with extracellular zooxanthellae and display high rates of growth and shell formation (calcification) in light. Light-enhanced calcification requires an increase in the supply of Ca 2+ to, and simultaneously an augmented removal of H + from, the extrapallial fluid where shell formation occurs. We have obtained the complete coding cDNA sequence of Plasma Membrane Ca 2+ -ATPase ( PMCA ) from the thin and whitish inner mantle, which is in touch with the extrapallial fluid, of the giant clam Tridacna squamosa . The deduced PMCA sequence consisted of an apical targeting element. Immunofluorescence microscopy confirmed that PMCA had an apical localization in the shell-facing epithelium of the inner mantle, whereby it can actively secrete Ca 2+ in exchange for H + . More importantly, the apical PMCA-immunofluorescence of the shell-facing epithelium of the inner mantle increased significantly after 12 h of exposure to light. The transcript and protein levels of PMCA /PMCA also increased significantly in the inner mantle after 6 or 12 h of light exposure. These results offer insights into a light-dependable mechanism of shell formation in T. squamosa and a novel explanation of light-enhanced calcification in general. As the inner mantle normally lacks light sensitive pigments, our results support a previous proposition that symbiotic zooxanthellae, particularly those in the colorful and extensible outer mantle, may act as light-sensing elements for the host clam.

MDA Ice Detection and Measurement Camera Development and Validation for NASA-KSC (2004-2007)

DTIC Science & Technology

2007-08-17

various densities, ice formed on metals, and ice made from Atlantic Ocean salt water that may be more representative of ice formed in the salt air... clam squ den app det n). a. d b. h so that they enough to support the Kaman sensor head without crushing. Some th throughout this process is... clam s, may be considered compensated for by the extra ice that can form on the edge of the test el. In such a case where there is no ice extending

Scheffersomyces parashehatae f.a., sp. nov., Scheffersomyces xylosifermentans f.a., sp. nov., Candida broadrunensis sp. nov. and Candida manassasensis sp. nov., novel yeasts associated with wood-ingesting insects, and their ecological and biofuel implications.

PubMed

Suh, Sung-Oui; Houseknecht, Janice L; Gujjari, Pushpa; Zhou, Jianlong J

2013-11-01

During a survey of yeasts associated with wood-ingesting insects, 69 strains in the Scheffersomyces clade and related taxa were isolated from passalid and tenebrionid beetles and the decayed wood inhabited by them. The majority of these yeasts was found to be capable of fermenting xylose, and was recognized as Scheffersomyces stipitis or its close relative Scheffersomyces illinoinensis, which are known to be associated with wood-decaying beetles and rotten wood. Yeasts in 'Scheffersomyces' ( = Candida) ergatensis and 'Scheffersomyces' ( = Candida) coipomoensis were also frequently isolated. The remaining six strains were identified as representing four novel species in the genera Scheffersomyces and Candida based on multilocus sequence analyses of nuclear rRNA genes and four protein-coding genes, as well as other taxonomic characteristics. Two xylose-fermenting species, Scheffersomyces parashehatae f.a., sp. nov. (type strain ATCC MYA-4653(T) = CBS 12535(T) = EH045(T); MycoBank MB805440) and Scheffersomyces xylosifermentans f.a., sp. nov. (type strain ATCC MYA-4859(T) = CBS 12540(T) = MY10-052(T); MycoBank MB805441), formed a clade with Scheffersomyces shehatae and related Scheffersomyces species. Interestingly, S. xylosifermentans can survive at 40 °C, which is a rare property among xylose-fermenting yeasts. Candida broadrunensis sp. nov. (type strain ATCC MYA-4650(T) = CBS 11838(T) = EH019(T); MycoBank MB805442) is a sister taxon of C. ergatensis, while Candida manassasensis sp. nov. (type strain ATCC MYA-4652(T) = CBS 12534(T) = EH030(T); MycoBank MB805443) is closely related to Candida palmioleophila in the Candida glaebosa clade. The multilocus DNA sequence comparisons in this study suggest that the genus Scheffersomyces needs to be circumscribed to the species near S. stipitis (type species) and S. shehatae that can be characterized by the ability to ferment xylose.

The strange case of East African annual fishes: aridification correlates with diversification for a savannah aquatic group?

PubMed

Dorn, Alexander; Musilová, Zuzana; Platzer, Matthias; Reichwald, Kathrin; Cellerino, Alessandro

2014-10-14

Annual Nothobranchius fishes are distributed in East and Southern Africa and inhabit ephemeral pools filled during the monsoon season. Nothobranchius show extreme life-history adaptations: embryos survive by entering diapause and they are the vertebrates with the fastest maturation and the shortest lifespan. The distribution of Nothobranchius overlaps with the East Africa Rift System. The geological and paleoclimatic history of this region is known in detail: in particular, aridification of East Africa and expansion of grassland habitats started 8 Mya and three humid periods between 3 and 1 Mya are superimposed on the longer-term aridification. These climatic oscillations are thought to have shaped evolution of savannah African mammals. We reconstructed the phylogeny of Nothobranchius and dated the different stages of diversification in relation to these paleoclimatic events. We sequenced one mitochondrial locus and five nuclear loci in 63 specimens and obtained a robust phylogeny. Nothobranchius can be divided in four geographically separated clades whose boundaries largely correspond to the East Africa Rift system. Statistical analysis of dispersal and vicariance identifies a Nilo-Sudan origin with southwards dispersion and confirmed that these four clades are the result of vicariance events In the absence of fossil Nothobranchius, molecular clock was calibrated using more distant outgroups (secondary calibration). This method estimates the age of the Nothobranchius genus to be 8.3 (6.0 - 10.7) My and the separation of the four clades 4.8 (2.7-7.0) Mya. Diversification within the clades was estimated to have started ~3 Mya and most species pairs were estimated to have an age of 0.5-1 My. The mechanism of Nothobranchius diversification was allopatric and driven by geographic isolation. We propose a scenario where diversification of Nothobranchius started in rough coincidence with aridification of East Africa, establishment of grassland habitats and the appearance of the typical African bovid fauna of the savannah. Although confidence intervals for the estimated ages of the four Nothobranchius clades are quite large, this scenario is compatible with the biology of extant Nothobranchius that are critically dependent on savannah habitats. Therefore, Nothobranchius diversification might have been shaped by the same paleoclimatic events that shaped African ungulate evolution.

Population subdivision of hydrothermal vent polychaete Alvinella pompejana across equatorial and Easter Microplate boundaries.

PubMed

Jang, Sook-Jin; Park, Eunji; Lee, Won-Kyung; Johnson, Shannon B; Vrijenhoek, Robert C; Won, Yong-Jin

2016-10-28

The Equator and Easter Microplate regions of the eastern Pacific Ocean exhibit geomorphological and hydrological features that create barriers to dispersal for a number of animals associated with deep-sea hydrothermal vent habitats. This study examined effects of these boundaries on geographical subdivision of the vent polychaete Alvinella pompejana. DNA sequences from one mitochondrial and eleven nuclear genes were examined in samples collected from ten vent localities that comprise the species' known range from 23°N latitude on the East Pacific Rise to 38°S latitude on the Pacific Antarctic Ridge. Multi-locus genotypes inferred from these sequences clustered the individual worms into three metapopulation segments - the northern East Pacific Rise (NEPR), southern East Pacific Rise (SEPR), and northeastern Pacific Antarctic Ridge (PAR) - separated by the Equator and Easter Microplate boundaries. Genetic diversity estimators were negatively correlated with tectonic spreading rates. Application of the isolation-with-migration (IMa2) model provided information about divergence times and demographic parameters. The PAR and NEPR metapopulation segments were estimated to have split roughly 4.20 million years ago (Mya) (2.42-33.42 Mya, 95 % highest posterior density, (HPD)), followed by splitting of the SEPR and NEPR segments about 0.79 Mya (0.07-6.67 Mya, 95 % HPD). Estimates of gene flow between the neighboring regions were mostly low (2 Nm < 1). Estimates of effective population size decreased with southern latitudes: NEPR > SEPR > PAR. Highly effective dispersal capabilities allow A. pompejana to overcome the temporal instability and intermittent distribution of active hydrothermal vents in the eastern Pacific Ocean. Consequently, the species exhibits very high levels of genetic diversity compared with many co-distributed vent annelids and mollusks. Nonetheless, its levels of genetic diversity in partially isolated populations are inversely correlated with tectonic spreading rates. As for many other vent taxa, this pioneering colonizer is similarly affected by local rates of habitat turnover and by major dispersal filters associated with the Equator and the Easter Microplate region.

Surviving the Messinian Salinity Crisis? Divergence patterns in the genus Dendropoma (Gastropoda: Vermetidae) in the Mediterranean Sea.

PubMed

Calvo, Marta; Alda, Fernando; Oliverio, Marco; Templado, José; Machordom, Annie

2015-10-01

Four genetically distinct clades were recently described under the name Dendropoma petraeum, a Mediterranean endemic vermetid gastropod. The aim of this work is to date the processes that drove to the diversification within this taxon and to relate them to the corresponding historical events occurred in the Mediterranean Sea. Sequences from mitochondrial and nuclear markers were obtained from specimens collected in 29 localities spanning over 4000km across the entire distribution range of D. petraeum species complex. The phylogenetic and coalescent-based analyses confirmed the four well-supported and largely differentiated lineages of D. petraeum, clearly delimited geographically along a west-east axis within the Mediterranean Sea: Western, Tyrrhenian-Sicilian, Ionian-Aegean and Levantine lineages. Divergence time estimates, obtained using a range of known substitution rates for other marine gastropods, indicated two main stages of diversification. In the first period (between 9.5 and 4.5mya), the ancestral D. petraeum diverged into the current four lineages. The most recent period occurred between 3.72 and 0.66mya in the late Pliocene-early Pleistocene, and included the main within-lineage diversification events. Therefore, if the divergence time between the major lineages of Dendropoma in the Mediterranean actually predated or coincided with the Messinian Salinity Crisis, then they should have survived to this dramatic period within the Mediterranean, as supported by Bayes Factors model comparison. Conversely, if the divergence started after the crisis, congruent with the idea that no true marine organism survived the Messinian Salinity Crisis, then our results indicate substitution rates of Dendropoma much higher than usual (5.16% per million years for COI, 3.04% for 16S). More recent climate changes seem to have conditioned the demographic history of each lineage differently. While Western and Tyrrhenian-Sicilian lineages both underwent an increase in their effective population sizes from 1.5 to 0.6mya coinciding with a long interglacial period, the Ionian-Aegean and Levantine lineages showed constant effective population sizes since 2-2.5mya, suggesting that these eastern lineages might represent small and relict populations surviving the subsequent Quaternary glaciations in isolated refugia. Copyright © 2015 Elsevier Inc. All rights reserved.

Molecular phylogeny and timing of diversification in South American Cynolebiini seasonal killifishes.

PubMed

Costa, Wilson J E M; Amorim, Pedro F; Mattos, José Leonardo O

2017-11-01

The rich biological diversity of South America has motivated a series of studies associating evolution of endemic taxa with the dramatic geologic and climatic changes that occurred during the Cainozoic. The organism here studied is the killifish tribe Cynolebiini, a group of seasonal fishes uniquely inhabiting temporary pools formed during the rainy seasons. The Cynolebiini are found in open vegetation areas inserted in the main tropical and subtropical South American phytogeographical regions east of the Andes. Here, we present the first molecular phylogeny sampling all the eight genera of the Cynolebiini, using fragments of two mitochondrial and four nuclear genes for 35 species of Cynolebiini plus 19 species as outgroups. The dataset, 4448bp, was analysed under Bayesian and maximum likelihood approaches, providing a relatively well solved tree, which retrieves high support values for the Cynolebiini and most included clades. The resulting tree was used to estimate the time of divergence in included lineages using two cyprinodontiform fossils to calibrate the tree. We further investigated historical biogeography through the likelihood-based DEC model. Our estimates indicate that divergence between the clades comprising New World and Old World aplocheiloids occurred during the Eocene, about 50Mya, much more recent than the Gondwanan fragmentation scenario assumed in previous studies. This estimation is nearly synchronous to estimated splits involving other South American and African vertebrate clades, which have been explained by transoceanic dispersal through an ancient Atlantic island chain during the Palaeogene. We estimate that Cynolebiini split from its sister group Cynopoecilini in the Oligocene, about 25Mya and that Cynolebiini started to diversify giving origin to the present genera during the Miocene, about 20-14Mya. The Cynolebiini had an ancestral origin in the Atlantic Forest and probably were not present in the open vegetation formations of central and northeastern South America until the Middle Miocene, when expansion of dry open vegetation was favoured by cool temperatures and strike seasonality. Initial splitting between the genera Cynolebias and Simpsonichthys during the Miocene (about 14Mya) is attributed to the uplift of the Central Brazilian Plateau. Copyright © 2017 Elsevier Inc. All rights reserved.

Near-Field Receiving Water Monitoring of Trace Metals and a Benthic Community Near the Palo Alto Regional Water Quality Control Plant in South San Francisco Bay, California: 2006

USGS Publications Warehouse

Lorenzi, Allison H.; Cain, Daniel J.; Parcheso, Francis; Thompson, Janet K.; Luoma, Samuel N.; Hornberger, Michelle I.; Dyke, Jessica; Cervantes, Raul; Shouse, Michelle K.

2007-01-01

Results reported herein include trace element concentrations in sediment and in the clam Macoma petalum (formerly reported as Macoma balthica (Cohen and Carlton 1995)), clam reproductive activity, and benthic macroinvertebrate community structure for a mudflat one kilometer south of the discharge of the Palo Alto Regional Water Quality Control Plant in South San Francisco Bay. This report includes data collected for the period January 2006 to December 2006, and extends a critical long-term biogeochemical record dating back to 1974. These data serve as the basis for the City of Palo Alto's Near-Field Receiving Water Monitoring Program, initiated in 1994. Metal concentrations in both sediments and clam tissue during 2006 were consistent with results observed since 1990. Most notably, copper and silver concentrations in sediment and clam tissue increased in the last year but the values remain well within range of past data. Other metals such as chromium, nickel, vanadium, and zinc remained relatively constant throughout the year except for maximum values generally occurring in winter months (January-March). Mercury levels in sediment and clam tissue were some of the lowest seen on record. Conversely, selenium concentrations reached a maximum level but soon returned to baseline levels. In all, metal concentrations in sediments and tissue remain within past findings. There are no obvious directional trends (increasing or decreasing). Analyses of the benthic-community structure of a mudflat in South San Francisco Bay over a 31-year period show that changes in the community have occurred concurrent with reduced concentrations of metals in the sediment and in the tissues of the biosentinel clam M. petalum from the same area. Analysis of the reproductive activity of M. petalum shows increases in reproductive activity concurrent with the decline in metal concentrations in the tissues of this organism. Reproductive activity is presently stable, with almost all animals initiating reproduction in the fall and spawning the following spring of most years. The community has shifted from being dominated by several opportunistic species to a community where the species are more similar in abundance, a pattern that suggests a more stable community that is subjected to less stress. In addition, two of the opportunistic species (Ampelisca abdita and Streblospio benedicti) that brood their young and live on the surface of the sediment in tubes, have shown a continual decline in dominance coincident with the decline in metals. Heteromastus filiformis, a subsurface polychaete worm that lives in the sediment, consumes sediment and organic particles residing in the sediment, and reproduces by laying their eggs on or in the sediment, has shown a concurrent increase in dominance. These changes in species dominance reflect a change in the community from one dominated by surface dwelling, brooding species to one with species with varying life history characteristics. For the first time since its invasion in 1986, the non-indigenous filter-feeding clam Corbula (Potamocorbula) amurensis has shown up in small, but persistent, numbers in the benthic community.

Lipid characteristics of a seep clam, Mesolinga soliditesta: Comparison with those of two coastal clams, Meretrix lamarckii and Ruditapes philippinarum

NASA Astrophysics Data System (ADS)

Saito, Hiroaki; Murata, Masakazu; Hashimoto, Jun

2014-12-01

The lipids and fatty acids of two coastal clams, Meretrix lamarckii and Ruditapes philippinarum, collected at 5 and 1 m of depth, and a seep clam, Mesolinga soliditesta, collected at 331 m of depth, were examined to assess their lipid physiology and trophic relationship with their diets. The major fatty acids of lipids in Mer. lamarckii and R. philippinarum were 14:0, 16:0, 18:0, 16:1n-7, 18:1n-9, 18:1n-7, 20:4n-6, 20:5n-3, and 22:6n-3, while those of Mes. soliditesta were 16:0, 18:0, 16:1n-7, 18:1n-7, 20:1n-7, 20:1n-13, 20:2n-7, 15 (Δ5,13-20:2), and 22:2n-7,15 (Δ7,15-22:2). The major polyunsaturated fatty acids (PUFAs) in the Mer. lamarckii and R. philippinarum lipids consisted of various n-3 and n-6 long-chain (LC) PUFAs, such as 20:4n-6, 22:4n-6, 20:5n-3, 22:5n-3, and 22:6n-3, while those in Mes. soliditesta muscle and viscera included various n-4 family PUFAs (18:3n-7, 18:4n-4, 20:2n-7, and 20:3n-7) with limited kinds of n-3 and n-6 PUFAs (20:4n-6 and 20:5n-3). These findings indicate that, like other common shallow-water clams, Mer. lamarckii and R. philippinarum ingest phytoplanktonic n-3 and n-6 LC-PUFAs, whereas Mes. soliditesta utilizes limited kinds of n-3 and n-6 LC-PUFAs. In contrast to the other two bivalves species, Mes. soliditesta yielded various n-4 and n-7 (n-4/n-7) PUFAs, which were assimilated from the chemosynthetic symbionts. The high diversity of PUFAs contained in the Mes. soliditesta lipids (n-3, n-4 family, and n-6 PUFAs) suggests that this species mixotrophically utilized both photosynthetic products and vent chemosynthetic nutrition derived from geothermal energy.

Modelling habitat associations with fingernail clam (Family: Sphaeriidae) counts at multiple spatial scales using hierarchical count models

USGS Publications Warehouse

Gray, B.R.; Haro, R.J.; Rogala, J.T.; Sauer, J.S.

2005-01-01

1. Macroinvertebrate count data often exhibit nested or hierarchical structure. Examples include multiple measurements along each of a set of streams, and multiple synoptic measurements from each of a set of ponds. With data exhibiting hierarchical structure, outcomes at both sampling (e.g. Within stream) and aggregated (e.g. Stream) scales are often of interest. Unfortunately, methods for modelling hierarchical count data have received little attention in the ecological literature. 2. We demonstrate the use of hierarchical count models using fingernail clam (Family: Sphaeriidae) count data and habitat predictors derived from sampling and aggregated spatial scales. The sampling scale corresponded to that of a standard Ponar grab (0.052 m(2)) and the aggregated scale to impounded and backwater regions within 38-197 km reaches of the Upper Mississippi River. Impounded and backwater regions were resampled annually for 10 years. Consequently, measurements on clams were nested within years. Counts were treated as negative binomial random variates, and means from each resampling event as random departures from the impounded and backwater region grand means. 3. Clam models were improved by the addition of covariates that varied at both the sampling and regional scales. Substrate composition varied at the sampling scale and was associated with model improvements, and reductions (for a given mean) in variance at the sampling scale. Inorganic suspended solids (ISS) levels, measured in the summer preceding sampling, also yielded model improvements and were associated with reductions in variances at the regional rather than sampling scales. ISS levels were negatively associated with mean clam counts. 4. Hierarchical models allow hierarchically structured data to be modelled without ignoring information specific to levels of the hierarchy. In addition, information at each hierarchical level may be modelled as functions of covariates that themselves vary by and within levels. As a result, hierarchical models provide researchers and resource managers with a method for modelling hierarchical data that explicitly recognises both the sampling design and the information contained in the corresponding data.

Molecular cloning and sequence analysis of heat shock proteins 70 (HSP70) and 90 (HSP90) and their expression analysis when exposed to benzo(a)pyrene in the clam Ruditapes philippinarum.

PubMed

Liu, Tong; Pan, Luqing; Cai, Yuefeng; Miao, Jingjing

2015-01-25

HSP70 and HSP90 are the most important heat shock proteins (HSPs), which play the key roles in the cell as molecular chaperones and may involve in metabolic detoxification. The present research has obtained full-length cDNAs of genes HSP70 and HSP90 from the clam Ruditapes philippinarum and studied the transcriptional responses of the two genes when exposed to benzo(a)pyrene (BaP). The full-length RpHSP70 cDNA was 2336bp containing a 5' untranslated region (UTR) of 51bp, a 3' UTR of 335bp and an open reading frame (ORF) of 1950bp encoding 650 amino acid residues. The full-length RpHSP90 cDNA was 2839bp containing a 107-bp 5' UTR, a 554-bp 3' UTR and a 2178-bp ORF encoding 726 amino acid residues. The deduced amino acid sequences of RpHSP70 and RpHSP90 shared the highest identity with the sequences of Paphia undulata, and the phylogenetic trees showed that the evolutions of RpHSP70 and RpHSP90 were almost in accord with the evolution of species. The RpHSP70 and RpHSP90 mRNA expressions were detected in all tested tissues in the adult clams (digestive gland, gill, adductor muscle and mantle) and the highest mRNA expression level was observed in the digestive gland compared to other tissues. Quantitative real-time RT-PCR analysis revealed that mRNA expression levels of the clam RpHSP70, RpHSP90 and other xenobiotic metabolizing enzymes (XMEs) (AhR, DD, GST, GPx) in the digestive gland of R. philippinarum were induced by benzo(a)pyrene (BaP) and the absolute expression levels of these genes showed a temporal and dose-dependent response. The results suggested that RpHSP70 and RpHSP90 were involved in the metabolic detoxification of BaP in the clam R. philippinarum. Copyright © 2014 Elsevier B.V. All rights reserved.

