Diversity,Abundance and Community Structure of Benthic Macro- and Megafauna on the Beaufort Shelf and Slope

Diversity and community patterns of macro- and megafauna were compared on the Canadian Beaufort shelf and slope. Faunal sampling collected 247 taxa from 48 stations with box core and trawl gear over the summers of 2009–2011 between 50 and 1,000 m in depth. Of the 80 macrofaunal and 167 megafaunal taxa, 23% were uniques, present at only one station. Rare taxa were found to increase proportional to total taxa richness and differ between the shelf ( 100 m) where they tended to be sparse and the slope where they were relatively abundant. The macrofauna principally comprised polychaetes with nephtyid polychaetes dominant on the shelf and maldanid polychaetes (up to 92% in relative abundance/station) dominant on the slope. The megafauna principally comprised echinoderms with Ophiocten sp. (up to 90% in relative abundance/station) dominant on the shelf and Ophiopleura sp. dominant on the slope. Macro- and megafauna had divergent patterns of abundance, taxa richness ( diversity) and diversity. A greater degree of macrofaunal than megafaunal variation in abundance, richness and diversity was explained by confounding factors: location (east-west), sampling year and the timing of sampling with respect to sea-ice conditions. Change in megafaunal abundance, richness and diversity was greatest across the depth gradient, with total abundance and richness elevated on the shelf compared to the slope. We conclude that megafaunal slope taxa were differentiated from shelf taxa, as faunal replacement not nestedness appears to be the main driver of megafaunal diversity across the depth gradient.     

Relationships Between Reef Fish Communities and Remotely Sensed Rugosity Measurements in Biscayne National Park,Florida, USA

The realization that coral reef ecosystem management must occur across multiple spatial scales and habitat types has led scientists and resource managers to seek variables that are easily measured over large areas and correlate well with reef resources. Here we investigate the utility of new technology in airborne laser surveying (NASA Experimental Advanced Airborne Research Lidar (EAARL)) in assessing topographical complexity (rugosity) to predict reef fish community structure on shallow (<10 m deep) patch reefs. Marine portions of Biscayne National Park, Florida, USA, were surveyed remotely using the EAARL, and reef fish populations were visually surveyed on 10 patch reefs at independent, randomly selected stations (n = 10–13 per reef). Rugosity at each station was assessed in situ by divers using the traditional chain-transect method (10-m scale), and remotely using the EAARL submarine topography data at multiple spatial scales (2, 5, and 10 m). The rugosity and biological datasets were analyzed together to elucidate the predictive power of EAARL rugosity in describing the variance in reef fish community variables and to assess the correlation between chain-transect and EAARL rugosity. EAARL rugosity was not well correlated with chain-transect rugosity, or with species richness of fishes (although statistically significant, the amount of variance explained by the model was very low). Variance in reef fish community attributes was better explained in reef-by-reef variability than by physical variables. However, once the reef-by-reef variability was taken into account in a two-way analysis of variance, the importance of rugosity could be seen on individual reefs. Fish species richness and abundance were statistically higher at high rugosity stations compared to medium and low rugosity stations, as predicted by prior ecological research. The EAARL shows promise as an important mapping tool for reef resource managers as they strive to inventory and protect coral reef resources.     

Image Reconstructions of Microtubules Decorated with Monomeric and Dimeric Kinesins: Comparison with X-Ray Structure and Implications for Motility

Thrombospondin (TSP) 2, and its close relative TSP1, are extracellular proteins whose functions are complex, poorly understood, and controversial. In an attempt to determine the function of TSP2, we disrupted the Thbs2 gene by homologous recombination in embryonic stem cells, and generated TSP2-null mice by blastocyst injection and appropriate breeding of mutant animals. Thbs2−/− mice were produced with the expected Mendelian frequency, appeared overtly normal, and were fertile. However, on closer examination, these mice displayed a wide variety of abnormalities. Collagen fiber patterns in skin were disordered, and abnormally large fibrils with irregular contours were observed by electron microscopy in both skin and tendon. As a functional correlate of these findings, the skin was fragile and had reduced tensile strength, and the tail was unusually flexible. Mutant skin fibroblasts were defective in attachment to a substratum. An increase in total density and in cortical thickness of long bones was documented by histology and quantitative computer tomography. Mutant mice also manifested an abnormal bleeding time, and histologic surveys of mouse tissues, stained with an antibody to von Willebrand factor, showed a significant increase in blood vessels. The basis for the unusual phenotype of the TSP2-null mouse could derive from the structural role that TSP2 might play in collagen fibrillogenesis in skin and tendon. However, it seems likely that some of the diverse manifestations of this genetic disorder result from the ability of TSP2 to modulate the cell surface properties of mesenchymal cells, and thus, to affect cell functions such as adhesion and migration.     