Ancient fish and recent invaders: white sturgeon Acipenser transmontanus diet response to invasive-species-mediated changes in a benthic prey assemblage

USGS Publications Warehouse

Zeug, Steven C; Brodsky, Annie; Kogut, Nina; Stewart, Robin; Merz, Joe

2014-01-01

Invasive organisms can have significant impacts on native species, and the San Francisco Estuary (SFE), California, USA, is one of the world's most invaded estuaries. Decline of native white sturgeon Acipenser transmontanus abundance in the SFE has been acknowledged, but underlying mechanisms are poorly understood. Invasion by the overbite clam Potamocorbula amurensis has drastically altered the SFE benthic prey community, yet little is known about how this change has affected sturgeon diets. We investigated changes in the diet of white sturgeon following the overbite clam invasion and subsequent shift in the SFE benthic prey assemblage. Gut content analysis was used to compare white sturgeon prey composition and importance between the pre- and post-invasion periods. Additionally, stable isotope analysis was employed to estimate the assimilation of prey items to sturgeon biomass. Overbite clams dominated diets in the post-invasion period, accounting for 82 to 93% of total volume. Stable isotope analysis confirmed the importance of this prey item, although their assimilated contribution to sturgeon biomass was estimated to be less (70 to 83%) than gut contents indicated. The frequency of fish in white sturgeon guts increased in the post-invasion period, and isotope analysis indicated relatively large contributions of fish to sturgeon biomass (3.7 to 19%). The trophic adaptability of white sturgeon has allowed them to exploit this new prey source (overbite clam). Future conservation and restoration efforts must consider a potentially destabilized food web given the large importance of a single prey item.

The impact of selection on population genetic structure in the clam Meretrix petechialis revealed by microsatellite markers.

PubMed

Lu, Xia; Wang, Hongxia; Li, Yan; Liu, Baozhong

2016-02-01

The aim of our work is to evaluate the impact of mass selection on genetic structure in artificially closed populations of the clam Meretrix petechialis. In the present study, we performed mass selection over four generations (from 2004 to 2010) on two clam populations [shell features of purple lines (SP) and black dots (SB)] and analyzed their temporal genetic variation and structure using microsatellite makers. The two closed populations originated from the natural Shandong population (SD); thus, a natural SD population (10SD) was used to detect the current genetic structure after 6 years of natural selection. The results showed that the genetic diversity of the four generations of SB and SP was gradually reduced but remained at relatively high levels (SB, A = 18.9.4-16.8, Ho = 0.7389-0.6971, and He = 0.8897-0.8591; SP, A = 20.0-17.8, Ho = 0.7512-0.7043, and He = 0.8938-0.8625), which has not been reduced compared with that of the 10SD population (A = 17.8, Ho = 0.6803, and He = 0.8302). The Ne estimates for the two populations were almost at the same levels as the actual numbers of parental individuals. In addition, a low inbreeding coefficient was detected in the two populations (SB, 0.00201-0.00639; SP, 0.00176-0.00541). Based on the results, the present mass selection has not made a large impact on the population genetic structure of the closed populations. The present investigation provides important information for the development of management strategies for genetic breeding of the clam.

Risk Assessment in Shellfish-Borne Outbreaks of Hepatitis A▿

PubMed Central

Pintó, Rosa M.; Costafreda, M. Isabel; Bosch, Albert

2009-01-01

In the present work, we aimed at determining the relationship between the hepatitis A virus (HAV) numbers in imported frozen coquina clams involved in two hepatitis outbreaks, as well as the risk for human health. Due to HAV unculturability, a standardized TaqMan real-time reverse transcription-PCR controlling the virus/nucleic acid extraction and enzyme efficiencies was employed to figure the exposure dose for clams responsible for hepatitis cases. HAV numbers were then employed to figure the risk of infection based on a dose-response model for echovirus 12. The estimated risk of infection after consumption of lightly cooked clams matched actual attack rates. Our data show that prospective monitoring of bivalve samples may fail to prevent the occurrence of outbreaks, since HAV was detected in 44% of samples directly associated with cases but was undetectable in samples that were randomly collected from the importers and belonged to the same batches. A correlation was nevertheless observed between the prevalence of hepatitis A cases in the harvesting areas and positive HAV isolation in clams, which points to the need to identify and prevent hazards rather than relying on random sampling of finished products to ensure safety. However, when evidence shows that a critical limit of viral contamination has been exceeded in the potential sources of contamination discharging into the shellfish-growing beds, quantitative virological analysis addressing quality assurance and quality control requirements should be performed with the bivalves. This work provides the first evidence of accurate HAV levels in shellfish involved in outbreaks that could be of use for risk assessment purposes. PMID:19820160

Biodynamic modeling of PCB uptake by Macoma balthica and Corbicula fluminea from sediment amended with activated carbon

USGS Publications Warehouse

McLeod, Pamela B.; Luoma, S.N.; Luthy, R.G.

2008-01-01

Activated carbon amendment was assessed in the laboratory as a remediation strategy for freshwater sediment contaminated with polychlorinated biphenyls (PCBs) from the Grasse River (near Massena, NY). Three end points were evaluated: aqueous equilibrium PCB concentration, uptake into semipermeable membrane devices (SPMDs), and 28-day bioaccumulation in the clam Corbicula fluminea. PCB uptake by water, SPMDs, and clams followed similar trends, with reductions increasing as a function of carbon dose. Average percent reductions in clam tissue PCBs were 67, 86, and 95% for activated carbon doses of 0.7, 1.3, and 2.5% dry wt, respectively. A biodynamic model that incorporates sediment geochemistry and dietary and aqueous uptake routes was found to agree well with observed uptake by C. fluminea in our laboratory test systems. Results from this study were compared to 28-day bioaccumulation experiments involving PCB-contaminated sediment from Hunters Point Naval Shipyard (San Francisco Bay, CA) and the clam Macoma balthica. Due to differences in feeding strategy, M. balthica deposit-feeds whereas C. fluminea filter-feeds, the relative importance of the aqueous uptake route is predicted to be much higher for C. fluminea than for M. balthica. Whereas M. balthica takes up approximately 90% of its body burden through sediment ingestion, C. fluminea only accumulates approximately 45% via this route. In both cases, results strongly suggest that it is the mass transfer of PCBs from native sediment to added carbon particles, not merely reductions in aqueous PCB concentrations, that effectively reduces PCB bioavailability and uptake by sediment-dwelling organisms. ?? 2008 American Chemical Society.

How well do we know the infaunal biomass of the continental shelf?

NASA Astrophysics Data System (ADS)

Powell, Eric N.; Mann, Roger

2016-03-01

Benthic infauna comprise a wide range of taxa of varying abundances and sizes, but large infaunal taxa are infrequently recorded in community surveys of the shelf benthos. These larger, but numerically rare, species may contribute disproportionately to biomass, however. We examine the degree to which standard benthic sampling gear and survey design provide an adequate estimate of the biomass of large infauna using the Atlantic surfclam, Spisula solidissima, on the continental shelf off the northeastern coast of the United States as a test organism. We develop a numerical model that simulates standard survey designs, gear types, and sampling densities to evaluate the effectiveness of vertically-dropped sampling gear (e.g., boxcores, grabs) for estimating density of large species. Simulations of randomly distributed clams at a density of 0.5-1 m-2 within an 0.25-km2 domain show that lower sampling densities (1-5 samples per sampling event) resulted in highly inaccurate estimates of clam density with the presence of clams detected in less than 25% of the sampling events. In all cases in which patchiness was present in the simulated clam population, surveys were prone to very large errors (survey availability events) unless a dense (e.g., 100-sample) sampling protocol was imposed. Thus, commercial quantities of surfclams could easily go completely undetected by any standard benthic community survey protocol using vertically-dropped gear. Without recourse to modern high-volume sampling gear capable of sampling many meters at a swath, such as hydraulic dredges, biomass of the continental shelf will be grievously underestimated if large infauna are present even at moderate densities.

Water-quality assessment of the Albemarle-Pamlico drainage basin, North Carolina and Virginia; trace elements in Asiatic clam (Corbicula fluminea) soft tissues and redbreast sunfish (Lepomis auritus) livers, 1992-93

USGS Publications Warehouse

Ruhl, P.M.; Smith, K.E.

1996-01-01

The analysis of potential contaminants in biological tissues is an important part of many water-quality assessment programs, including the National Water-Quality Assessment (NAWQA) Program. Tissue analyses often are used to provide information about (1) direct threats to ecosystem integrity, and (2) the occurrence and distribution of potential contaminants in the environment. During 1992-93, trace elements in Asiatic clam (Corbicula fluminea) soft tissues and redbreast sunfish (Lepomis auritus) livers were analyzed to obtain information about the occurrence and distribution of trace element contaminants in the Albemarle-Pamlico Drainage Basin of North Carolina and Virginia. The investigation was conducted as part of the NAWQA Program. All but 3 of the 22 trace elements that were analyzed were detected. Although all 10 of the U.S. Environmental Protection Agency (U.S. EPA) priority pollutants were detected in the tissues sampled, they were present in relatively low concentrations. Concentrations of U.S. EPA priority pollutants in Asiatic clams collected in the Albemarle-Pamlico Drainage Basin are similar to concentrations observed in other NAWQA study units in the southeastern United States. Mercury (a U.S. EPA priority pollutant) was widely detected, being present in 29 of 30 tissue samples, but concentrations did not exceed the FDA action level for mercury of a risk-based screening value for the general public. Mercury concentrations in Asiatic clams were similar to concentrations in other NAWQA study areas in the Southeast.

The aquatic turtle assemblage inhabiting a highly altered landscape in southeast Missouri

USGS Publications Warehouse

Glorioso, Brad M.; Vaughn, Allison J.; Waddle, J. Hardin

2010-01-01

Turtles are linked to energetic food webs as both consumers of plants and animals and prey for many species. Turtle biomass in freshwater systems can be an order of magnitude greater than that of endotherms. Therefore, declines in freshwater turtle populations can change energy transfer in freshwater systems. Here we report on a mark–recapture study at a lake and adjacent borrow pit in a relict tract of bottomland hardwood forest in the Mississippi River floodplain in southeast Missouri, which was designed to gather baseline data, including sex ratio, size structure, and population size, density, and biomass, for the freshwater turtle population. Using a variety of capture methods, we captured seven species of freshwater turtles (snapping turtle Chelydra serpentina; red-eared slider Trachemys scripta; southern painted turtle Chrysemys dorsalis; river cooter Pseudemys concinna; false map turtle Graptemys pseudogeographica; eastern musk turtle Sternotherus odoratus; spiny softshell Apalone spinifera) comprising four families (Chelydridae, Emydidae, Kinosternidae, Trinoychidae). With the exception of red-eared sliders, nearly all individuals captured were adults. Most turtles were captured by baited hoop-nets, and this was the only capture method that caught all seven species. The unbaited fyke net was very successful in the borrow pit, but only captured four of the seven species. Basking traps and deep-water crawfish nets had minimal success. Red-eared sliders had the greatest population estimate (2,675), density (205/ha), and biomass (178 kg/ha). Two species exhibited a sex-ratio bias: snapping turtles C. serpentina in favor of males, and spiny softshells A. spinifera in favor of females.

Characterization and functional analysis of toll-like receptor 4 in Chinese soft-shelled turtle Pelodiscus sinensis.

PubMed

Zhou, Yingshan; Liang, Quan; Li, Weifen; Gu, Yuanxing; Liao, Xun; Fang, Weihuan; Li, Xiaoliang

2016-10-01

Mammalian Toll-like receptor 4 (TLR4) recognizes lipopolysaccharide (LPS) in initiating the innate immune responses. Early studies indicate that turtles are more resistant to LPS challenge than mammals. It remains unknown if turtles express TLR4 and why they are more resistant to LPS. In this study, TLR4 gene from Chinese soft-shelled turtle, Pelodiscus sinensis, was cloned and characterized. The full length cDNA of turtle TLR4 (tTLR4) consists of 3396 base pairs with an 2499-bp open reading frame, encoding 833 amino acids. Phylogenetic and syntenic analyses suggest that tTLR4 is to be orthologous to human TLR4. Its mRNA expression was up-regulated in spleen and blood of turtles upon Aeromonas hydrophila infection. Stimulation of turtle peripheral blood monocytes with LPS significantly upregulated tTLR4 mRNA and inflammation-related gene expression, such as Interleukin-1β (IL-1β) and cyclooxygenase-2 (COX-2). In tTLR4-expressing HEK293 cells, higher concentration of LPS exposure could enhance the activity of the NF-κB promoter, but not the INF-β promoter. Such activity required co-expression of turtle myeloid differentiation factor 2 (tMD2) and cluster of differentiation 14 (tCD14). These results provide evidence for a functional TLR4 in reptiles and, together with the syntenic analysis, support the idea that the TLR4 receptor for LPS recognition may have arisen after reptiles. Copyright © 2016 Elsevier Ltd. All rights reserved.

Time-courses in the retention of food material in the bivalves Potamocorbula amurensis and Macoma balthica significance to the absorption of carbon and chromium

USGS Publications Warehouse

Decho, Alan W.; Luoma, Samuel N.

1991-01-01

Time courses for ingestion, retention and release via feces of microbial food was investigated using 2 bivalves with different feeding strategies, Potamocorbula amurensis and Macoma balthica. The results showed 2 pathways for the uptake of food material in these clams. The first is represented by an initial label pulse in the feces. The second pathway operates over longer time periods. Inert 51Cr-labeled beads were used to determine time frames for these pathways. The first pathway, involving extracellular digestion and intestinal uptake, is relatively inefficient in the digestion of bacterial cells by P. amurensis but more efficient in M. balthica. The second pathway, involving intracellular digestion within the digestive gland of both clams, was highly efficient in absorbing  bacterial carbon, and was responsible for most chromium uptake. Differences in the overall retention of microbial 51Cr and 14C relate not to gut-passage times but to the processing and release strategies of the food material by these 2 clams..

Invasive zebra mussels (Driessena polymorpha) and Asian clams (Corbicula fluminea) survive gut passage of migratory fish species: implications for dispersal

USGS Publications Warehouse

Gatlin, Michael R.; Shoup, Daniel E.; Long, James M.

2013-01-01

The introduction and spread of invasive species is of great concern to natural resource managers in the United States. To effectively control the spread of these species, managers must be aware of the multitude of dispersal methods used by the organisms. We investigated the potential for survival through the gut of a migrating fish (blue catfish, Ictalurus furcatus) as a dispersal mechanism for two invasive bivalves: zebra mussel (Driessena polymorpha) and Asian clam (Corbicula fluminea). Blue catfish (N = 62) were sampled over several months from Sooner Lake, Oklahoma, transported to a laboratory and held in individual tanks for 48 h. All fecal material was collected and inspected for live mussels. Survival was significantly related to water temperature in the lake at the time of collection, with no mussels surviving above 21.1 C°, whereas 12 % of zebra mussels (N = 939) and 39 % of Asian clams (N = 408) consumed in cooler water survived gut passage. This research demonstrates the potential for blue catfish to serve as a dispersal vector for invasive bivalves at low water temperatures.

Mactra veneriformis, an intertidal clam, as a new second intermediate host for Acanthoparyphium marilae (Digenea: Echinostomatidae).

PubMed

Han, Eun-Taek; Chai, Jong-Yil

2008-06-01

Metacercariae of Acanthoparyphium marilae Yamaguti, 1934 (Digenea: Echinostomatidae) were discovered in an intertidal clam, Mactra veneriformis, in a southwestern coastal area of the Republic of Korea. A total of 128 metacercariae were detected from 10 clams examined. They were round, 320 microm in average diameter, with 23 collar spines. They were fed experimentally to chicks, and 10 days later adult flukes were obtained. The adults were morphologically characterized by the head collar with a single row of 23 dorsally uninterrupted spines, without special end group spines, a round ventral sucker, 2 round and tandem testes, and vitellaria extending at lateral fields from the posterior extremity not beyond the middle level of the posterior testis. The most characteristic feature of this species was the limited distribution of vitellaria, which differs from Acanthoparyphium tyosenense Yamaguti, 1939, the metacercariae of which are encysted in the same mollusk species. This is the first report in which the metacercariae of this species were detected, and the intertidal bivalve, M. veneriformis, has been identified as a second intermediate host for A. marilae.

Mactra veneriformis, an Intertidal Clam, as a New Second Intermediate Host for Acanthoparyphium marilae (Digenea: Echinostomatidae)

PubMed Central

Han, Eun-Taek

2008-01-01

Metacercariae of Acanthoparyphium marilae Yamaguti, 1934 (Digenea: Echinostomatidae) were discovered in an intertidal clam, Mactra veneriformis, in a southwestern coastal area of the Republic of Korea. A total of 128 metacercariae were detected from 10 clams examined. They were round, 320 µm in average diameter, with 23 collar spines. They were fed experimentally to chicks, and 10 days later adult flukes were obtained. The adults were morphologically characterized by the head collar with a single row of 23 dorsally uninterrupted spines, without special end group spines, a round ventral sucker, 2 round and tandem testes, and vitellaria extending at lateral fields from the posterior extremity not beyond the middle level of the posterior testis. The most characteristic feature of this species was the limited distribution of vitellaria, which differs from Acanthoparyphium tyosenense Yamaguti, 1939, the metacercariae of which are encysted in the same mollusk species. This is the first report in which the metacercariae of this species were detected, and the intertidal bivalve, M. veneriformis, has been identified as a second intermediate host for A. marilae. PMID:18552547

The influence of salinity on toxicological effects of arsenic in digestive gland of clam Ruditapes philippinarum using metabolomics

NASA Astrophysics Data System (ADS)

Ji, Chenglong; Wu, Huifeng; Liu, Xiaoli; Zhao, Jianmin; Yu, Junbao; Yin, Xiuli

2013-03-01

Ruditapes philippinarum, a clam that thrives in intertidal zones of various salinities, is a useful biomonitor to marine contaminants. We investigated the influence of dilution to 75% and 50% of normal seawater salinity (31.1) on the responses of the digestive gland of R. philippinarum to arsenic exposure (20 μg/L), using nuclear magnetic resonance (NMR)-based metabolomics. After acute arsenic exposure for 48 h, salinity-dependent differential metabolic responses were detected. In normal seawater, arsenic exposure increased the concentrations of branched-chain amino acids, and of threonine, proline, phosphocholine and adenosine, and it decreased the levels of alanine, hypotaurine, glucose, glycogen and ATP in the digestive glands. Differential changes in metabolic biomarkers observed at lower salinity (˜23.3) included elevation of succinate, taurine and ATP, and depletion of branched-chain amino acids, threonine and glutamine. Unique effects of arsenic at the lowest salinity (˜15.6) included down-regulation of glutamate, succinate and ADP, and up-regulation of phosphocholine. We conclude that salinity influences the metabolic responses of this clam to arsenic.

Independent divergence of 13- and 17-y life cycles among three periodical cicada lineages.

PubMed

Sota, Teiji; Yamamoto, Satoshi; Cooley, John R; Hill, Kathy B R; Simon, Chris; Yoshimura, Jin

2013-04-23

The evolution of 13- and 17-y periodical cicadas (Magicicada) is enigmatic because at any given location, up to three distinct species groups (Decim, Cassini, Decula) with synchronized life cycles are involved. Each species group is divided into one 13- and one 17-y species with the exception of the Decim group, which contains two 13-y species-13-y species are Magicicada tredecim, Magicicada neotredecim, Magicicada tredecassini, and Magicicada tredecula; and 17-y species are Magicicada septendecim, Magicicada cassini, and Magicicada septendecula. Here we show that the divergence leading to the present 13- and 17-y populations differs considerably among the species groups despite the fact that each group exhibits strikingly similar phylogeographic patterning. The earliest divergence of extant lineages occurred ∼4 Mya with one branch forming the Decim species group and the other subsequently splitting 2.5 Mya to form the Cassini and Decula species groups. The earliest split of extant lineages into 13- and 17-y life cycles occurred in the Decim lineage 0.5 Mya. All three species groups experienced at least one episode of life cycle divergence since the last glacial maximum. We hypothesize that despite independent origins, the three species groups achieved their current overlapping distributions because life-cycle synchronization of invading congeners to a dominant resident population enabled escape from predation and population persistence. The repeated life-cycle divergences supported by our data suggest the presence of a common genetic basis for the two life cycles in the three species groups.

Total petroleum systems of the Trias/Ghadames Province, Algeria, Tunisia, and Libya; the Tanezzuft-Oued Mya, Tanezzuft-Melrhir, and Tanezzuft-Ghadames

USGS Publications Warehouse

Klett, T.R.

2000-01-01

Undiscovered conventional oil and gas resources were assessed within total petroleum systems of the Trias/Ghadames Province (2054) as part of the U.S. Geological Survey World Petroleum Assessment 2000. The Trias/Ghadames Province is in eastern Algeria, southern Tunisia, and westernmost Libya. The province and its total petroleum systems generally coincide with the Triassic Basin. The province includes the Oued Mya Basin, Melrhir Basin, and Ghadames (Berkine) Basin. Although several total petroleum systems may exist within each of these basins, only three “composite” total petroleum systems were identified. Each total petroleum system occurs in a separate basin, and each comprises a single assessment unit.The main source rocks are the Silurian Tanezzuft Formation (or lateral equivalents) and Middle to Upper Devonian mudstone. Maturation history and the major migration pathways from source to reservoir are unique to each basin. The total petroleum systems were named after the oldest major source rock and the basin in which it resides.The estimated means of the undiscovered conventional petroleum volumes in total petroleum systems of the Trias/Ghadames Province are as follows [MMBO, million barrels of oil; BCFG, billion cubic feet of gas; MMBNGL, million barrels of natural gas liquids]:Tanezzuft-Oued Mya 830 MMBO 2,341 BCFG 110 MMBNGLTanezzuft-Melrhir 1,875 MMBO 4,887 BCFG 269 MMBNGLTanezzuft-Ghadames 4,461 MMBO 12,035 BCFG 908 MMBNGL

Estimation of primate speciation dates using local molecular clocks.

PubMed

Yoder, A D; Yang, Z

2000-07-01

Protein-coding genes of the mitochondrial genomes from 31 mammalian species were analyzed to estimate the speciation dates within primates and also between rats and mice. Three calibration points were used based on paleontological data: one at 20-25 MYA for the hominoid/cercopithecoid divergence, one at 53-57 MYA for the cetacean/artiodactyl divergence, and the third at 110-130 MYA for the metatherian/eutherian divergence. Both the nucleotide and the amino acid sequences were analyzed, producing conflicting results. The global molecular clock was clearly violated for both the nucleotide and the amino acid data. Models of local clocks were implemented using maximum likelihood, allowing different evolutionary rates for some lineages while assuming rate constancy in others. Surprisingly, the highly divergent third codon positions appeared to contain phylogenetic information and produced more sensible estimates of primate divergence dates than did the amino acid sequences. Estimated dates varied considerably depending on the data type, the calibration point, and the substitution model but differed little among the four tree topologies used. We conclude that the calibration derived from the primate fossil record is too recent to be reliable; we also point out a number of problems in date estimation when the molecular clock does not hold. Despite these obstacles, we derived estimates of primate divergence dates that were well supported by the data and were generally consistent with the paleontological record. Estimation of the mouse-rat divergence date, however, was problematic.

Phylogeography of Schizopygopsis stoliczkai (Cyprinidae) in Northwest Tibetan Plateau area.

PubMed

Wanghe, Kunyuan; Tang, Yongtao; Tian, Fei; Feng, Chenguang; Zhang, Renyi; Li, Guogang; Liu, Sijia; Zhao, Kai

2017-11-01

Schizopygopsis stoliczkai (Cyprinidae, subfamily Schizothoracinae) is one of the major freshwater fishes endemic to the northwestern margin of the Tibetan Plateau. In the current study, we used mitochondrial DNA markers cytochrome b (Cyt b ) and 16S rRNA (16S), as well as the nuclear marker, the second intron of the nuclear beta-actin gene (Act2), to uncover the phylogeography of S. stoliczkai . In total, we obtained 74 haplotypes from 403 mitochondrial concatenated sequences. The mtDNA markers depict the phylogenetic structures of S. stoliczkai , which consist of clade North and clade South. The split time of the two clades is dated back to 4.27 Mya (95% HPD = 1.96-8.20 Mya). The estimated split time is earlier than the beginning of the ice age of Pleistocene (2.60 Mya), suggesting that the northwestern area of the Tibetan Plateau probably contain at least two glacial refugia for S. stoliczkai . SAMOVA supports the formation of four groups: (i) the Karakash River group; (ii) The Lake Pangong group; (iii) the Shiquan River group; (iv) the Southern Basin group. Clade North included Karakash River, Lake Pangong, and Shiquan River groups, while seven populations of clade South share the haplotypes. Genetic diversity, star-like network, BSP analysis, as well as negative neutrality tests indicate recent expansions events of S. stoliczkai . Conclusively, our results illustrate the phylogeography of S. stoliczkai , implying the Shiquan River is presumably the main refuge for S. stoliczkai .

Phylogeny and biogeography of southern African spoon-winged lacewings (Neuroptera: Nemopteridae: Nemopterinae).

PubMed

Sole, Catherine L; Scholtz, Clarke H; Ball, Jonathan B; Mansell, Mervyn W

2013-01-01

Nemopteridae are a charismatic family of lacewings characterised by uniquely extended hind wings. They are an ancient widespread group in the drier regions of the world. The family comprises two subfamilies, Crocinae (thread-wings) and Nemopterinae (spoon- and ribbon-wings). The present distribution of the family has been largely influenced by the vicariant events of plate tectonics, resulting in relict populations in some parts of the world and extensive evolutionary radiations in others, particularly southern Africa where the vast majority of the species are endemic to the Western and Northern Cape Provinces of South Africa. This study aimed to establish the validity of the 11 currently recognised genera and infer their biogeographic history using molecular sequence data from four gene regions. The hypothesis that the Cape nemopterines co-evolved with certain taxa in the Cape Floristic Region was also tested. Phylogenetic analysis supports seven of the 11 currently recognised genera. The crown age of the Nemopterinae is estimated to be at ca. 145.6 Mya, indicating that the group has been present since the late Jurassic. Most of the genera appear to have diversified during the middle Eocene and into the middle Miocene (ca. 44-11 Mya) with recent rapid radiation of several of the genera occurring during the late Miocene (ca. 6-4.5 Mya). While these data support an initial radiation with the Rushioideae (Aizoaceae) it is recommended that further study including observations and gut content be carried out. Copyright © 2012 Elsevier Inc. All rights reserved.

Early evolution of the angiosperm clade Asteraceae in the Cretaceous of Antarctica

PubMed Central

Barreda, Viviana D.; Palazzesi, Luis; Tellería, Maria C.; Olivero, Eduardo B.; Raine, J. Ian; Forest, Félix

2015-01-01

The Asteraceae (sunflowers and daisies) are the most diverse family of flowering plants. Despite their prominent role in extant terrestrial ecosystems, the early evolutionary history of this family remains poorly understood. Here we report the discovery of a number of fossil pollen grains preserved in dinosaur-bearing deposits from the Late Cretaceous of Antarctica that drastically pushes back the timing of assumed origin of the family. Reliably dated to ∼76–66 Mya, these specimens are about 20 million years older than previously known records for the Asteraceae. Using a phylogenetic approach, we interpreted these fossil specimens as members of an extinct early diverging clade of the family, associated with subfamily Barnadesioideae. Based on a molecular phylogenetic tree calibrated using fossils, including the ones reported here, we estimated that the most recent common ancestor of the family lived at least 80 Mya in Gondwana, well before the thermal and biogeographical isolation of Antarctica. Most of the early diverging lineages of the family originated in a narrow time interval after the K/P boundary, 60–50 Mya, coinciding with a pronounced climatic warming during the Late Paleocene and Early Eocene, and the scene of a dramatic rise in flowering plant diversity. Our age estimates reduce earlier discrepancies between the age of the fossil record and previous molecular estimates for the origin of the family, bearing important implications in the evolution of flowering plants in general. PMID:26261324

Evidence of transoceanic dispersion of the genus Vanilla based on plastid DNA phylogenetic analysis.

PubMed

Bouetard, Anthony; Lefeuvre, Pierre; Gigant, Rodolphe; Bory, Séverine; Pignal, Marc; Besse, Pascale; Grisoni, Michel

2010-05-01

The phylogeny and the biogeographical history of the genus Vanilla was investigated using four chloroplastic genes (psbB, psbC; psaB and rbcL), on 47 accessions of Vanilla chosen from the ex situ CIRAD collection maintained in Reunion Island and additional sequences from GenBank. Bayesian methods provided a fairly well supported reconstruction of the phylogeny of the Vanilloideae sub-family and more particularly of the genus Vanilla. Three major phylogenetic groups in the genus Vanilla were differentiated, which is in disagreement with the actual classification in two sections (Foliosae and Aphyllae) based on morphological traits. Recent Bayesian relaxed molecular clock methods allowed to test the two main hypotheses of the phylogeography of the genus Vanilla. Early radiation of the Vanilla genus and diversification by vicariance consecutive to the break-up of Gondwana, 95 million years ago (Mya), was incompatible with the admitted age of origin of Angiosperm. Based on the Vanilloideae age recently estimated to 71 million years ago (Mya), we conclude that the genus Vanilla would have appeared approximately 34 Mya in South America, when continents were already separated. Nevertheless, whatever the two extreme scenarios tested, at least three long distance migration events are needed to explain the present distribution of Vanilla species in tropical areas. These transoceanic dispersions could have occurred via transoceanic passageway such as the Rio Grande Ridge and the involvement of floating vegetation mats and migratory birds. Copyright 2010 Elsevier Inc. All rights reserved.

Effects of the red tide dinoflagellate, Karenia brevis, on early development of the eastern oyster Crassostrea virginica and northern quahog Mercenaria mercenaria.

PubMed

Rolton, Anne; Vignier, Julien; Soudant, Philippe; Shumway, Sandra E; Bricelj, V Monica; Volety, Aswani K

2014-10-01

The brevetoxin-producing dinoflagellate, Karenia brevis, adversely affects many shellfish species including the commercially and ecologically important bivalve molluscs, the northern quahog (=hard clam) Mercenaria mercenaria and eastern oyster Crassostrea virginica, in the Gulf of Mexico, USA. This study assessed the effects of exposure of these bivalves to K. brevis during their early development. In separate experiments, embryos of 2-4 cell stage of M. mercenaria and C. virginica were exposed to both whole and lysed K. brevis cells isolated from Manasota Key, Florida. Low bloom concentrations of 500 to 3000 cells mL(-1) were simulated for 96 h. Shell length, percent abnormality (and normality), and percent mortality of resulting larvae were measured. Percentages were recorded after 6, 24, and 96 h of exposure; larval shell length was measured at 24 and 96 h. For both quahogs and oysters, the effects of exposing embryos to K. brevis on all larval responses were generally dose- and time-dependent. Percent mortalities and abnormalities of both clam and oyster embryos increased significantly after only 6h of exposure to whole cells of K. brevis. For clams, these parameters were significantly higher in whole and lysed treatments (at 3000 cells mL(-1)) than in controls. Percent mortalities of oysters were significantly higher in the whole-cell treatment (3000 cells mL(-1)) than under control conditions. After 24h of exposure, mean larval shell length of both bivalve species was significantly reduced relative to controls. This was evident for clam larvae in both the lysed treatment at 1500 cells mL(-1) and in whole and lysed treatments at 3000 cells mL(-1), and for oyster larvae in the lysed treatment at 3000 cells mL(-1). After 96 h, both species exposed to the lysed cell treatment at 3000 cells mL(-1) had significantly smaller larvae compared to those in the control. Overall, lysed cells of K. brevis had a more pronounced effect on shell length, percent abnormality, and mortality in both clams and oysters than did whole cells. Given the fact that blooms of K. brevis overlap with the spawning periods of these two bivalves, and that cells of this naked dinoflagellate are readily lysed by wave action, these results suggest that exposure to K. brevis during the early life history stages of clams and oysters could adversely affect their population recruitment. Further, the presence of whole or lysed cells of K. brevis in hatcheries could have a major negative impact on production. Copyright © 2014 Elsevier B.V. All rights reserved.

Feeding inhibition in Corbicula fluminea (O.F. Muller, 1774) as an effect criterion to pollutant exposure: Perspectives for ecotoxicity screening and refinement of chemical control.

PubMed

Castro, Bruno Branco; Silva, Carlos; Macário, Inês Patrunilho Efe; Oliveira, Bruno; Gonçalves, Fernando; Pereira, Joana Luísa

2018-03-01

Bivalves are commonly used in biomonitoring programs to track pollutants. Several features, including its filter-feeding abilities, cumulatively argue in favour of the use of the Asian clam (Corbicula fluminea) as a biosentinel and an ecotoxicological model. Filtration in bivalves is very sensitive to external stimuli and its control is dictated by regulation of the opening/closure of the valves, which may be used as an avoidance defence against contaminants. Here, we investigate the filter-feeding behaviour of the Asian clam as an endpoint for assessing exposure to pollutants, driven by two complementary goals: (i) to generate relevant and sensitive toxicological information based on the ability of C. fluminea to clear an algal suspension, using the invasive species as a surrogate for native bivalves; (ii) to gain insight on the potential of exploring this integrative response in the refinement of chemical control methods for this pest. Clearance rates and proportion of algae removed were measured using a simple and reproducible protocol. Despite some variation across individuals and size classes, 50-90% of food particles were generally removed within 60-120 min by clams larger than 20 mm. Removal of algae was sensitive to an array of model contaminants with biocide potential, including fertilizers, pesticides, metals and salts: eight out of nine tested substances were detected at the μg l -1 or mg l -1 range and triggered valve closure, decreasing filter-feeding in a concentration-dependent manner. For most toxicants, a good agreement between mortality (96 h - LC 50 within the range 0.4-5500 mg l -1 ) and feeding (2 h - IC 50 within the range 0.005-2317 mg l -1 ) was observed, demonstrating that a 120-min assay can be used as a protective surrogate of acute toxicity. However, copper sulphate was very strongly avoided by the clams (IC 50  = 5.3 μg l -1 ); on the contrary, dichlorvos (an organophosphate insecticide) did not cause feeding depression, either by being undetected by the clams' chemosensors and/or by interfering with the valve closure mechanism. Such an assay has a large potential as a simple screening tool for industry, environmental agencies and managers. The ability of dichlorvos to bypass the Asian clam's avoidance strategy puts it in the spotlight as a potential agent to be used alone or combined with others in eradication programs of this biofouler in closed or semi-closed industrial settings. Copyright © 2018 Elsevier B.V. All rights reserved.

Genetic considerations for mollusk production in aquaculture: current state of knowledge

PubMed Central

Astorga, Marcela P.

2014-01-01

In 2012, world mollusk production in aquaculture reached a volume of 15,171,000 tons, representing 23% of total aquaculture production and positioning mollusks as the second most important category of aquaculture products (fishes are the first). Clams and oysters are the mollusk species with the highest production levels, followed in descending order by mussels, scallops, and abalones. In view of the increasing importance attached to genetic information on aquaculture, which can help with good maintenance and thus the sustainability of production, the present work offers a review of the state of knowledge on genetic and genomic information about mollusks produced in aquaculture. The analysis was applied to mollusks which are of importance for aquaculture, with emphasis on the 5 species with the highest production levels. According to FAO, these are: Japanese clam Ruditapes philippinarum; Pacific oyster Crassostrea gigas; Chilean mussel Mytilus chilensis; Blood clam Anadara granosa and Chinese clam Sinonovacula constricta. To date, the genomes of 5 species of mollusks have been sequenced, only one of which, Crassostrea gigas, coincides with the species with the greatest production in aquaculture. Another important species whose genome has been sequenced is Mytilus galloprovincialis, which is the second most important mussel in aquaculture production, after M. chilensis. Few genetic improvement programs have been reported in comparison with the number reported in fish species. The most commonly investigated species are oysters, with at least 5 genetic improvement programs reported, followed by abalones with 2 programs and mussels with one. The results of this work will establish the current situation with respect to the genetics of mollusks which are of importance for aquaculture production, in order to assist future decisions to ensure the sustainability of these resources. PMID:25540651

Effects of mixing on resolved and unresolved scales on stratospheric age of air

NASA Astrophysics Data System (ADS)

Dietmüller, Simone; Garny, Hella; Plöger, Felix; Jöckel, Patrick; Cai, Duy

2017-06-01

Mean age of air (AoA) is a widely used metric to describe the transport along the Brewer-Dobson circulation. We seek to untangle the effects of different processes on the simulation of AoA, using the chemistry-climate model EMAC (ECHAM/MESSy Atmospheric Chemistry) and the Chemical Lagrangian Model of the Stratosphere (CLaMS). Here, the effects of residual transport and two-way mixing on AoA are calculated. To do so, we calculate the residual circulation transit time (RCTT). The difference of AoA and RCTT is defined as aging by mixing. However, as diffusion is also included in this difference, we further use a method to directly calculate aging by mixing on resolved scales. Comparing these two methods of calculating aging by mixing allows for separating the effect of unresolved aging by mixing (which we term aging by diffusion in the following) in EMAC and CLaMS. We find that diffusion impacts AoA by making air older, but its contribution plays a minor role (order of 10 %) in all simulations. However, due to the different advection schemes of the two models, aging by diffusion has a larger effect on AoA and mixing efficiency in EMAC, compared to CLaMS. Regarding the trends in AoA, in CLaMS the AoA trend is negative throughout the stratosphere except in the Northern Hemisphere middle stratosphere, consistent with observations. This slight positive trend is neither reproduced in a free-running nor in a nudged simulation with EMAC - in both simulations the AoA trend is negative throughout the stratosphere. Trends in AoA are mainly driven by the contributions of RCTT and aging by mixing, whereas the contribution of aging by diffusion plays a minor role.

Effects of ocean acidification driven by elevated CO2 on larval shell growth and abnormal rates of the venerid clam, Mactra veneriformis

NASA Astrophysics Data System (ADS)

Kim, Jee-Hoon; Yu, Ok Hwan; Yang, Eun Jin; Kang, Sung-Ho; Kim, Won; Choy, Eun Jung

2016-11-01

The venerid clam ( Mactra veneriformis Reeve 1854) is one of the main cultured bivalve species in intertidal and shallow subtidal ecosystems along the west coast of Korea. To understand the effects of ocean acidification on the early life stages of Korean clams, we investigated shell growth and abnormality rates and types in the D-shaped, umbonate veliger, and pediveliger stages of the venerid clam M. veneriformis during exposure to elevated seawater pCO2. In particular, we examined abnormal types of larval shell morphology categorized as shell deformations, shell distortions, and shell fissures. Specimens were incubated in seawater equilibrated with bubbled CO2-enriched air at (400±25)×10-6 (ambient control), (800±25)×10-6 (high pCO2), or (1 200±28)×10-6 (extremely high pCO2), the atmospheric CO2 concentrations predicted for the years 2014, 2084, and 2154 (70-year intervals; two human generations), respectively, in the Representative Concentration Pathway (RCP) 8.5 scenario. The mean shell lengths of larvae were significantly decreased in the high and extremely high pCO2 groups compared with the ambient control groups. Furthermore, under high and extremely high pCO2 conditions, the cultures exhibited significantly increased abundances of abnormal larvae and increased severity of abnormalities compared with the ambient control. In the umbonate veliger stage of the experimental larvae, the most common abnormalities were shell deformations, distortions, and fissures; on the other hand, convex hinges and mantle protuberances were absent. These results suggest that elevated CO2 exerts an additional burden on the health of M. veneriformis larvae by impairing early development.

Mussels and clams from the italian fish market. is there a human exposition risk to metals and arsenic?

PubMed

Chiesa, L M; Ceriani, F; Caligara, M; Di Candia, D; Malandra, R; Panseri, S; Arioli, F

2018-03-01

Seafood is associated with many beneficial effects on human health. However, the overall level of contaminants in biota has increased over the last two centuries and seafood is one of the source of oral exposition to contaminants. Therefore, this work aimed to evaluate cadmium, lead, mercury, arsenic, chromium and nickel presence in mussels and clams, from the Italian market, and the associated risk. The samples were from five different FAO areas. Analyses were carried out using inductively-coupled plasms-mass spectrometry. The sample concentrations were below the maximum levels stated by Commission Regulation (EC) 1881/2006, except one mussel sample, which was non-compliant for cadmium (2.13 ± 0.20 mg kg -1 ). For arsenic, nickel and chromium, maximum levels are not stated by the European Union. In this study, arsenic ranged from 1.29 to 13.35 mg kg -1 and nickel ranged from 1, and BMDL 10 for lung bladder and skin cancer in all mussel samples was overcome, in the 100% and 25% of mussel and clam samples, respectively. Copyright © 2017 Elsevier Ltd. All rights reserved.

Prevalence of Vibrio parahaemolyticus in oyster and clam culturing environments in Taiwan.

PubMed

Yu, Wei-Ting; Jong, Koa-Jen; Lin, Yu-Ren; Tsai, Shing-en; Tey, Yao Hsien; Wong, Hin-chung

2013-01-01

Vibrio parahaemolyticus is the most prevalent gastroenteritis pathogen in Taiwan and some other Asian countries, and it frequently occurs in oysters and other seafood. This study monitors changes in the density of V. parahaemolyticus and environmental parameters in oyster and hard clam aquacultural environments in Taiwan. Water, sediment and shellfish samples were collected from five sampling sites in 2008-2010, and analyzed for environmental physiochemical parameters, numbers of indicator bacteria (total aerobic counts, total coliforms and fecal coliforms), Vibrio and V. parahaemolyticus present. The results for open oyster farms and hard clam ponds did not differ significantly. V. parahaemolyticus was detected in 77.5, 77.5, 70.8 and 68.8% of the water, sediment, oyster and clam samples, respectively. The densities of V. parahaemolyticus were significantly higher in shellfish than in sediment or water samples, with mean values of 1.33, 1.04 and -0.02 Log CFU/g, respectively. Among these five sampling sites, Shengang and Fangyuan yielded significantly different data from those obtained at the other three sites. As determined by linear multiple regression, V. parahaemolyticus density in water samples depended significantly on the precipitation and Vibrio count, while the V. parahaemolyticus density in the sediment or shellfish samples depended significantly on the salinity of the seawater. Among 1076 isolates examined, a total of three putative pathogenic isolates were identified from 2.5% of the examined samples, and these isolates exhibited hemolytic or urease activities and the presence of gene markers for tdh, trh, type III secretion system (T3SS) 1 (vcrD1) or T3SS2α (vcrD2). The results herein may facilitate the assessment of risk associated with this pathogen in Taiwan and other geographically similar regions. Copyright © 2012 Elsevier B.V. All rights reserved.

A new invertebrate member of the p53 gene family is developmentally expressed and responds to polychlorinated biphenyls.

PubMed Central

Jessen-Eller, Kathryn; Kreiling, Jill A; Begley, Gail S; Steele, Marjorie E; Walker, Charles W; Stephens, Raymond E; Reinisch, Carol L

2002-01-01

The cell-cycle checkpoint protein p53 both directs terminal differentiation and protects embryos from DNA damage. To study invertebrate p53 during early development, we identified three differentially expressed p53 family members (p53, p97, p120) in the surf clam, Spisula solidissima. In these mollusks, p53 and p97 occur in both embryonic and adult tissue, whereas p120 is exclusively embryonic. We sequenced, cloned, and characterized p120 cDNA. The predicted protein, p120, resembles p53 across all evolutionarily conserved regions and contains a C-terminal extension with a sterile alpha motif (SAM) as in p63 and p73. These vertebrate forms of p53 are required for normal inflammatory, epithelial, and neuronal development. Unlike clam p53 and p97, p120 mRNA and protein levels are temporally expressed in embryos, with mRNA levels decreasing with increasing p120 protein (R(2) = 0.97). Highest surf clam p120 mRNA levels coincide with the onset of neuronal growth. In earlier work we have shown that neuronal development is altered by exposure to polychlorinated biphenyls (PCBs), a neurotoxic environmental contaminant. In this study we show that PCBs differentially affect expression of the three surf clam p53 family members. p120 mRNA and protein are reduced the most and earliest in development, p97 protein shows a smaller and later reduction, and p53 protein levels do not change. For the first time we report that unlike p53 and p97, p120 is specifically embryonic and expressed in a time-dependent manner. Furthermore, p120 responds to PCBs by 48 hr when PCB-induced suppression of the serotonergic nervous system occurs. PMID:11940455

Transcriptome analysis of Ruditapes philippinarum hepatopancreas provides insights into immune signaling pathways under Vibrio anguillarum infection.

PubMed

Ren, Yipeng; Xue, Junli; Yang, Huanhuan; Pan, Baoping; Bu, Wenjun

2017-05-01

The Manila clam, Ruditapes philippinarum, is one of the most economically important aquatic clams that are harvested on a large scale by the mariculture industry in China. However, increasing reports of bacterial pathogenic diseases have had a negative effect on the aquaculture industry of R. philippinarum. In the present study, the two transcriptome libraries of untreated (termed H) and challenged Vibrio anguillarum (termed HV) hepatopancreas were constructed and sequenced from Manila clam using an Illumina-based paired-end sequencing platform. In total, 75,302,886 and 66,578,976 high-quality clean reads were assembled from 101,080,746 and 99,673,538 raw data points from the two transcriptome libraries described above, respectively. Furthermore, 156,116 unigenes were generated from 210,685 transcripts, with an N50 length of 1125 bp, and from the annotated SwissProt, NR, NT, KO, GO, KOG and KEGG databases. Moreover, a total of 4071 differentially expressed unigenes (HV vs H) were detected, including 903 up-regulated and 3168 down-regulated genes. Among these differentially expressed unigenes, 226 unigenes were annotated using KEGG annotation in 16 immune-related signaling pathways, including Toll-like receptor, NF-kappa B, MAPK, NOD-like receptor, RIG-I-like receptor, and the TNF and chemokine signaling pathways. Finally, 20,341 simple sequence repeats (SSRs) and 214,430 potential single nucleotide polymorphisms (SNPs) were detected from the H and HV transcriptome libraries. In conclusion, these studies identified many candidate immune-related genes and signaling pathways and conducted a comparative analysis of the differentially expressed unigenes from Manila clam hepatopancreas in response to V. anguillarum stimulation. These data laid the foundation for studying the innate immune systems and defense mechanisms in R. philippinarum. Copyright © 2017 Elsevier Ltd. All rights reserved.

Light exposure enhances urea absorption in the fluted giant clam, Tridacna squamosa, and up-regulates the protein abundance of a light-dependent urea active transporter, DUR3-like, in its ctenidium.

PubMed

Chan, Christabel Y L; Hiong, Kum C; Boo, Mel V; Choo, Celine Y L; Wong, Wai P; Chew, Shit F; Ip, Yuen K

2018-04-19

Giant clams live in nutrient-poor reef waters of the Indo-Pacific and rely on symbiotic dinoflagellates ( Symbiodinium spp., also known as zooxanthellae) for nutrients. As the symbionts are nitrogen deficient, the host clam has to absorb exogenous nitrogen and supply it to them. This study aimed to demonstrate light-enhanced urea absorption in the fluted giant clam, Tridacna squamosa , and to clone and characterize the urea active transporter DUR3-like from its ctenidium (gill). The results indicate that T. squamosa absorbs exogenous urea, and the rate of urea uptake in the light was significantly higher than that in darkness. The DUR3-like coding sequence obtained from its ctenidium comprised 2346 bp, encoding a protein of 782 amino acids and 87.0 kDa. DUR3-like was expressed strongly in the ctenidium, outer mantle and kidney. Twelve hours of exposure to light had no significant effect on the transcript level of ctenidial DUR3-like However, between 3 and 12 h of light exposure, DUR3-like protein abundance increased progressively in the ctenidium, and became significantly greater than that in the control at 12 h. DUR3-like had an apical localization in the epithelia of the ctenidial filaments and tertiary water channels. Taken together, these results indicate that DUR3-like might participate in light-enhanced urea absorption in the ctenidium of T. squamosa When made available to the symbiotic zooxanthellae that are known to possess urease, the absorbed urea can be metabolized to NH 3 and CO 2 to support amino acid synthesis and photosynthesis, respectively, during insolation. © 2018. Published by The Company of Biologists Ltd.

Did sex chromosome turnover promote divergence of the major mammal groups?

PubMed Central

2016-01-01

Comparative mapping and sequencing show that turnover of sex determining genes and chromosomes, and sex chromosome rearrangements, accompany speciation in many vertebrates. Here I review the evidence and propose that the evolution of therian mammals was precipitated by evolution of the male‐determining SRY gene, defining a novel XY sex chromosome pair, and interposing a reproductive barrier with the ancestral population of synapsid reptiles 190 million years ago (MYA). Divergence was reinforced by multiple translocations in monotreme sex chromosomes, the first of which supplied a novel sex determining gene. A sex chromosome‐autosome fusion may have separated eutherians (placental mammals) from marsupials 160 MYA. Another burst of sex chromosome change and speciation is occurring in rodents, precipitated by the degradation of the Y. And although primates have a more stable Y chromosome, it may be just a matter of time before the same fate overtakes our own lineage. Also watch the video abstract. PMID:27334831

Parallel evolution of the make–accumulate–consume strategy in Saccharomyces and Dekkera yeasts

PubMed Central

Rozpędowska, Elżbieta; Hellborg, Linda; Ishchuk, Olena P.; Orhan, Furkan; Galafassi, Silvia; Merico, Annamaria; Woolfit, Megan; Compagno, Concetta; Piškur, Jure

2011-01-01

Saccharomyces yeasts degrade sugars to two-carbon components, in particular ethanol, even in the presence of excess oxygen. This characteristic is called the Crabtree effect and is the background for the 'make–accumulate–consume' life strategy, which in natural habitats helps Saccharomyces yeasts to out-compete other microorganisms. A global promoter rewiring in the Saccharomyces cerevisiae lineage, which occurred around 100 mya, was one of the main molecular events providing the background for evolution of this strategy. Here we show that the Dekkera bruxellensis lineage, which separated from the Saccharomyces yeasts more than 200 mya, also efficiently makes, accumulates and consumes ethanol and acetic acid. Analysis of promoter sequences indicates that both lineages independently underwent a massive loss of a specific cis-regulatory element from dozens of genes associated with respiration, and we show that also in D. bruxellensis this promoter rewiring contributes to the observed Crabtree effect. PMID:21556056

The Origin(s) of Whales

NASA Astrophysics Data System (ADS)

Uhen, Mark D.

2010-05-01

Whales are first found in the fossil record approximately 52.5 million years ago (Mya) during the early Eocene in Indo-Pakistan. Our knowledge of early and middle Eocene whales has increased dramatically during the past three decades to the point where hypotheses of whale origins can be supported with a great deal of evidence from paleontology, anatomy, stratigraphy, and molecular biology. Fossils also provide preserved evidence of behavior and habitats, allowing the reconstruction of the modes of life of these semiaquatic animals during their transition from land to sea. Modern whales originated from ancient whales at or near the Eocene/Oligocene boundary, approximately 33.7 Mya. During the Oligocene, ancient whales coexisted with early baleen whales and early toothed whales. By the end of the Miocene, most modern families had originated, and most archaic forms had gone extinct. Whale diversity peaked in the late middle Miocene and fell thereafter toward the Recent, yielding our depauperate modern whale fauna.

Evaluation of Rapid, Early Warning Approaches to Track Shellfish Toxins Associated with Dinophysis and Alexandrium Blooms

PubMed Central

Hattenrath-Lehmann, Theresa K.; Lusty, Mark W.; Wallace, Ryan B.; Haynes, Bennie; Wang, Zhihong; Broadwater, Maggie; Deeds, Jonathan R.; Morton, Steve L.; Hastback, William; Porter, Leonora; Chytalo, Karen

2018-01-01

Marine biotoxin-contaminated seafood has caused thousands of poisonings worldwide this century. Given these threats, there is an increasing need for improved technologies that can be easily integrated into coastal monitoring programs. This study evaluates approaches for monitoring toxins associated with recurrent toxin-producing Alexandrium and Dinophysis blooms on Long Island, NY, USA, which cause paralytic and diarrhetic shellfish poisoning (PSP and DSP), respectively. Within contrasting locations, the dynamics of pelagic Alexandrium and Dinophysis cell densities, toxins in plankton, and toxins in deployed blue mussels (Mytilus edulis) were compared with passive solid-phase adsorption toxin tracking (SPATT) samplers filled with two types of resin, HP20 and XAD-2. Multiple species of wild shellfish were also collected during Dinophysis blooms and used to compare toxin content using two different extraction techniques (single dispersive and double exhaustive) and two different toxin analysis assays (liquid chromatography/mass spectrometry and the protein phosphatase inhibition assay (PP2A)) for the measurement of DSP toxins. DSP toxins measured in the HP20 resin were significantly correlated (R2 = 0.7–0.9, p < 0.001) with total DSP toxins in shellfish, but were detected more than three weeks prior to detection in deployed mussels. Both resins adsorbed measurable levels of PSP toxins, but neither quantitatively tracked Alexandrium cell densities, toxicity in plankton or toxins in shellfish. DSP extraction and toxin analysis methods did not differ significantly (p > 0.05), were highly correlated (R2 = 0.98–0.99; p < 0.001) and provided complete recovery of DSP toxins from standard reference materials. Blue mussels (Mytilus edulis) and ribbed mussels (Geukensia demissa) were found to accumulate DSP toxins above federal and international standards (160 ng g−1) during Dinophysis blooms while Eastern oysters (Crassostrea virginica) and soft shell clams (Mya arenaria) did not. This study demonstrated that SPATT samplers using HP20 resin coupled with PP2A technology could be used to provide early warning of DSP, but not PSP, events for shellfish management. PMID:29342840

Molecular phylogenetic analysis of the Persea group (Lauraceae) and its biogeographic implications on the evolution of tropical and subtropical Amphi-Pacific disjunctions.

PubMed

Li, Lang; Li, Jie; Rohwer, Jens G; van der Werff, Henk; Wang, Zhi-Hua; Li, Hsi-Wen

2011-09-01

The Persea group (Lauraceae) has a tropical and subtropical amphi-pacific disjunct distribution with most of its members, and it includes two Macaronesian species. The relationships within the group are still controversial, and its intercontinental disjunction has not been investigated with extensive sampling and precise time dating. • ITS and LEAFY intron II sequences of 78 Persea group species and nine other Lauraceae species were analyzed with maximum parsimony and Bayesian inference. Divergence time estimation employed Bayesian Markov chain Monte Carlo method under a relaxed clock. • Several traditional genera or subgenera within the Persea group form well-supported monophyletic groups except Alseodaphne and Dehaasia. The divergence time of the Persea group is estimated as ∼55.3 (95% higher posterior densities [HPD] 41.4-69.9) million years ago (mya). Two major divergences within the Persea group are estimated as ∼51.9 (95% HPD 38.9-63.9) mya and ∼48.5 (95% HPD 35.9-59.9) mya. • Persea can be retained as a genus by the inclusion of Apollonias barbujana and exclusion a few species that do not fit into the established subgenera. A major revision is recommended for the delimitation between Alseodaphne, Dehaasia, and Nothaphoebe. We suggest that the Persea group originated from the Perseeae-Laureae radiation in early Eocene Laurasia. Its amphi-pacific disjunction results from the disruption of boreotropical flora by climatic cooling during the mid- to late Eocene. The American-Macaronesian disjunction may be explained by the long-distance dispersal.

Explosive avian radiations and multi-directional dispersal across Wallacea: evidence from the Campephagidae and other Crown Corvida (Aves).

PubMed

Jønsson, Knud A; Irestedt, Martin; Fuchs, Jérôme; Ericson, Per G P; Christidis, Les; Bowie, Rauri C K; Norman, Janette A; Pasquet, Eric; Fjeldså, Jon

2008-04-01

The systematic relationships among avian families within Crown Corvida have been poorly studied so far and as such been of limited use for biogeographic interpretations. The group has its origin in Australia and is thought to have colonized Africa and the New World via Asia beginning some 35 Mya when terranes of Australian origin approached Asian landmasses. Recent detailed tectonic mapping of the origin of land masses in the region around Wallace's line have revealed a particularly complex movement of terranes over the last 20-30 Myr. Thus the biogeographic dispersal pattern of Crown Corvida is a particularly exciting case for linking vicariance and dispersal events with Earth history. Here we examine phylogenetic affinities among 72 taxa covering a broad range of genera in the basal radiations within Crown Corvida with an emphasis on Campephagidae and Pachycephalidae. Bayesian analyses of nuclear DNA sequence data identified the family Campephagidae as monophyletic but the large genus Coracina is not. Within the family Pachycephalidae the genera Pachycephala and Colluricincla are paraphyletic with respect to each other. The resulting phylogeny suggests that patterns of dispersal across Wallace's line are complex and began at least 25 Mya. We find evidence of explosive radiations and multi-directional dispersal within the last 10 Myr, and three independent long distance ocean dispersal events between Wallacea and Africa at 10-15 Mya. Furthermore, the study reveals that in the Campephagidae a complex series of dispersal events rather than vicariance is the most likely explanation for the current biogeographic pattern in the region.

Sequencing of Chloroplast Genomes from Wheat, Barley, Rye and Their Relatives Provides a Detailed Insight into the Evolution of the Triticeae Tribe

PubMed Central

Middleton, Christopher P.; Senerchia, Natacha; Stein, Nils; Akhunov, Eduard D.; Keller, Beat

2014-01-01

Using Roche/454 technology, we sequenced the chloroplast genomes of 12 Triticeae species, including bread wheat, barley and rye, as well as the diploid progenitors and relatives of bread wheat Triticum urartu, Aegilops speltoides and Ae. tauschii. Two wild tetraploid taxa, Ae. cylindrica and Ae. geniculata, were also included. Additionally, we incorporated wild Einkorn wheat Triticum boeoticum and its domesticated form T. monococcum and two Hordeum spontaneum (wild barley) genotypes. Chloroplast genomes were used for overall sequence comparison, phylogenetic analysis and dating of divergence times. We estimate that barley diverged from rye and wheat approximately 8–9 million years ago (MYA). The genome donors of hexaploid wheat diverged between 2.1–2.9 MYA, while rye diverged from Triticum aestivum approximately 3–4 MYA, more recently than previously estimated. Interestingly, the A genome taxa T. boeoticum and T. urartu were estimated to have diverged approximately 570,000 years ago. As these two have a reproductive barrier, the divergence time estimate also provides an upper limit for the time required for the formation of a species boundary between the two. Furthermore, we conclusively show that the chloroplast genome of hexaploid wheat was contributed by the B genome donor and that this unknown species diverged from Ae. speltoides about 980,000 years ago. Additionally, sequence alignments identified a translocation of a chloroplast segment to the nuclear genome which is specific to the rye/wheat lineage. We propose the presented phylogeny and divergence time estimates as a reference framework for future studies on Triticeae. PMID:24614886

Evaluation of cross-protection against three topotypes of serotype O foot-and-mouth disease virus in pigs vaccinated with multi-epitope protein vaccine incorporated with poly(I:C).

PubMed

Cao, Yimei; Lu, Zengjun; Li, Dong; Fan, Pengju; Sun, Pu; Bao, Huifang; Fu, Yuanfang; Li, Pinghua; Bai, Xingwen; Chen, Yingli; Xie, Baoxia; Liu, Zaixin

2014-01-31

Epitope-based vaccines are always questioned for their cross-protection against the antigenically variable foot-and-mouth disease virus (FMDV). In this study, we proved the cross-protection effect of a multi-epitope vaccine incorporated with poly(I:C) against three topotypes of O type FMDV. A total of 45 naïve pigs were vaccinated with different doses of multi-epitope protein vaccine incorporated with poly(I:C). At 28 days post-vaccination, 45 vaccinated and 6 unvaccinated control pigs (two pigs for each group) were challenged with three topotypes of virulent O type FMDV, namely, O/Mya/98 (Southeast Asia topotype), O/HN/CHA/93 (Cathay topotype) and O/Tibet/CHA/99 (PanAsia topotype) strains. All unvaccinated pigs developed generalised FMD clinical signs. Results showed that all pigs (n=15) conferred complete protection against the O/Mya/98 and O/HN/CHA/93 FMDV strains, 11 of which were protected against the O/Tibet/CHA/99 FMDV strain. The 50% protective dose values of the vaccine against the O/Mya/98, O/HN/CHA/93 and O/Tibet/CHA/99 FMDV strains were 15.59, 15.59 and 7.05, respectively. Contact challenge experiment showed that transmission occurred from the donors to the unvaccinated but not to vaccinated pigs. These results showed that vaccination with multi-epitope protein vaccine incorporated with poly(I:C) can efficiently prevent FMD in pigs. Copyright © 2013 Elsevier B.V. All rights reserved.

The phylogenetic relationships and molecular systematics of scincid lizards of the genus Heremites (Sauria, Scincidae) in the Middle East based on mtDNA sequences.

PubMed

Bahmani, Zahed; Rastegar-Pouyani, Eskandar; Rastegar-Pouyani, Nasrullah

2017-09-08

The taxonomic status of species included in the genus Heremites in Iran and Iraq is uncertain. Three of these species have been assigned to the genus based on morphology: Heremites auratus transcaucasica, H. vittatus, and H. septemtaeniatus. We examined the phylogenetic relationships and taxonomic status of the Iranian and Iraqi species of Heremites by performing phylogenetic analyses using mitochondrial DNA sequences (cytochrome b and 16S rRNA). Phylogenetic relationships and estimated genetic distances indicated that the Heremites populations of the area (Iran and Iraq) form five distinct clades. Three of these clades are found only in Iran, specifically in: (1) Fars and Hormozgan provinces; (2) Northeastern Khuzestan; and (3) Khorasan and Isfahan provinces. The fourth clade (H. septemtaeniatus) is found in west and Mahshahr in Iran as well as in eastern and northern parts of Iraq. The fifth clade, Heremites vittatus, is found in Iran and Iraq. We also confirm the absence of H. auratus in Iran and Iraq. It also indicated that H. vittatus is sister taxon to the other groups that our analyses estimate the divergence of this clade in the Middle Miocene (15.9 Mya). The clade containing the Fars-Hormozgan and Khuzestan populations diverged at the end of the Miocene (8.5 Mya). The Isfahan and Khorasan populations separated at the Pliocene (4.2 Mya) from the western Iranian group, the group in Mahshahr, Iran and the groups in northern and eastern Iraq.

Phylogenetic analysis of the Pacific cutthroat trout (Oncorhynchus clarki ssp.: Salmonidae) based on partial mtDNA ND4 sequences: a closer look at the highly fragmented inland species.

PubMed

Wilson, Wade D; Turner, Thomas F

2009-08-01

The genus Oncorhynchus includes Pacific salmon and trout (anadromous and land-locked) species of the western United States and Mexico. All species and subspecies in this group are threatened, endangered, sensitive, or species of conservation concern in portions of their native ranges. To examine the relationships of the species within Oncorhynchus we sequenced a 768 bp fragment of the protein-encoding ND4 mtDNA region. We included all six recognized subspecies of O. clarki (cutthroat trout), O. gilaegilae (Gila trout) and O. g. apache (Apache trout). Gene trees from likelihood and Bayesian phylogenetic analyses revealed that Salvelinus was the sister group to Oncorhynchus, and as expected based on previous studies, O. clarki was sister to a clade that consisted of O. mykiss plus O. g. gilae and O. g. apache. Within the cutthroat clade (O. clarki), the coastal form O. c. clarki was basal with the Rio Grande cutthroat (O. c. virginalis) most derived. Divergence dating based on a fossil calibration molecular clock showed the oldest clade (mean node age) was O. masou ssp., which diverged roughly 7.6 MYA. Highest probability density intervals for divergence of O. masou overlapped with divergence (6.3 MYA) of Pacific salmon clades ((O. gorbuscha + O. nerka) and (O. tshawytscha + O. kisutch)). The Pacific trout clade ((O. mykiss + O. gilae ssp.) + (O. clarki ssp.)) diverged from the Pacific salmon around 6.3 MYA, with most of the diversification within the O. clarki clade occurring in the last 1 MY.

Spectrophotometric evaluation of selenium binding by Saccharomyces cerevisiae ATCC MYA-2200 and Candida utilis ATCC 9950 yeast.

PubMed

Kieliszek, Marek; Błażejak, Stanisław; Płaczek, Maciej

2016-05-01

In this study, the ability of selenium binding the biomas of Saccharomyces cerevisiae ATCC MYA-2200 and Candida utilis ATCC 9950 was investigated. Sodium selenite(IV) salts were added to the experimental media at concentrations of 10, 20, 40, and 60 mg Se(4+) L(-1). In the tested concentration range, one concentration reported a significant reduction in the biomass yield of both yeast strains. Intense growth was observed for C. utilis yeast, which reached the highest biomass yield of 15 gd.w.L(-1) after 24h cultivation in the presence of 10mg Se(4+) L(-1). Based on the use of spectrophotometric method for the determination of selenium content by using Variamine Blue as a chromogenic agent, efficient accumulation of this element in the biomass of the investigated yeast was observed. The highest amount of selenium, that is, 5.64 mg Se(4+)gd.w.(-1), was bound from the environment by S. cerevisiae ATCC MYA-2200 cultured in the presence of 60 mg Se(4+) L(-1) medium 72h Slightly less amount, 5.47 mg Se(4+) gd.w.(-1), was absorbed by C. utilis ATCC 9950 during similar cultural conditions. Based on the results of the biomass yield and the use of selenium from the medium, it can be observed that yeasts of the genus Candida are more efficient in binding this element, and this property finds practical application in the production of selenium-enriched yeast. Copyright © 2016 Elsevier GmbH. All rights reserved.

Hostplant change and paleoclimatic events explain diversification shifts in skipper butterflies (Family: Hesperiidae).

PubMed

Sahoo, Ranjit Kumar; Warren, Andrew D; Collins, Steve C; Kodandaramaiah, Ullasa

2017-08-02

Skippers (Family: Hesperiidae) are a large group of butterflies with ca. 4000 species under 567 genera. The lack of a time-calibrated higher-level phylogeny of the group has precluded understanding of its evolutionary past. We here use a 10-gene dataset to reconstruct the most comprehensive time-calibrated phylogeny of the group, and explore factors that affected the diversification of these butterflies. Ancestral state reconstructions show that the early hesperiid lineages utilized dicots as larval hostplants. The ability to feed on monocots evolved once at the K-Pg boundary (ca. 65 million years ago (Mya)), and allowed monocot-feeders to diversify much faster on average than dicot-feeders. The increased diversification rate of the monocot-feeding clade is specifically attributed to rate shifts in two of its descendant lineages. The first rate shift, a four-fold increase compared to background rates, happened ca. 50 Mya, soon after the Paleocene-Eocene thermal maximum, in a lineage of the subfamily Hesperiinae that mostly fed on forest monocots. The second rate shift happened ca. 40 Mya in a grass-feeding lineage of Hesperiinae when open-habitat grasslands appeared in the Neotropics owing to gradual cooling of the atmospheric temperature. The evolution of monocot feeding strongly influenced diversification of skippers. We hypothesize that although monocot feeding was an intrinsic trait that allowed exploration of novel niches, the lack of extensive availability of monocots comprised an extrinsic limitation for niche exploration. The shifts in diversification rate coincided with paleoclimatic events during which grasses and forest monocots were diversified.

Molecular phylogeny and morphological change in the Psittacula parakeets.

PubMed

Groombridge, Jim J; Jones, Carl G; Nichols, Richard A; Carlton, Mark; Bruford, Michael W

2004-04-01

We reconstruct a phylogeny of the African and Asian Psittacula parakeets using approximately 800bp of mitochondrial cytochrome b sequence to examine their evolutionary relationships in reference to their head plumage and major morphological tail innovations. Our phylogeny identifies three groups, whose distinctiveness is also apparent from their possession of three different head plumage characters: a neck ring, a distinctive colouration of the head, and a 'moustache'-shaped pattern that extends from the chin to the cheek. We examine the extent of sexual dimorphism in tail length across the phylogeny and reveal large differences between closely related forms. We apply a range of published avian cytochrome b substitution rates to our data, as an alternative to internal calibration of a molecular clock arising from incomplete paleontological information. An ancestral Psittacula form appears to have evolved during the late Miocene-early Pliocene (3.4-9.7MYA), a time when regional geological processes on the Asian continent may have promoted subsequent diversity at the species level, and many forms diverged relatively early on in the evolutionary history of Psittacula (between 2.5 and 7.7MYA). However, others, such as the derbyan and moustached parakeets, diverged as recently as 0.2MYA. Our phylogeny also suggests that the echo parakeet from Mauritius diverged from the Indian ringneck parakeet as opposed to the African ringneck, and may have done so relatively recently. The molecular results indicate support for a southwards radiation from India across the Indian Ocean to Mauritius, where the arrival-date of the echo parakeet appears consistent with the island's volcanic formation.

Residues in fish, wildlife, and estuaries. Indicator species near top of food chain chosen for assessment of pesticide base levels in fish and wildlife--clams, oysters, and sediment in estuarine environment

USGS Publications Warehouse

Johnson, R.E.; Carver, T.C.; Dustman, E.H.

1967-01-01

Federal efforts to determine pesticide levels in fish and wildlife are being carried out by the Bureau of Sport Fisheries and Wildlife, U. S. Department of the Interior. Monitoring estuarine pesticide levels in clams, oysters, and sediments is a joint endeavor of the Bureau of Commercial Fisheries, U. S. Department of the Interior, and the Water Supply and Sea Resources Program of the National Center for Urban and Industrial Health, Public Health Service, U. S. Department of Health, Education, and Welfare.

Separation of solute and particulate vectors of heavy metal uptake in controlled suspension-feeding experiments with Macoma balthica

USGS Publications Warehouse

Harvey, R.W.; Luoma, S.N.

1985-01-01

Radioisotope labelling experiments with the estuarine clam, Macoma balthica, are described, in which a filter chamber device was used to separate solute metal uptake from uptake, of metals associated with suspended bacteria. Solute uptake contributed a majority of the 14-day total body burdens of 65Zn and 109Cd, whereas 57Co uptake largely resulted from ingestion of isotope-laden bacteria. In contrast to those for 109Cd and 65Zn, 57Co tissue distributions at 3 weeks differed significantly (p < 0.05) between feeding and non-feeding clams (housed within filter chambers). ?? 1985 Dr W. Junk Publishers.

Reproductive Cycle of Hard Clam, Meretrix lyrata Sowerby, 1851 (Bivalvia: Veneridae) from Sarawak, Malaysia.

PubMed

Hamli, Hadi; Idris, Mohd Hanafi; Rajaee, Amy Halimah; Kamal, Abu Hena Mustafa

2015-12-01

A study of the reproductive cycle of the hard clam, Meretrix lyrata, was documented based on histological observation and Gonad Index (GI). Samples were taken from estuarine waters of the Buntal River in Sarawak, Malaysia. The gonad of M. lyrata started to develop in September 2013. Gametogenesis continued to develop until the maturation and spawning stage from February to April 2014. The GI pattern for a one-year cycle showed a significant correlation with chlorophyll a. The corresponding GI with chlorophyll a suggested that the development of the reproductive cycle of M. lyrata required a high amount of food to increase gametogenesis.

Reproductive Cycle of Hard Clam, Meretrix lyrata Sowerby, 1851 (Bivalvia: Veneridae) from Sarawak, Malaysia

PubMed Central

Hamli, Hadi; Idris, Mohd Hanafi; Rajaee, Amy Halimah; Kamal, Abu Hena Mustafa

2015-01-01

A study of the reproductive cycle of the hard clam, Meretrix lyrata, was documented based on histological observation and Gonad Index (GI). Samples were taken from estuarine waters of the Buntal River in Sarawak, Malaysia. The gonad of M. lyrata started to develop in September 2013. Gametogenesis continued to develop until the maturation and spawning stage from February to April 2014. The GI pattern for a one-year cycle showed a significant correlation with chlorophyll a. The corresponding GI with chlorophyll a suggested that the development of the reproductive cycle of M. lyrata required a high amount of food to increase gametogenesis. PMID:26868710

Soundscapes and Larval Settlement: Larval Bivalve Responses to Habitat-Associated Underwater Sounds.

PubMed

Eggleston, David B; Lillis, Ashlee; Bohnenstiehl, DelWayne R

2016-01-01

We quantified the effects of habitat-associated sounds on the settlement response of two species of bivalves with contrasting habitat preferences: (1) Crassostrea virginicia (oyster), which prefers to settle on other oysters, and (2) Mercenaria mercenaria (clam), which settles on unstructured habitats. Oyster larval settlement in the laboratory was significantly higher when exposed to oyster reef sound compared with either off-reef or no-sound treatments. Clam larval settlement did not vary according to sound treatments. Similar to laboratory results, field experiments showed that oyster larval settlement in "larval housings" suspended above oyster reefs was significantly higher compared with off-reef sites.

Toxic effects of multi-walled carbon nanotubes on bivalves: Comparison between functionalized and nonfunctionalized nanoparticles.

PubMed

De Marchi, Lucia; Neto, Victor; Pretti, Carlo; Figueira, Etelvina; Chiellini, Federica; Morelli, Andrea; Soares, Amadeu M V M; Freitas, Rosa

2018-05-01

Despite of the large array of available carbon nanotube (CNT) configurations that allow different industrial and scientific applications of these nanoparticles, their impacts on aquatic organisms, especially on invertebrate species, are still limited. To our knowledge, no information is available on how surface chemistry alteration (functionalization) of CNTs may impact the toxicity of these NPs to bivalve species after a chronic exposure. For this reason, the impacts induced by chronic exposure (28days) to unfunctionalized MWCNTs (Nf-MWCNTs) in comparison with functionalized MWCNTs (f-MWCNTs), were evaluated in R. philippinarum, by measuring alterations induced in clams' oxidative status, neurotoxicity and metabolic capacity. The results obtained revealed that exposure to both MWCNT materials altered energy-related responses, with higher metabolic capacity and lower glycogen, protein and lipid concentrations in clams exposed to these CNTs. Moreover, R. philippinarum exposed to Nf-MWCNTs and f-MWCNTs showed oxidative stress expressed in higher lipid peroxidation and lower ratio between reduced and oxidized glutathione, despite the activation of defense mechanisms (superoxide-dismutase, glutathione peroxidase and glutathione S-transferases) in exposed clams. Additionally, neurotoxicity was observed by inhibition of Cholinesterases activity in organisms exposed to both MWCNTs. Copyright © 2017 Elsevier B.V. All rights reserved.

Do you see what I see? Optical morphology and visual capability of ‘disco’ clams (Ctenoides ales)

PubMed Central

Dubielzig, Richard R.; Schobert, Charles S.; Teixeira, Leandro B.; Li, Jingchun

2017-01-01

ABSTRACT The ‘disco’ clam Ctenoides ales (Finlay, 1927) is a marine bivalve that has a unique, vivid flashing display that is a result of light scattering by silica nanospheres and rapid mantle movement. The eyes of C. ales were examined to determine their visual capabilities and whether the clams can see the flashing of conspecifics. Similar to the congener C. scaber, C. ales exhibits an off-response (shadow reflex) and an on-response (light reflex). In field observations, a shadow caused a significant increase in flash rate from a mean of 3.9 Hz to 4.7 Hz (P=0.0016). In laboratory trials, a looming stimulus, which increased light intensity, caused a significant increase in flash rate from a median of 1.8 Hz to 2.2 Hz (P=0.0001). Morphological analysis of the eyes of C. ales revealed coarsely-packed photoreceptors lacking sophisticated structure, resulting in visual resolution that is likely too low to detect the flashing of conspecifics. As the eyes of C. ales are incapable of perceiving conspecific flashing, it is likely that their vision is instead used to detect predators. PMID:28396488

Transformation of chiral polychlorinated biphenyls (PCBs) in a stream food web

USGS Publications Warehouse

Dang, V.D.; Walters, D.M.; Lee, C.M.

2010-01-01

The enantiomeric composition of chiral PCB congeners was determined in Twelvemile Creek (Clemson, SC) to examine potential mechanisms of biotransformation in a stream food web. We measured enantiomeric fractions (EFs) of six PCB atropisomers (PCBs 84, 91, 95, 136, 149, and 174) in surface sediment, fine benthic organic matter (FBOM), coarse particulate organic matter (CPOM), periphyton, Asian clam, mayflies, yellowfin shiner, and semipermeable membrane devices (SPMDs) using gas chromatography (GC-ECD). Nonracemic EFs of PCBs 91, 95, 136, and 149 were measured in almost all samples. Enantiomeric compositions of PCBs 84 and 174 were infrequently detected with racemic EFs measured in samples except for a nonracemic EF of PCB 84 in clams. Nonracemic EFs of PCBs 91, 136, and 149 in SPMDs may be due to desorption of nonracemic residues from FBOM. EFs for some atropisomers were significantly different among FBOM, CPOM, and periphyton, suggesting that their microbial communities have different biotransformation processes. Nonracemic EFs in clams and fish suggest both in vivo biotransformation and uptake of nonracemic residues from their food sources. Longitudinal variability in EFs was generally low among congeners observed in matrices. ?? 2010 American Chemical Society.

Crystal and Solution Structures of a Prokaryotic M16B Peptidase: an Open and Shut Case

PubMed Central

Aleshin, Alexander E.; Gramatikova, Svetlana; Hura, Gregory L.; Bobkov, Andrey; Strongin, Alex Y.; Stec, Boguslaw; Tainer, John A.; Liddington, Robert C.; Smith, Jeffrey W.

2013-01-01

SUMMARY The M16 family of zinc peptidases comprises a pair of homologous domains that form two halves of a ‘‘clam-shell’’ surrounding the active site. The M16A and M16C subfamilies form one class (‘‘peptidasomes’’): they degrade 30–70 residue peptides, and adopt both open and closed conformations. The eukaryotic M16B subfamily forms a second class (‘‘processing proteases’’): they adopt a single partly-open conformation that enables them to cleave signal sequences from larger proteins. Here, we report the solution and crystal structures of a prokaryotic M16B peptidase, and demonstrate that it has features of both classes: thus, it forms stable ‘‘open’’ homodimers in solution that resemble the processing proteases; but the clam-shell closes upon binding substrate, a feature of the M16A/C peptidasomes. Moreover, clam-shell closure is required for proteolytic activity. We predict that other prokaryotic M16B family members will form dimeric peptidasomes, and propose a model for the evolution of the M16 family. PMID:19913481

Tissue Distribution and Elimination of Ciguatoxins in Tridacna maxima (Tridacnidae, Bivalvia) Fed Gambierdiscus polynesiensis.

PubMed

Roué, Mélanie; Darius, Hélène Taiana; Ung, André; Viallon, Jérôme; Sibat, Manoella; Hess, Philipp; Amzil, Zouher; Chinain, Mireille

2018-05-10

Ciguatera is a foodborne disease caused by the consumption of seafood contaminated with ciguatoxins (CTXs). Ciguatera-like poisoning events involving giant clams ( Tridacna maxima ) are reported occasionally from Pacific islands communities. The present study aimed at providing insights into CTXs tissue distribution and detoxification rate in giant clams exposed to toxic cells of Gambierdiscus polynesiensis , in the framework of seafood safety assessment. In a first experiment, three groups of tissue (viscera, flesh and mantle) were dissected from exposed individuals, and analyzed for their toxicity using the neuroblastoma cell-based assay (CBA-N2a) and liquid chromatography-tandem mass spectrometry (LC-MS/MS) analyses. The viscera, flesh, and mantle were shown to retain 65%, 25%, and 10% of the total toxin burden, respectively. All tissues reached levels above the safety limit recommended for human consumption, suggesting that evisceration alone, a practice widely used among local populations, is not enough to ensure seafood safety. In a second experiment, the toxin content in contaminated giant clams was followed at different time points (0, 2, 4, and 6 days post-exposure). Observations suggest that no toxin elimination is visible in T. maxima throughout 6 days of detoxification.

Study on the Impact Resistance of Bionic Layered Composite of TiC-TiB2/Al from Al-Ti-B4C System

PubMed Central

Zhao, Qian; Liang, Yunhong; Zhang, Zhihui; Li, Xiujuan; Ren, Luquan

2016-01-01

Mechanical property and impact resistance mechanism of bionic layered composite was investigated. Due to light weight and high strength property, white clam shell was chosen as bionic model for design of bionic layered composite. The intercoupling model between hard layer and soft layer was identical to the layered microstructure and hardness tendency of the white clam shell, which connected the bionic design and fabrication. TiC-TiB2 reinforced Al matrix composites fabricated from Al-Ti-B4C system with 40 wt. %, 50 wt. % and 30 wt. % Al contents were treated as an outer layer, middle layer and inner layer in hard layers. Pure Al matrix was regarded as a soft layer. Compared with traditional homogenous Al-Ti-B4C composite, bionic layered composite exhibited high mechanical properties including flexural strength, fracture toughness, compressive strength and impact toughness. The intercoupling effect of layered structure and combination model of hard and soft played a key role in high impact resistance of the bionic layered composite, proving the feasibility and practicability of the bionic model of a white clam shell. PMID:28773827

Uptake and loss kinetics of Cd, Cr and Zn in the bivalves Potamocorbula amurensis and Macoma balthica: Effects of size and salinity

USGS Publications Warehouse

Lee, B.-G.; Wallace, W.G.; Luoma, S.N.

1998-01-01

Radiotracer studies were employed to quantitatively compare the biokinetics of uptake from the dissolved phase (influx rates) and loss (efflux) between 2 bivalves, Potamocorbula amurensis and Macoma balthica, and among the metals Cd, Cr and Zn. Effects of salinity on influx rate were evaluated in these 2 highly euryhaline species as were effects of animal size on uptake and loss. Metal speciation and biological attributes interacted to differentiate bioaccumulation processes among metals and between species. Influx rates of the 3 metals (??g g-1 [dry wt] d-1) increased linearly with dissolved metal concentrations. Influx rates of Zn in both clams were 3 to 4x those for Cd and 15x those for Cr. However, influx on the basis of free ion activities would be faster for Cd than for Zn. Relative influx rates among the metals were similar in the 2 bivalves. But, absolute influx rates of all 3 metals were 4 to 5x greater in P. amurensis than in M. balthica, probably because of differences in biological attributes (i.e. clearance rate or gill surface area). As salinity was reduced from 30 to 5 psu, the influx rate of Cd for P. amurensis increased 4-fold and that for M. balthica increased 6-fold, consistent with expected changes in speciation. However the influx rates of Cr in both clams also increased 2.4-fold over the same range, indicating a biological contribution to the salinity effect. Influx rates of Zn were not significantly affected by salinity. Weight specific metal influx rates (??g g-1 [dry wt] d-1) were negatively correlated with the tissue dry weight of the clams, but most rate constants determining physiological turnover of assimilated metals were not affected by clam size. The exception was the rate constant for Cd loss, which resulted in faster turnover in large M. balthica than in smaller clams. The rate constant of loss for P. amurensis increased in the order of Cd (0.011 d-1) < Zn (0.027 d-1) < Cr (0.048 d-1). This was different from the hierarchy of rate constants for M. balthica: Zn (0.012 d-1) < Cd (0.018 d-1) < Cr (0.024 d-1).

Symposium: Assessment

ERIC Educational Resources Information Center

Anson, Chris M.; Perelman, Les; Poe, Mya; Sommers, Nancy

2008-01-01

This article presents four symposium papers on assessment. It includes: (1) "Closed Systems and Standardized Writing Tests" (Chris M. Anson); (2) "Information Illiteracy and Mass Market Writing Assessments" (Les Perelman); (3) "Genre, Testing, and the Constructed Realities of Student Achievement" (Mya Poe); and (4)…

Using a multi-gene approach to infer the complicated phylogeny and evolutionary history of lorises (Order Primates: Family Lorisidae).

PubMed

Munds, Rachel A; Titus, Chelsea L; Eggert, Lori S; Blomquist, Gregory E

2018-05-25

Extensive phylogenetic studies have found robust phylogenies are modeled by using a multi-gene approach and sampling from the majority of the taxa of interest. Yet, molecular studies focused on the lorises, a cryptic primate family, have often relied on one gene, or just mitochondrial DNA, and many were unable to include all four genera in the analyses, resulting in inconclusive phylogenies. Past phylogenetic loris studies resulted in lorises being monophyletic, paraphyletic, or an unresolvable trichotomy with the closely related galagos. The purpose of our study is to improve our understanding of loris phylogeny and evolutionary history by using a multi-gene approach. We used the mitochondrial genes cytochrome b, and cytochrome c oxidase subunit 1, along with a nuclear intron (recombination activating gene 2) and nuclear exon (the melanocortin 1 receptor). Maximum Likelihood and Bayesian phylogenetic analyses were conducted based on data from each locus, as well as on the concatenated sequences. The robust, concatenated results found lorises to be a monophyletic family (Lorisidae) (PP ≥ 0.99) with two distinct subfamilies: the African Perodictinae (PP ≥ 0.99) and the Asian Lorisinae (PP ≥ 0.99). Additionally, from these analyses all four genera were all recovered as monophyletic (PP ≥ 0.99). Some of our single-gene analyses recovered monophyly, but many had discordances, with some showing paraphyly or a deep-trichotomy. Bayesian partitioned analyses inferred the most recent common ancestors of lorises emerged ∼42 ± 6 million years ago (mya), the Asian Lorisinae separated ∼30 ± 9 mya, and Perodictinae arose ∼26 ± 10 mya. These times fit well with known historical tectonic shifts of the area, as well as with the sparse loris fossil record. Additionally, our results agree with previous multi-gene studies on Lorisidae which found lorises to be monophyletic and arising ∼40 mya (Perelman et al., 2011; Pozzi et al., 2014). By taking a multi-gene approach, we were able to recover a well-supported, monophyletic loris phylogeny and inferred the evolutionary history of this cryptic family. Copyright © 2018 Elsevier Inc. All rights reserved.

Identification of a heat shock cognate protein 70 gene in Chinese soft-shell turtle (Pelodiscus sinensis) and its expression profiles under thermal stress*

PubMed Central

Li, Xiao-liang; Kang, Yue; Zhang, Xiao-yan; Zhu, Bing-lin; Fang, Wei-huan

2012-01-01

The heat shock cognate protein 70 (Hsc70) is a member of a 70-kDa heat shock protein (HSP70) family that functions as molecular chaperones. In this study, a novel Hsc70 gene from Chinese soft-shelled turtle (Pelodiscus sinensis) (tHsc70) was identified. The tHsc70 full-length complementary DNA (cDNA) is 2 272 bp long with a 1 941-bp open reading frame (ORF) encoding 646 amino acids. Three characteristic signature regions of the HSP70 family, two major domains of an adenosine triphosphate (ATP)/guanosine triphosphate (GTP) binding domain (ABD), and a substrate-binding domain (SBD) were present in the predicted tHsc70 amino acid sequence. The tHsc70 gene was expressed in Escherichia coli BL21 and the expression product reacted with the anti-Hsc70 mouse monoclonal antibody by Western blotting. Homology analysis revealed that tHsc70 shared identity from 53.9% to 87.7% at the nucleotide level, and 49.1% to 99.5% at the amino acid level with the known Hsc70s. Phylogenetic analysis showed that tHsc70 was clustered together with the Hsc70 gene of another reptile species (Alligator mississippiensis). The tHsc70 was expressed in the liver, lung, heart, and skeletal muscle. The expression patterns of tHsc70 messenger RNA (mRNA) differed among different tissues under different durations of heat stress at 40 °C. Adaptation at 25 °C for 1 h after heat stress was also different among tissues and length of heat stress. Irrespective of different profiles of expression under heat stress, tHsc70 may play roles in protecting turtles from thermal stress. PMID:22661209

[Thermal tolerance, diel variation of body temperature, and thermal dependence of locomotor performance of hatchling soft-shelled turtles, Trionyx sinensis].

PubMed

Sun, Pingyue; Xu, Xiaoyin; Chen, Huili; Ji, Xiang

2002-09-01

The thermal tolerance, body temperature, and influence of temperature on locomotor performance of hatchling soft-shelled turtles (Trionyx sinensis) were studied under dry and wet conditions, and the selected body temperature of hatchlings was 28.0 and 30.3 degrees C, respectively. Under wet condition, the critical thermal maximum and minimum averaged 40.9 and 7.8 degrees C, respectively. In the environments without thermal gradients, the diel variation of body temperature was highly consistent with the variation of both air and water temperatures, and the body temperature was more directly affected by water temperature than by air temperature, which implied that the physiological thermoregulation of hatchling T. sinensis was very weak. In the environments with thermal gradients, hatchling turtles could maintain relatively high and constant body temperatures, primarily through behavioral thermoregulation. The locomotor performance of hatchling turtles was highly dependent on their body temperature. Within a certain range, the locomotor performance increased with increasing body temperature. In our study, the optimal body temperature for locomotor performance was 31.5 degrees C, under which, the maximum continuous running distance, running distance per minute, and number of stops per minute averaged 1.87 m, 4.92 m.min-1, and 6.2 times.min-1, respectively. The correspondent values at 33.0 degrees C averaged 1.30 m, 4.28 m.min-1, and 7.7 times.min-1, respectively, which indicated that the locomotor performance of hatchling turtles was impaired at 33.0 degrees C. Therefore, extremely high body temperatures might have an adverse effect on locomotor performance of hatchling turtles.

Chromosomal Context Affects the Molecular Evolution of Sex-linked Genes and Their Autosomal Counterparts in Turtles and Other Vertebrates.

PubMed

Radhakrishnan, Srihari; Valenzuela, Nicole

2017-10-30

Sex chromosomes evolve differently from autosomes because natural selection acts distinctly on them given their reduced recombination and smaller population size. Various studies of sex-linked genes compared with different autosomal genes within species support these predictions. Here, we take a novel alternative approach by comparing the rate of evolution between subsets of genes that are sex-linked in selected reptiles/vertebrates and the same genes located in autosomes in other amniotes. We report for the first time the faster evolution of Z-linked genes in a turtle (the Chinese softshell turtle Pelodiscus sinensis) relative to autosomal orthologs in other taxa, including turtles with temperature-dependent sex determination (TSD). This faster rate was absent in its close relative, the spiny softshell turtle (Apalone spinifera), thus revealing important lineage effects, and was only surpassed by mammalian-X linked genes. In contrast, we found slower evolution of X-linked genes in the musk turtle Staurotypus triporcatus (XX/XY) and homologous Z-linked chicken genes. TSD lineages displayed overall faster sequence evolution than taxa with genotypic sex determination (GSD), ruling out global effects of GSD on molecular evolution beyond those by sex-linkage. Notably, results revealed a putative selective sweep around two turtle genes involved in vertebrate gonadogenesis (Pelodiscus-Z-linked Nf2 and Chrysemys-autosomal Tspan7). Our observations reveal important evolutionary changes at the gene level mediated by chromosomal context in turtles despite their low overall evolutionary rate and illuminate sex chromosome evolution by empirically testing expectations from theoretical models. Genome-wide analyses are warranted to test the generality and prevalence of the observed patterns. © The American Genetic Association 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Effects of flow dynamics on the aquatic-terrestrial transition zone (ATTZ) of lower Missouri river sandbars with implications for selected biota

USGS Publications Warehouse

Tracy-Smith, Emily; Galat, David L.; Jacobson, Robert B.

2012-01-01

Sandbars are an important aquatic terrestrial transition zone (ATTZ) in the active channel of rivers that provide a variety of habitat conditions for riverine biota. Channelization and flow regulation in many large rivers have diminished sandbar habitats and their rehabilitation is a priority. We developed sandbar-specific models of discharge-area relationships to determine how changes in flow regime affect the area of different habitat types within the submerged sandbar ATTZ (depth) and exposed sandbar ATTZ (elevation) for a representative sample of Lower Missouri River sandbars. We defined six different structural habitat types within the sandbar ATTZ based on depth or exposed elevation ranges that are important to different biota during at least part of their annual cycle for either survival or reproduction. Scenarios included the modelled natural flow regime, current managed flow regime and two environmental flow options, all modelled within the contemporary river active channel. Thirteen point and wing-dike sandbars were evaluated under four different flow scenarios to explore the effects of flow regime on seasonal habitat availability for foraging of migratory shorebirds and wading birds, nesting of softshell turtles and nursery of riverine fishes. Managed flows provided more foraging habitat for shorebirds and wading birds and more nursery habitat for riverine fishes within the channelized reach sandbar ATTZ than the natural flow regime or modelled environmental flows. Reduced summer flows occurring under natural and environmental flow alternatives increased exposed sandbar nesting habitat for softshell turtle hatchling emergence. Results reveal how management of channelized and flow regulated large rivers could benefit from a modelling framework that couples hydrologic and geomorphic characteristics to predict habitat conditions for a variety of biota.

Near-Field Receiving Water Monitoring of Trace Metals and a Benthic Community Near the Palo Alto Regional Water Quality Control Plant in South San Francisco Bay, California: 2007

USGS Publications Warehouse

Lorenzi, Allison H.; Cain, Daniel J.; Parcheso, Francis; Thompson, Janet K.; Luoma, Samuel N.; Hornberger, Michelle I.; Dyke, Jessica

2008-01-01

Results reported herein include trace element concentrations in sediment and in the clam Macoma petalum (formerly reported as Macoma balthica (Cohen and Carlton 1995)), clam reproductive activity, and benthic macroinvertebrate community structure for a mudflat one kilometer south of the discharge of the Palo Alto Regional Water Quality Control Plant in South San Francisco Bay. This report includes data collected for the period January 2007 to December 2007, and extends a critical long-term biogeochemical record dating back to 1974. These data serve as the basis for the City of Palo Alto?s Near-Field Receiving Water Monitoring Program, initiated in 1994. Metal concentrations in both sediments and clam tissue during 2007 remained consistent with results observed since 1990. Most notably, copper and silver concentrations in sediment and clam tissue are elevated for the second consecutive year, but the values remain well within the range of past findings. Other metals such as chromium, nickel, vanadium, and zinc remained relatively constant throughout the year except for maximum values that generally occur in winter months (January-March). Mercury levels in sediment and clam tissue were some of the lowest seen on record. Last year?s elevated selenium levels appear to be transient, and selenium concentrations have returned to background levels. Overall, metal concentrations in sediments and tissue remain within past findings. Analyses of the benthic-community structure of a mudflat in South San Francisco Bay over a 31-year period show that changes in the community have occurred concurrent with reduced concentrations of metals in the sediment and in the tissues of the biosentinel clam, M. petalum, from the same area. Analysis of the reproductive activity of M. petalum shows increases in reproductive activity concurrent with the decline in metal concentrations in the tissues of this organism. Reproductive activity is presently stable, with almost all animals initiating reproduction in the fall and spawning the following spring of most years. The community has shifted from being dominated by several opportunistic species to a community where the species are more similar in abundance, a pattern that suggests a more stable community that is subjected to less stress. In addition, two of the opportunistic species (Ampelisca abdita and Streblospio benedicti) that brood their young and live on the surface of the sediment in tubes, have shown a continual decline in dominance coincident with the decline in metals. Heteromastus filiformis, a subsurface polychaete worm that lives in the sediment, consumes sediment and organic particles residing in the sediment, and reproduces by laying their eggs on or in the sediment, has shown a concurrent increase in dominance and is now showing signs of population stability. These changes in species dominance reflect a change in the community from one dominated by surface dwelling, brooding species to one with species with varying life history characteristics.

Cookery method and endpoint temperature can affect the Warner-Bratzler shear force, cooking loss, and internal cooked color of beef semimembranosus and infraspinatus steaks.

PubMed

Yancey, J W S; Apple, J K; Wharton, M D

2016-10-01

Steaks from USDA Select inside rounds (Exp. 1) and shoulder clods (Exp. 2) were used to test the interactive effect of cookery method and endpoint temperature on Warner-Bratzler shear force (WBSF) and internal cooked color. Pairs of 2.5-cm-thick semimembranosus (SM) or infraspinatus (INF) steaks ( = 360/muscle) were cut from each subprimal, labeled, vacuum packaged, and frozen at -30°C in the dark for approximately 60 d before being cooked to 65.5, 71.1, or 76.6°C using 1) a forced-air convection oven (FAC); 2) a forced-air impingement oven (IMP); 3) a gas-fired, open-hearth charbroiler (CHAR); 4) an electric countertop griddle (GRID); or 5) a clam-shell grill (CLAM). Thawed steaks were cooked to their assigned endpoint temperature × cookery method combination, and, after a 5-min cooling period, steaks were weighed to calculate cooking loss percentage and subsequently sliced perpendicular to the cut surface to measure instrumental cooked color. Then, 6 cores were removed for measurement of WBSF. Cooking losses of SM steaks increased ( < 0.05) with each increase in endpoint temperature, whereas INF steaks cooked on a CHAR had the greatest ( < 0.05) cooking losses and cooking INF steaks with the GRID and the CLAM resulted in lesser ( < 0.05) cooking losses than cooking with the FAC and the IMP. Cooking SM steaks on the CHAR resulted in greater ( < 0.05) WBSF values than all other cookery methods when cooked to 65.5 and 76.6°C and greater ( < 0.05) WBSF values than those cooked on the FAC, GRID, and CLAM when cooked to 71.1°C. Shear force values were greater ( < 0.05) for INF steaks cooked to 71.1 and 76.6°C than those cooked to 65.5°C, but INF WBSF values were similar ( = 0.55) among cookery methods. At 65.5°C, FAC-cooked SM steaks were redder ( < 0.05) than those cooked with the GRID and the IMP and, at 71.1°C, CLAM-cooked SM steaks were redder ( < 0.05) than FAC- and IMP-cooked SM steaks; however, a* values were similar ( > 0.05) among cookery methods when cooked to 76.6°C. Redness did not ( > 0.05) differ among INF steaks cooked to 65.5 and 71.1°C with the FAC and the CHAR, whereas internal color of INF steaks cooked in the IMP and the FAC was redder ( < 0.05) than that of INF steaks cooked with the CLAM and the GRID to 76.6°C. Results suggest that endpoint temperature has a greater impact on cooking properties of SM and INF steaks than cookery method, yet it is apparent that internal cooked color of INF and SM steaks react differently to some cookery method-endpoint temperature combinations.

KSC-03PD-1830

NASA Technical Reports Server (NTRS)

2003-01-01

KENNEDY SPACE CENTER, FLA. A closeup of a soft-shell turtle seen crossing the tow-way at KSC. The turtle is one of 65 amphibians and reptiles found in the Merritt Island National Wildlife Refuge, which surrounds KSC. The Wildlife Refuge encompasses 92,000 acres that are also a habitat for more than 331 species of birds, 31 mammals and 117 fishes. The marshes and open water of the refuge provide wintering areas for 23 species of migratory waterfowl, as well as a year-round home for great blue herons, great egrets, wood storks, cormorants, brown pelicans and other species of marsh and shore birds, plus a variety of insects.

KSC-03PD-1829

NASA Technical Reports Server (NTRS)

2003-01-01

KENNEDY SPACE CENTER, FLA. A soft-shell turtle with only three legs is seen crossing the tow-way at KSC. The turtle is one of 65 amphibians and reptiles found in the Merritt Island National Wildlife Refuge, which surrounds KSC. The Wildlife Refuge encompasses 92,000 acres that are also a habitat for more than 331 species of birds, 31 mammals and 117 fishes. The marshes and open water of the refuge provide wintering areas for 23 species of migratory waterfowl, as well as a year-round home for great blue herons, great egrets, wood storks, cormorants, brown pelicans and other species of marsh and shore birds, plus a variety of insects.

The effects of copper on Na(+)/K (+)-ATPase and aquaporin expression in two euryhaline invertebrates.

PubMed

Boyle, R T; Oliveira, L F; Bianchini, A; Souza, M M

2013-03-01

We used immunocytochemical and fluorometric techniques to show that gill cells of two marine invertebrates, the crab Neohelice granulata (osmoregulator) and the clam Mesodesma mactroides (osmoconformer), increase the expression of membrane transporters [Na(+)/K(+)-ATPase and aquaporin (AQP1)] after whole-animals exposure (96 h) to sublethal concentrations of copper in water of salinity 30 ppt, when both clams and crabs are isosmotic with respect to the environmental medium. A plausible interpretation of our findings is that this increased expression in membrane transporters may serve as an attempt to ameliorate the deleterious effects of copper on the mechanisms involved in ion and volume regulation in gill cells.

Foraging behavior of Long-tailed Ducks in a ferry wake

USGS Publications Warehouse

Perry, Matthew C.

2012-01-01

Clangula hyemalis (Long-tailed Ducks) were observed diving in the wake of the Nantucket Island ferry during December over a 5-year period (2005–2009). The unusual diving behavior appeared to be related to foraging, but could not be confirmed. Long-tailed Ducks typically feed on more mobile prey than most other diving ducks, and it is speculated that the propeller wash in shallow water dislodged or disturbed prey and provided an enhanced feeding opportunity. Long-tailed Ducks collected while feeding in a disturbed area near a clamming boat not far from the ferry channel were feeding predominantly on Crangon septemspinosa (Sand Shrimp) that apparently had been dislodged by the clamming operation.

Asiatic clam (Corbicula manilensis) and other foods used by waterfowl in the James River, Virginia

USGS Publications Warehouse

Perry, M.C.; Uhler, F.M.

1981-01-01

Corbicula manilensis was found in the gizzards of 24 ducks of 5 species taken from the James River, Virginia, between 1973 and 1976. Percent average volume in these species ranged from trace to 6%. This is the first known occurrence of this exotic clam in the food of duck in Chesapeake Bay. A total of 135 other food items was identified from the 116 gizzards of 9 species that were examined. Food that predominated included Cyperus spp., Leersia oryzoides, Polygonum spp., and Zea mays. The great diversity of food consumed in this fresh tidal section of the James River indicates the high value of these wetlands to waterfowl.

Marked phylogeographic structure of Gentoo penguin reveals an ongoing diversification process along the Southern Ocean.

PubMed

Vianna, Juliana A; Noll, Daly; Dantas, Gisele P M; Petry, Maria Virginia; Barbosa, Andrés; González-Acuña, Daniel; Le Bohec, Céline; Bonadonna, Francesco; Poulin, Elie

2017-02-01

Two main hypotheses have been debated about the biogeography of the Southern Ocean: (1) the Antarctic Polar Front (APF), acting as a barrier between Antarctic and sub-Antarctic provinces, and (2) the Antarctic Circumpolar Current (ACC), promoting gene flow among sub-Antarctic areas. The Gentoo penguin is distributed throughout these two provinces, separated by the APF. We analyzed mtDNA (HVR1) and 12 microsatellite loci of 264 Gentoo penguins, Pygoscelis papua, from 12 colonies spanning from the Western Antarctic Peninsula and the South Shetland Islands (WAP) to the sub-Antarctic Islands (SAI). While low genetic structure was detected among WAP colonies (mtDNA Ф ST =0.037-0.133; microsatellite F ST =0.009-0.063), high differentiation was found between all SAI and WAP populations (mtDNA Ф ST =0.678-0.930; microsatellite F ST =0.110-0.290). These results suggest that contemporary dispersal around the Southern Ocean is very limited or absent. As predicted, the APF appears to be a significant biogeographical boundary for Gentoo penguin populations; however, the ACC does not promote connectivity in this species. Our data suggest demographic expansion in the WAP during the last glacial maximum (LGM, about 20kya), but stability in SAI. Phylogenetic analyses showed a deep divergence between populations from the WAP and those from the SAI. Therefore, taxonomy should be further revised. The Crozet Islands resulted as a basal clade (3.57Mya), followed by the Kerguelen Islands (2.32Mya) as well as a more recent divergence between the Falkland/Malvinas Islands and the WAP (1.27Mya). Historical isolation, local adaptation, and past climate scenarios of those Evolutionarily Significant Units may have led to different potentials to respond to climate changes. Copyright © 2016 Elsevier Inc. All rights reserved.

Speciation of polyploid Cyprinidae fish of common carp, crucian carp, and silver crucian carp derived from duplicated Hox genes.

PubMed

Yuan, Jian; He, Zhuzi; Yuan, Xiangnan; Jiang, Xiayun; Sun, Xiaowen; Zou, Shuming

2010-09-15

Recent studies on comparative genomics have suggested that a round of fish-specific whole genome duplication (3R) in ray-finned fishes might have occurred around 226-316 Mya. Additional genome duplication, specifically in cyprinids, may have occurred more recently after the divergence of the teleosts. The timing of this event, however, is unknown. To address this question, we sequenced four Hox genes from taxa representing the polyploid Cyprinidae fish, common carp (Cyprinus carpio, 2n=100), crucian carp (Carassius auratus auratus, 2n=100), and silver crucian carp (C. auratus gibelio, 2n=156), and then compared them with known sequences from the diploid Cyprinidae fish, blunt snout bream (Megalobrama amblycephala, 2n=48). Our results showed the presence of two distinct Hox duplicates in the genomes of common and crucian carp. Three distinct Hox sequences, one of them orthologous to a Hox gene in common carp and the other two orthologous to a Hox gene in crucian carp, were isolated in silver crucian carp, indicating a possible hybrid origin of silver crucian carp from crucian and common carp. The gene duplication resulting in the origin of the common ancestor of common and crucian carp likely occurred around 10.9-13.2 Mya. The speciations of common vs. crucian carp and silver crucian vs. crucian carp likely occurred around 8.1-11.4 and 2.3-3.0 Mya, respectively. Finally, nonfunctionalization resulting from point mutations in the coding region is a probable fate for some Hox duplicates. Taken together, these results suggested an evolutionary model for polyploidization in speciation and diversification of polyploid fish. (c) 2010 Wiley-Liss, Inc.

Isolation drives increased diversification rates in freshwater amphipods.

PubMed

Adams, Nicole E; Inoue, Kentaro; Seidel, Richard A; Lang, Brian K; Berg, David J

2018-06-14

Vicariance and dispersal events affect current biodiversity patterns in desert springs. Whether major diversification events are due to environmental changes leading to radiation or due to isolation resulting in relict species is largely unknown. We seek to understand whether the Gammarus pecos species complex underwent major diversification events due to environmental changes in the area leading either to radiation into novel habitats, or formation of relicts due to isolation. Specifically, we tested the hypothesis that Gammarus in the northern Chihuahuan Desert of New Mexico and Texas, USA are descendants of an ancient marine lineage now containing multiple undescribed species. We sequenced a nuclear (28S) and two mitochondrial (16S, COI) genes from gammarid amphipods representing 16 desert springs in the northern Chihuahuan Desert. We estimated phylogenetic relationships, divergence time, and diversification rates of the Gammarus pecos complex. Our results revealed that the region contained two evolutionarily independent lineages: a younger Freshwater Lineage that shared a most-recent-common-ancestor with an older Saline Lineage ∼66.3 MYA (95.6 - 42.4 MYA). Each spring system generally formed a monophyletic clade based on the concatenated dataset. Freshwater Lineage diversification rates were 2.0 - 9.8 times higher than rates of the Saline Lineage. A series of post-Cretaceous colonizations by ancestral Gammarus taxa was likely followed by isolation. Paleo-geological, hydrological, and climatic events in the Neogene-to-Quaternary periods (23.03 MYA - present) in western North America promoted allopatric speciation of both lineages. We suggest that Saline Lineage populations represent two undescribed Gammarus species, while the Freshwater Lineage shows repetition of fine-scale genetic structure in all major clades suggesting incipient speciation. Such ongoing speciation suggests that this region will continue to be a biodiversity hotspot for amphipods and other freshwater taxa. Copyright © 2018. Published by Elsevier Inc.

Mitochondrial DNA phylogeography of the Norway rat.

PubMed

Song, Ying; Lan, Zhenjiang; Kohn, Michael H

2014-01-01

Central Eastern Asia, foremost the area bordering northern China and Mongolia, has been thought to be the geographic region where Norway rats (Rattus norvegicus) have originated. However recent fossil analyses pointed to their origin in southern China. Moreover, whereas analyses of fossils dated the species' origin as ∼ 1.2-1.6 million years ago (Mya), molecular analyses yielded ∼ 0.5-2.9 Mya. Here, to study the geographic origin of the Norway rat and its spread across the globe we analyzed new and all published mitochondrial DNA cytochrome-b (cyt-b; N = 156) and D-loop (N = 212) sequences representing wild rats from four continents and select inbred strains. Our results are consistent with an origin of the Norway rat in southern China ∼ 1.3 Mya, subsequent prehistoric differentiation and spread in China and Asia from an initially weakly structured ancestral population, followed by further spread and differentiation across the globe during historic times. The recent spreading occurred mostly from derived European populations rather than from archaic Asian populations. We trace laboratory strains to wild lineages from Europe and North America and these represent a subset of the diversity of the rat; leaving Asian lineages largely untapped as a resource for biomedical models. By studying rats from Europe we made the observation that mtDNA diversity cannot be interpreted without consideration of pest control and, possibly, the evolution of rodenticide resistance. However, demographic models explored by forward-time simulations cannot fully explain the low mtDNA diversity of European rats and lack of haplotype sharing with their source from Asia. Comprehensive nuclear marker analyses of a larger sample of Norway rats representing the world are needed to better resolve the evolutionary history of wild rats and of laboratory rats, as well as to better understand the evolution of anticoagulant resistance.

First fossil of an oestroid fly (Diptera: Calyptratae: Oestroidea) and the dating of oestroid divergences.

PubMed

Cerretti, Pierfilippo; Stireman, John O; Pape, Thomas; O'Hara, James E; Marinho, Marco A T; Rognes, Knut; Grimaldi, David A

2017-01-01

Calyptrate flies include about 22,000 extant species currently classified into Hippoboscoidea (tsetse, louse, and bat flies), the muscoid grade (house flies and relatives) and the Oestroidea (blow flies, bot flies, flesh flies, and relatives). Calyptrates are abundant in nearly all terrestrial ecosystems, often playing key roles as decomposers, parasites, parasitoids, vectors of pathogens, and pollinators. For oestroids, the most diverse group within calyptrates, definitive fossils have been lacking. The first unambiguous fossil of Oestroidea is described based on a specimen discovered in amber from the Dominican Republic. The specimen was identified through digital dissection by CT scans, which provided morphological data for a cladistic analysis of its phylogenetic position among extant oestroids. The few known calyptrate fossils were used as calibration points for a molecular phylogeny (16S, 28S, CAD) to estimate the timing of major diversification events among the Oestroidea. Results indicate that: (a) the fossil belongs to the family Mesembrinellidae, and it is identified and described as Mesembrinella caenozoica sp. nov.; (b) the mesembrinellids form a sister clade to the Australian endemic Ulurumyia macalpinei (Ulurumyiidae) (McAlpine's fly), which in turn is sister to all remaining oestroids; (c) the most recent common ancestor of extant Calyptratae lived just before the K-Pg boundary (ca. 70 mya); and (d) the radiation of oestroids began in the Eocene (ca. 50 mya), with the origin of the family Mesembrinellidae dated at ca. 40 mya. These results provide new insight into the timing and rate of oestroid diversification and highlight the rapid radiation of some of the most diverse and ecologically important families of flies. ZooBank accession number-urn:lsid:zoobank.org:pub:0DC5170B-1D16-407A-889E-56EED3FE3627.

A novel chimeric low-molecular-weight glutenin subunit gene from the wild relatives of wheat Aegilops kotschyi and Ae. juvenalis: evolution at the Glu-3 loci.

PubMed

Li, Xiaohui; Ma, Wujun; Gao, Liyan; Zhang, Yanzhen; Wang, Aili; Ji, Kangmin; Wang, Ke; Appels, Rudi; Yan, Yueming

2008-09-01

Four LMW-m and one novel chimeric (between LMW-i and LMW-m types) low-molecular-weight glutenin subunit (LMW-GS) genes from Aegilops neglecta (UUMM), Ae. kotschyi (UUSS), and Ae. juvenalis (DDMMUU) were isolated and characterized. Sequence structures showed that the 4 LMW-m-type genes, assigned to the M genome of Ae. neglecta, displayed a high homology with those from hexaploid common wheat. The novel chimeric gene, designed as AjkLMW-i, was isolated from both Ae. kotschyi and Ae. juvenalis and shown to be located on the U genome. Phylogentic analysis demonstrated that it had higher identity to the LMW-m-type than the LMW-i-type genes. A total of 20 single nucleotide polymorphisms (SNPs) were detected among the 4 LMW-m genes, with 13 of these being nonsynonymous SNPs that resulted in amino acid substitutions in the deduced mature proteins. Phylogenetic analysis demonstrated that it had higher identity to the LMW-m-type than the LMW-i-type genes. The divergence time estimation showed that the M and D genomes were closely related and diverged at 5.42 million years ago (MYA) while the differentiation between the U and A genomes was 6.82 MYA. We propose that, in addition to homologous recombination, an illegitimate recombination event on the U genome may have occurred 6.38 MYA and resulted in the generation of the chimeric gene AjkLMW-i, which may be an important genetic mechanism for the origin and evolution of LMW-GS Glu-3 alleles as well as other prolamin genes.

A dated molecular phylogeny of manta and devil rays (Mobulidae) based on mitogenome and nuclear sequences.

PubMed

Poortvliet, Marloes; Olsen, Jeanine L; Croll, Donald A; Bernardi, Giacomo; Newton, Kelly; Kollias, Spyros; O'Sullivan, John; Fernando, Daniel; Stevens, Guy; Galván Magaña, Felipe; Seret, Bernard; Wintner, Sabine; Hoarau, Galice

2015-02-01

Manta and devil rays are an iconic group of globally distributed pelagic filter feeders, yet their evolutionary history remains enigmatic. We employed next generation sequencing of mitogenomes for nine of the 11 recognized species and two outgroups; as well as additional Sanger sequencing of two mitochondrial and two nuclear genes in an extended taxon sampling set. Analysis of the mitogenome coding regions in a Maximum Likelihood and Bayesian framework provided a well-resolved phylogeny. The deepest divergences distinguished three clades with high support, one containing Manta birostris, Manta alfredi, Mobula tarapacana, Mobula japanica and Mobula mobular; one containing Mobula kuhlii, Mobula eregoodootenkee and Mobula thurstoni; and one containing Mobula munkiana, Mobula hypostoma and Mobula rochebrunei. Mobula remains paraphyletic with the inclusion of Manta, a result that is in agreement with previous studies based on molecular and morphological data. A fossil-calibrated Bayesian random local clock analysis suggests that mobulids diverged from Rhinoptera around 30 Mya. Subsequent divergences are characterized by long internodes followed by short bursts of speciation extending from an initial episode of divergence in the Early and Middle Miocene (19-17 Mya) to a second episode during the Pliocene and Pleistocene (3.6 Mya - recent). Estimates of divergence dates overlap significantly with periods of global warming, during which upwelling intensity - and related high primary productivity in upwelling regions - decreased markedly. These periods are hypothesized to have led to fragmentation and isolation of feeding regions leading to possible regional extinctions, as well as the promotion of allopatric speciation. The closely shared evolutionary history of mobulids in combination with ongoing threats from fisheries and climate change effects on upwelling and food supply, reinforces the case for greater protection of this charismatic family of pelagic filter feeders. Copyright © 2014 Elsevier Inc. All rights reserved.

First fossil of an oestroid fly (Diptera: Calyptratae: Oestroidea) and the dating of oestroid divergences

PubMed Central

Stireman, John O.; Pape, Thomas; O’Hara, James E.; Marinho, Marco A. T.; Rognes, Knut; Grimaldi, David A.

2017-01-01

Calyptrate flies include about 22,000 extant species currently classified into Hippoboscoidea (tsetse, louse, and bat flies), the muscoid grade (house flies and relatives) and the Oestroidea (blow flies, bot flies, flesh flies, and relatives). Calyptrates are abundant in nearly all terrestrial ecosystems, often playing key roles as decomposers, parasites, parasitoids, vectors of pathogens, and pollinators. For oestroids, the most diverse group within calyptrates, definitive fossils have been lacking. The first unambiguous fossil of Oestroidea is described based on a specimen discovered in amber from the Dominican Republic. The specimen was identified through digital dissection by CT scans, which provided morphological data for a cladistic analysis of its phylogenetic position among extant oestroids. The few known calyptrate fossils were used as calibration points for a molecular phylogeny (16S, 28S, CAD) to estimate the timing of major diversification events among the Oestroidea. Results indicate that: (a) the fossil belongs to the family Mesembrinellidae, and it is identified and described as Mesembrinella caenozoica sp. nov.; (b) the mesembrinellids form a sister clade to the Australian endemic Ulurumyia macalpinei (Ulurumyiidae) (McAlpine’s fly), which in turn is sister to all remaining oestroids; (c) the most recent common ancestor of extant Calyptratae lived just before the K–Pg boundary (ca. 70 mya); and (d) the radiation of oestroids began in the Eocene (ca. 50 mya), with the origin of the family Mesembrinellidae dated at ca. 40 mya. These results provide new insight into the timing and rate of oestroid diversification and highlight the rapid radiation of some of the most diverse and ecologically important families of flies. ZooBank accession number–urn:lsid:zoobank.org:pub:0DC5170B-1D16-407A-889E-56EED3FE3627. PMID:28832610

Diversification of Genes Encoding Granule-Bound Starch Synthase in Monocots and Dicots Is Marked by Multiple Genome-Wide Duplication Events

PubMed Central

Qiu, Wen-Ming; Li, Jing; Zhou, Hui; Zhang, Qiong; Guo, Wenwu; Zhu, Tingting; Peng, Junhua; Sun, Fengjie; Li, Shaohua; Korban, Schuyler S.; Han, Yuepeng

2012-01-01

Starch is one of the major components of cereals, tubers, and fruits. Genes encoding granule-bound starch synthase (GBSS), which is responsible for amylose synthesis, have been extensively studied in cereals but little is known about them in fruits. Due to their low copy gene number, GBSS genes have been used to study plant phylogenetic and evolutionary relationships. In this study, GBSS genes have been isolated and characterized in three fruit trees, including apple, peach, and orange. Moreover, a comprehensive evolutionary study of GBSS genes has also been conducted between both monocots and eudicots. Results have revealed that genomic structures of GBSS genes in plants are conserved, suggesting they all have evolved from a common ancestor. In addition, the GBSS gene in an ancestral angiosperm must have undergone genome duplication ∼251 million years ago (MYA) to generate two families, GBSSI and GBSSII. Both GBSSI and GBSSII are found in monocots; however, GBSSI is absent in eudicots. The ancestral GBSSII must have undergone further divergence when monocots and eudicots split ∼165 MYA. This is consistent with expression profiles of GBSS genes, wherein these profiles are more similar to those of GBSSII in eudicots than to those of GBSSI genes in monocots. In dicots, GBSSII must have undergone further divergence when rosids and asterids split from each other ∼126 MYA. Taken together, these findings suggest that it is GBSSII rather than GBSSI of monocots that have orthologous relationships with GBSS genes of eudicots. Moreover, diversification of GBSS genes is mainly associated with genome-wide duplication events throughout the evolutionary course of history of monocots and eudicots. PMID:22291904

Identification of a regulation network in response to cadmium toxicity using blood clam Tegillarca granosa as model

PubMed Central

Bao, Yongbo; Liu, Xiao; Zhang, Weiwei; Cao, Jianping; Li, Wei; Li, Chenghua; Lin, Zhihua

2016-01-01

Clam, a filter-feeding lamellibranch mollusk, is capable to accumulate high levels of trace metals and has therefore become a model for investigation the mechanism of heavy metal toxification. In this study, the effects of cadmium were characterized in the gills of Tegillarca granosa during a 96-hour exposure course using integrated metabolomic and proteomic approaches. Neurotoxicity and disturbances in energy metabolism were implicated according to the metabolic responses after Cd exposure, and eventually affected the osmotic function of gill tissue. Proteomic analysis showed that oxidative stress, calcium-binding and sulfur-compound metabolism proteins were key factors responding to Cd challenge. A knowledge-based network regulation model was constructed with both metabolic and proteomic data. The model suggests that Cd stimulation mainly inhibits a core regulation network that is associated with histone function, ribosome processing and tight junctions, with the hub proteins actin, gamma 1 and Calmodulin 1. Moreover, myosin complex inhibition causes abnormal tight junctions and is linked to the irregular synthesis of amino acids. For the first time, this study provides insight into the proteomic and metabolomic changes caused by Cd in the blood clam T. granosa and suggests a potential toxicological pathway for Cd. PMID:27760991

Conversion of Biowaste Asian Hard Clam (Meretrix lusoria) Shells into White-Emitting Phosphors for Use in Neutral White LEDs.

PubMed

Chang, Tsung-Yuan; Wang, Chih-Min; Lin, Tai-Yuan; Lin, Hsiu-Mei

2016-12-02

The increasing volume and complexity of waste associated with the modern economy poses a serious risk to ecosystems and human health. However, the remanufacturing and recycling of waste into usable products can lead to substantial resource savings. In the present study, clam shell waste was first transformed into pure and well-crystallized single-phase white light-emitting phosphor Ca₉Gd(PO₄)₇:Eu 2+ ,Mn 2+ materials. The phosphor Ca₉Gd(PO₄)₇:Eu 2+ ,Mn 2+ materials were synthesized by the solid-state reaction method and the carbothermic reduction process, and then characterized and analyzed by means of X-ray diffraction (XRD) and photoluminescence (PL) measurements. The structural and luminescent properties of the phosphors were investigated as well. The PL and quantum efficiency measurements showed that the luminescence properties of clam shell-based phosphors were comparable to that of the chemically derived phosphors. Moreover, white light-emitting diodes were fabricated through the integration of 380 nm chips and single-phase white light-emitting phosphors (Ca 0.979 Eu 0.006 Mn 0.015 )₉Gd(PO₄)₇ into a single package of a white light emitting diode (WLED) emitting a neutral white light of 5298 K with color coordinates of (0.337, 0.344).

Conversion of Biowaste Asian Hard Clam (Meretrix lusoria) Shells into White-Emitting Phosphors for Use in Neutral White LEDs

PubMed Central

Chang, Tsung-Yuan; Wang, Chih-Min; Lin, Tai-Yuan; Lin, Hsiu-Mei

2016-01-01

The increasing volume and complexity of waste associated with the modern economy poses a serious risk to ecosystems and human health. However, the remanufacturing and recycling of waste into usable products can lead to substantial resource savings. In the present study, clam shell waste was first transformed into pure and well-crystallized single-phase white light-emitting phosphor Ca9Gd(PO4)7:Eu2+,Mn2+ materials. The phosphor Ca9Gd(PO4)7:Eu2+,Mn2+ materials were synthesized by the solid-state reaction method and the carbothermic reduction process, and then characterized and analyzed by means of X-ray diffraction (XRD) and photoluminescence (PL) measurements. The structural and luminescent properties of the phosphors were investigated as well. The PL and quantum efficiency measurements showed that the luminescence properties of clam shell-based phosphors were comparable to that of the chemically derived phosphors. Moreover, white light-emitting diodes were fabricated through the integration of 380 nm chips and single-phase white light-emitting phosphors (Ca0.979Eu0.006Mn0.015)9Gd(PO4)7 into a single package of a white light emitting diode (WLED) emitting a neutral white light of 5298 K with color coordinates of (0.337, 0.344). PMID:28774101

Adaption of the microbial community to continuous exposures of multiple residual antibiotics in sediments from a salt-water aquacultural farm.

PubMed

Xi, Xiuping; Wang, Min; Chen, Yongshan; Yu, Shen; Hong, Youwei; Ma, Jun; Wu, Qian; Lin, Qiaoyin; Xu, Xiangrong

2015-06-15

Residual antibiotics from aquacultural farming may alter microbial community structure in aquatic environments in ways that may adversely or positively impact microbially-mediated ecological functions. This study investigated 26 ponds (26 composited samples) used to produce fish, razor clam and shrimp (farming and drying) and 2 channels (10 samples) in a saltwater aquacultural farm in southern China to characterize microbial community structure (represented by phospholipid fatty acids) in surface sediments (0-10 cm) with long-term exposure to residual antibiotics. 11 out of 14 widely-used antibiotics were quantifiable at μg kg(-1) levels in sediments but their concentrations did not statistically differ among ponds and channels, except norfloxacin in drying shrimp ponds and thiamphenicol in razor clam ponds. Concentrations of protozoan PLFAs were significantly increased in sediments from razor clam ponds while other microbial groups were similar among ponds and channels. Both canonical-correlation and stepwise-multiple-regression analyses on microbial community and residual antibiotics suggested that roxithromycin residuals were significantly related to shifts in microbial community structure in sediments. This study provided field evidence that multiple residual antibiotics at low environmental levels from aquacultural farming do not produce fundamental shifts in microbial community structure. Copyright © 2015 Elsevier B.V. All rights reserved.

A light-dependent ammonia-assimilating mechanism in the ctenidia of a giant clam

NASA Astrophysics Data System (ADS)

Hiong, Kum C.; Choo, Celine Y. L.; Boo, Mel V.; Ching, Biyun; Wong, Wai P.; Chew, Shit F.; Ip, Yuen K.

2017-03-01

Giant clams harbor symbiotic zooxanthellae and manifest light-enhanced calcification. In light, they also increase the absorption and assimilation of exogenous ammonia, but the roles of the host and symbionts are unclear and the reason for light dependency remains enigmatic. Here, we report the complete coding cDNA sequence of a glutamine synthetase (GS), from the ctenidia (gill) of Tridacna squamosa. The deduced GS amino acid sequence was closely related to other animal GSs, indicating a host origin. The GS/GS transcript level and protein abundance increased significantly in the ctenidia after 12 h of light exposure. These results denote the ctenidia as the site of light-enhanced ammonia absorption with the absorbed ammonia being assimilated to glutamine by the host GS. Immunofluorescence microscopy confirmed that GS was expressed predominantly in the cytoplasm of the epithelial cells separating the tertiary water channels from the hemolymph inside the ctenidia. Hence, unlike symbiotic cnidarians, the host clam probably supplies exogenous nitrogen as glutamine from the ctenidia, through the hemolymph and tubular fluid, to the nitrogen-deficient zooxanthellae which reside extracellularly in the extensible outer mantle. This is the first report on light-dependent gene and protein expression of a host enzyme involved in nitrogen metabolism in an alga-invertebrate association.

Cypermethrin-Induced Toxic Effect on Glycogen Metabolism in Estuarine Clam, Marcia Opima (Gmelin, 1791) of Ratnagiri Coast, Maharashtra

PubMed Central

Tendulkar, Medha; Kulkarni, Arvind

2012-01-01

Cypermethrin is a synthetic pyrethroid class of insecticide. Toxic effects of cypermethrin were studied by selecting Marcia opima as an animal model. Cypermethrins effect on the total glycogen content of mantle, gill, foot, hepatopancreas, male gonad and a female gonad of an estuarine clam, Marcia opima was examined. The clams were exposed to 1.58 ppm cypermethrin for acute and 1/10th of that concentration for chronic treatment. It was found that there was a decrease in glycogen content in various tissues as compared to control. In LC0 and LC50 groups, glycogen was decreased in all tissues except in hepatopancreas compared to control. This decrease is greater in mantle, gill, and foot in LC50 group than the decrease in those tissues of LC0 group. In chronic exposure it was found that glycogen was decreased in mantle, foot, male gonad, and female gonad when compared to the control group except in gill and hepatopancreas. Decrease in glycogen content indicates greater utilization of glycogen for metabolic purposes and too combat with cypermethrin stress. The significant increase in glycogen content in gill and hepatopancreas may be a reaction to the increase in energy demand. PMID:22577376

Water-quality assessment of the Albemarle-Pamlico Drainage Basin, North Carolina and Virginia; organochlorine compounds in Asiatic clam (Corbicula fluminea) soft tissues and whole redbrest sunfish (Lepomis auritus) 1992-93

USGS Publications Warehouse

Smith, K.E.; Ruhl, P.M.

1996-01-01

The analysis of potential contaminants in biological tissues is an important part of many water-quality assessment programs, including the National Water-Quality Assessment (NAWQA) Program. Tissue analyses often are used to provide information about (1) direct threats to ecosystem integrity, and (2) the occurrence and distribution of potential contaminants in the environment. During 1992-93, Asiatic clam (Corbicula fluminea) soft tissues and whole redbreast sunfish (Lepomis auritus) samples were collected and analyzed to obtain information about the occurrence and distribution of organochlorine compounds in the Albemarle-Pamlico drainage Basin of North Carolina and Virginia. The investigation was conducted as part of the NAWQA Program. Relatively few organochlorine compounds were detected and of the compounds detected, all were detected in relatively low concentrations. The organochlorine compounds detected were p,p'-DDD, p,p'-DDE, p,p'-DDT, dieldrin, trans-nonachlor, PCB's, and toxaphene. Multiple compounds were detected at 16 of 19 sites sampled. Compared to Asiatic clams, redbreast sunfish appear to be better bioindicators of organochlorine contamination in aquatic systems. Except for one detection of toxaphene, pesticide concentrations are well below the National Academy of Sciences and National Academy of Engineering (NAS/NAE) guidelines for the protection of fish-eating wildlife.

Transcriptomic analysis of Ruditapes philippinarum hemocytes reveals cytoskeleton disruption after in vitro Vibrio tapetis challenge.

PubMed

Brulle, Franck; Jeffroy, Fanny; Madec, Stéphanie; Nicolas, Jean-Louis; Paillard, Christine

2012-10-01

The Manila clam, Ruditapes philippinarum, is an economically-important, commercial shellfish; harvests are diminished in some European waters by a pathogenic bacterium, Vibrio tapetis, that causes Brown Ring disease. To identify molecular characteristics associated with susceptibility or resistance to Brown Ring disease, Suppression Subtractive Hybridization (SSH) analyzes were performed to construct cDNA libraries enriched in up- or down-regulated transcripts from clam immune cells, hemocytes, after a 3-h in vitro challenge with cultured V. tapetis. Nine hundred and ninety eight sequences from the two libraries were sequenced, and an in silico analysis identified 235 unique genes. BLAST and "Gene ontology" classification analyzes revealed that 60.4% of the Expressed Sequence Tags (ESTs) have high similarities with genes involved in various physiological functions, such as immunity, apoptosis and cytoskeleton organization; whereas, 39.6% remain unidentified. From the 235 unique genes, we selected 22 candidates based upon physiological function and redundancy in the libraries. Then, Real-Time PCR analysis identified 3 genes related to cytoskeleton organization showing significant variation in expression attributable to V. tapetis exposure. Disruption in regulation of these genes is consistent with the etiologic agent of Brown Ring disease in Manila clams. Copyright © 2012 Elsevier Ltd. All rights reserved.

Range expansion of an exotic Siberian prawn to the Lower Snake River

USGS Publications Warehouse

Haskell, Craig A.; Baxter, Rex D.; Tiffan, Kenneth F.

2006-01-01

The introduction of non-native plant and animal species in aquatic systems is of increasing concern because of their potentially negative ecological and economic impacts (Sytsma et al. 2004). There are many examples of food web repercussions resulting from non-native invertebrate introductions. For example, in Flathead Lake, Montana, the kokanee salmon (Oncorhynchus nerka) population crashed after the introduction of a planktivorous mysid, My-sis relicta caused restructuring of the zooplankton community (Spencer et al. 1991) and the introduc-tion of the spiny water flea (Bythotrephes spp.) to the Great Lakes also restructured zooplankton communities (Barbiero and Tuchman 2004). The zebra mussel (Dreissena polymorpha) has nearly extirpated some native unionid clams through competition for food and shell fouling (Strayer 1999). In San Francisco Bay, California, one of the most highly invaded estuaries in the world (Cohen and Carlton 1998), the benthic fauna has been highly modified by the introduction of hundreds of exotic invertebrates including the Chinese mitten crab (Eriocheir sinensis) and the Asian clam, Potamocorbula amurensis. Non-native invertebrate species, including the New Zealand mud snail (Potamopyrgus antipodarum) and an-other Asian clam, Corbicula fluminea, have also been introduced to the Columbia River (Sytsma et al. 2004), but the ecological effects to Columbia River species are largely unknown.

Effects of particulate carbonaceous matter on the bioavailability of benzo[a]pyrene and 2,2‘,5,5‘-tetrachlorobiphenyl to the clam, Macoma balthica

USGS Publications Warehouse

McLeod, Pamela B.; van den Heuvel-Greve, Martine J.; Allen-King, Richelle M.; Luoma, Samuel N.; Luthy, Richard G.

2004-01-01

We investigated the bioavailability via diet of spiked benzo[a]pyrene (BaP) and 2,2‘,5,5‘-tetrachlorobiphenyl (PCB-52) from different carbonaceous (non-carbonate, carbon containing) particle types to clams (Macoma balthica) collected from San Francisco Bay. Our results reveal significant differences in absorption efficiency between compounds and among carbonaceous particle types. Absorption efficiency for PCB-52 was always greater than that for BaP bound to a given particle type. Among particles, absorption efficiency was highest from wood and diatoms and lowest from activated carbon. Large differences in absorption efficiency could not be simply explained by comparatively small differences in the particles' total organic carbon content. BaP and PCB-52 bound to activated carbon exhibited less than 2% absorption efficiency and were up to 60 times less available to clams than the same contaminants associated with other types of carbonaceous matter. These results suggest that variations in the amount and type of sediment particulate carbonaceous matter, whether naturally occurring or added as an amendment, will have a strong influence on the bioavailability of hydrophobic organic contaminants. This has important implications for environmental risk assessment, sediment management, and development of novel remediation techniques.

Effects of particulate carbonaceous matter on the bioavailability of benzo[a]pyrene and 2,2'5,5'-tetrachlorobiphenyl to the clam, Macoma balthica

USGS Publications Warehouse

McLeod, Pamela B.; van den Heuvel-Greve, Martine J.; Allen-King, Richelle M.; Luoma, Samuel N.; Luthy, Richard G.

2004-01-01

We investigated the bioavailability via diet of spiked benzo[a]pyrene (BaP) and 2,2‘,5,5‘-tetrachlorobiphenyl (PCB-52) from different carbonaceous (non-carbonate, carbon containing) particle types to clams (Macoma balthica) collected from San Francisco Bay. Our results reveal significant differences in absorption efficiency between compounds and among carbonaceous particle types. Absorption efficiency for PCB-52 was always greater than that for BaP bound to a given particle type. Among particles, absorption efficiency was highest from wood and diatoms and lowest from activated carbon. Large differences in absorption efficiency could not be simply explained by comparatively small differences in the particles' total organic carbon content. BaP and PCB-52 bound to activated carbon exhibited less than 2% absorption efficiency and were up to 60 times less available to clams than the same contaminants associated with other types of carbonaceous matter. These results suggest that variations in the amount and type of sediment particulate carbonaceous matter, whether naturally occurring or added as an amendment, will have a strong influence on the bioavailability of hydrophobic organic contaminants. This has important implications for environmental risk assessment, sediment management, and development of novel remediation techniques.

Of dups and dinos: evolution at the K/Pg boundary.

PubMed

Lohaus, Rolf; Van de Peer, Yves

2016-04-01

Fifteen years into sequencing entire plant genomes, more than 30 paleopolyploidy events could be mapped on the tree of flowering plants (and many more when also transcriptome data sets are considered). While some genome duplications are very old and have occurred early in the evolution of dicots and monocots, or even before, others are more recent and seem to have occurred independently in many different plant lineages. Strikingly, a majority of these duplications date somewhere between 55 and 75 million years ago (mya), and thus likely correlate with the K/Pg boundary. If true, this would suggest that plants that had their genome duplicated at that time, had an increased chance to survive the most recent mass extinction event, at 66mya, which wiped out a majority of plant and animal life, including all non-avian dinosaurs. Here, we review several processes, both neutral and adaptive, that might explain the establishment of polyploid plants, following the K/Pg mass extinction. Copyright © 2016 The Authors. Published by Elsevier Ltd.. All rights reserved.

A MySQL Based EPICS Archiver

DOE Office of Scientific and Technical Information (OSTI.GOV)

Christopher Slominski

2009-10-01

Archiving a large fraction of the EPICS signals within the Jefferson Lab (JLAB) Accelerator control system is vital for postmortem and real-time analysis of the accelerator performance. This analysis is performed on a daily basis by scientists, operators, engineers, technicians, and software developers. Archiving poses unique challenges due to the magnitude of the control system. A MySQL Archiving system (Mya) was developed to scale to the needs of the control system; currently archiving 58,000 EPICS variables, updating at a rate of 11,000 events per second. In addition to the large collection rate, retrieval of the archived data must also bemore » fast and robust. Archived data retrieval clients obtain data at a rate over 100,000 data points per second. Managing the data in a relational database provides a number of benefits. This paper describes an archiving solution that uses an open source database and standard off the shelf hardware to reach high performance archiving needs. Mya has been in production at Jefferson Lab since February of 2007.« less

Continuously growing rodent molars result from a predictable quantitative evolutionary change over 50 million years

PubMed Central

Mushegyan, Vagan; Eronen, Jussi T.; Lawing, A. Michelle; Sharir, Amnon; Janis, Christine; Jernvall, Jukka; Klein, Ophir D.

2015-01-01

Summary The fossil record is widely informative about evolution, but fossils are not systematically used to study the evolution of stem cell-driven renewal. Here, we examined evolution of the continuous growth (hypselodonty) of rodent molar teeth, which is fuelled by the presence of dental stem cells. We studied occurrences of 3500 North American rodent fossils, ranging from 50 million years ago (mya) to 2 mya. We examined changes in molar height to determine if evolution of hypselodonty shows distinct patterns in the fossil record, and we found that hypselodont taxa emerged through intermediate forms of increasing crown height. Next, we designed a Markov simulation model, which replicated molar height increases throughout the Cenozoic, and, moreover, evolution of hypselodonty. Thus, by extension, the retention of the adult stem-cell niche appears to be a predictable quantitative rather than a stochastic qualitative process. Our analyses predict that hypselodonty will eventually become the dominant phenotype. PMID:25921530

Molecular systematics and biogeography of the circumglobally distributed genus Seriola (Pisces: Carangidae).

PubMed

Swart, Belinda L; von der Heyden, Sophie; Bester-van der Merwe, Aletta; Roodt-Wilding, Rouvay

2015-12-01

The genus Seriola includes several important commercially exploited species and has a disjunct distribution globally; yet phylogenetic relationships within this genus have not been thoroughly investigated. This study reports the first comprehensive molecular phylogeny for this genus based on mitochondrial (Cytb) and nuclear gene (RAG1 and Rhod) DNA sequence data for all extant Seriola species (nine species, n=27). All species were found to be monophyletic based on Maximum parsimony, Maximum likelihood and Bayesian inference. The closure of the Tethys Sea (12-20 MYA) coincides with the divergence of a clade containing ((S. fasciata and S. peruana), S. carpenteri) from the rest of the Seriola species, while the formation of the Isthmus of Panama (±3 MYA) played an important role in the divergence of S. fasciata and S. peruana. Furthermore, factors such as climate and water temperature fluctuations during the Pliocene played important roles during the divergence of the remaining Seriola species. Copyright © 2015 Elsevier Inc. All rights reserved.

Subcellular compartmentalization of Cd and Zn in two bivalves. I. Significance of metal-sensitive fractions (MSF) and biologically detoxified metal (BDM)

USGS Publications Warehouse

Wallace, W.G.; Lee, B.-G.; Luoma, S.N.

2003-01-01

Many aspects of metal accumulation in aquatic invertebrates (i.e. toxicity, tolerance and trophic transfer) can be understood by examining the subcellular partitioning of accumulated metal. In this paper, we use a compartmentalization approach to interpret the significance of metal, species and size dependence in the subcellular partitioning of Cd and Zn in the bivalves Macoma balthica and Potamocorbula amurensis. Of special interest is the compartmentalization of metal as metal-sensitive fractions (MSF) (i.e. organelles and heat-sensitive proteins, termed 'enzymes' hereafter) and biologically detoxified metal (BDM) (i.e. metallothioneins [MT] and metal-rich granules [MRG]). Clams from San Francisco Bay, CA, were exposed for 14 d to seawater (20??? salinity) containing 3.5 ??g l-1 Cd and 20.5 ??g l-1 Zn, including 109Cd and 65Zn as radiotracers. Uptake was followed by 21 d of depuration. The subcellular partitioning of metal within clams was examined following exposure and loss. P. amurensis accumulated ???22x more Cd and ???2x more Zn than M. balthica. MT played an important role in the storage of Cd in P. amurensis, while organelles were the major site of Zn accumulation. In M. balthica, Cd and Zn partitioned similarly, although the pathway of detoxification was metal-specific (MRG for Cd; MRG and MT for Zn). Upon loss, M. balthica depurated ???40% of Cd with Zn being retained; P. amurensis retained Cd and depurated Zn (???40%). During efflux, Cd and Zn concentrations in the MSF compartment of both clams declined with metal either being lost from the animal or being transferred to the BDM compartment. Subcellular compartmentalization was also size-dependent, with the importance of BDM increasing with clam size; MSF decreased accordingly. We hypothesized that progressive retention of metal as BDM (i.e. MRG) with age may lead to size dependency of metal concentrations often observed in some populations of M. balthica.

Epidemiological evidence of lesser role of thermostable direct hemolysin (TDH)-related hemolysin (TRH) than TDH on Vibrio parahaemolyticus pathogenicity.

PubMed

Saito, Shioko; Iwade, Yoshito; Tokuoka, Eisuke; Nishio, Tomohiro; Otomo, Yoshimitsu; Araki, Emiko; Konuma, Hirotaka; Nakagawa, Hiroshi; Tanaka, Hiroyuki; Sugiyama, Kanji; Hasegawa, Akio; Sugita-Konishi, Yoshiko; Hara-Kudo, Yukiko

2015-02-01

Vibrio parahaemolyticus carrying the tdh gene, encoding the thermostable direct hemolysin (TDH), or the trh gene, encoding the TDH-related hemolysin (TRH), are both considered virulent strains. There are, however, disproportionally fewer reports of infections caused by seafood contaminated with trh-positive strains than by seafood contaminated with tdh-positive strains. Bivalves such as clams and oysters are the major seafood varieties associated with the infections. In this study, the prevalence of strains possessing the tdh and trh genes was investigated in Japan in 74 samples collected in 2007-2008 and in 177 samples collected in 2010 of domestic bivalves, bloody clams, hen clams, short-neck clams, and rock oysters. The tdh-positive and trh-negative, tdh-negative and trh-positive, and tdh-positive and trh-positive samples represented 5.4%, 12.2%, and 4.1% of all samples collected in 2007-2008, and 5.1%, 18.6%, and 5.6% of all samples collected in 2010, respectively. As determined by polymerase chain reaction, the prevalence of tdh negative and trh positive in all samples was two to four times higher than that of tdh positive and trh negative. In the samples collected in 2010, the tdh-negative and trh-positive V. parahaemolyticus (20 samples) was more often isolated than tdh-positive and trh-negative V. parahaemolyticus (7 samples). The most common serotype of tdh-positive isolates (22 of 24 strains) was pandemic O3:K6. The trh-positive isolates (61 strains) were various serotypes including OUT:KUT. In 330 V. parahaemolyticus outbreaks and sporadic infections in Japan, most outbreaks and sporadic infections were caused by tdh-positive and trh-negative strains (89.4%). The frequencies of infections caused by tdh-negative and trh-positive, and both tdh- and trh-positive strains were 1.2% and 3.0%, respectively. This finding suggests that the virulence of trh might be less than that of tdh, although trh-positive V. parahaemolyticus frequently contaminated bivalves.

Characterization and Expression of the Lucina pectinata Oxygen and Sulfide Binding Hemoglobin Genes

PubMed Central

López-Garriga, Juan; Cadilla, Carmen L.

2016-01-01

The clam Lucina pectinata lives in sulfide-rich muds and houses intracellular symbiotic bacteria that need to be supplied with hydrogen sulfide and oxygen. This clam possesses three hemoglobins: hemoglobin I (HbI), a sulfide-reactive protein, and hemoglobin II (HbII) and III (HbIII), which are oxygen-reactive. We characterized the complete gene sequence and promoter regions for the oxygen reactive hemoglobins and the partial structure and promoters of the HbI gene from Lucina pectinata. We show that HbI has two mRNA variants, where the 5’end had either a sequence of 96 bp (long variant) or 37 bp (short variant). The gene structure of the oxygen reactive Hbs is defined by having 4-exons/3-introns with conservation of intron location at B12.2 and G7.0 and the presence of pre-coding introns, while the partial gene structure of HbI has the same intron conservation but appears to have a 5-exon/ 4-intron structure. A search for putative transcription factor binding sites (TFBSs) was done with the promoters for HbII, HbIII, HbI short and HbI long. The HbII, HbIII and HbI long promoters showed similar predicted TFBSs. We also characterized MITE-like elements in the HbI and HbII gene promoters and intronic regions that are similar to sequences found in other mollusk genomes. The gene expression levels of the clam Hbs, from sulfide-rich and sulfide-poor environments showed a significant decrease of expression in the symbiont-containing tissue for those clams in a sulfide-poor environment, suggesting that the sulfide concentration may be involved in the regulation of these proteins. Gene expression evaluation of the two HbI mRNA variants indicated that the longer variant is expressed at higher levels than the shorter variant in both environments. PMID:26824233