Maximum Entropy Reconstructions of Dynamic Signaling Networks from Quantitative Proteomics Data

Advances in mass spectrometry among other technologies have allowed for quantitative, reproducible, proteome-wide measurements of levels of phosphorylation as signals propagate through complex networks in response to external stimuli under different conditions. However, computational approaches to infer elements of the signaling network strictly from the quantitative aspects of proteomics data are not well established. We considered a method using the principle of maximum entropy to infer a network of interacting phosphotyrosine sites from pairwise correlations in a mass spectrometry data set and derive a phosphorylation-dependent interaction network solely from quantitative proteomics data. We first investigated the applicability of this approach by using a simulation of a model biochemical signaling network whose dynamics are governed by a large set of coupled differential equations. We found that in a simulated signaling system, the method detects interactions with significant accuracy. We then analyzed a growth factor mediated signaling network in a human mammary epithelial cell line that we inferred from mass spectrometry data and observe a biologically interpretable, small-world structure of signaling nodes, as well as a catalog of predictions regarding the interactions among previously uncharacterized phosphotyrosine sites. For example, the calculation places a recently identified tumor suppressor pathway through ARHGEF7 and Scribble, in the context of growth factor signaling. Our findings suggest that maximum entropy derived network models are an important tool for interpreting quantitative proteomics data.     

Influence of Coral Reef Rugosity on Fish Communities in Marine Reserves Around Lombok Island,Indonesia

Environmental Biology of Fishes - Coral reef structural form is widely considered a key factor with respect to the availability of shelter and foraging spaces for fishes and invertebrates. However,...     

Abundance and Distribution of Benthic Macroinvertebrates near Little Egg Inlet,New Jersey,from 1972 to 1974

Benthic collections taken during a 34 month period from Little Egg Inlet, New Jersey were dominated by haustoriid amphipods and collections from a nearshore ridge/swale formation were dominated by ampharetid and capitellid polychaetes. Polychaetes were most abundant at the swale station where density was 2.4 to 17.5 times higher than at other stations. Changes in species composition and density were influenced by increases in the silt/clay component of the sediment which was influenced by depth, bottom topography, and exposure to currents.     

Averaging of Viral Envelope Glycoprotein Spikes from Electron Cryotomography Reconstructions using Jsubtomo

Enveloped viruses utilize membrane glycoproteins on their surface to mediate entry into host cells. Three-dimensional structural analysis of these glycoprotein ‘spikes’ is often technically challenging but important for understanding viral pathogenesis and in drug design. Here, a protocol is presented for viral spike structure determination through computational averaging of electron cryo-tomography data. Electron cryo-tomography is a technique in electron microscopy used to derive three-dimensional tomographic volume reconstructions, or tomograms, of pleomorphic biological specimens such as membrane viruses in a near-native, frozen-hydrated state. These tomograms reveal structures of interest in three dimensions, albeit at low resolution. Computational averaging of sub-volumes, or sub-tomograms, is necessary to obtain higher resolution detail of repeating structural motifs, such as viral glycoprotein spikes. A detailed computational approach for aligning and averaging sub-tomograms using the Jsubtomo software package is outlined. This approach enables visualization of the structure of viral glycoprotein spikes to a resolution in the range of 20-40 Å and study of the study of higher order spike-to-spike interactions on the virion membrane. Typical results are presented for Bunyamwera virus, an enveloped virus from the family Bunyaviridae. This family is a structurally diverse group of pathogens posing a threat to human and animal health.     

Benthic hydroids (Cnidaria,Hydrozoa) from the Balleny Islands (Antarctica)

Twenty-two species of benthic hydroids, belonging to ten families and 14 genera, were found in a hydroid collection obtained in the Balleny Islands during the BioRoss expedition with the NIWA research vessel Tangaroa in 2004. Twenty of those species constitute new records for the Balleny Islands, raising the total number of known species in the area to 25. Most are members of the subclass Leptothecata, although the subclass Anthoathecata is also relatively well represented. Kirchenpaueriidae and Sertulariidae constitute families with the greatest numbers of species in the collection, with five species (20%) each. Oswaldella with five species (20%) and Staurotheca with four (16%), were the most diverse genera. Twelve species (63%) are endemic to Antarctic waters, most of them with a circum-Antarctic distribution, and 17 (89%) are restricted to Antarctic or Antarctic/sub-Antarctic waters. Although the Balleny Islands hydroid fauna seems to be a typical Antarctic assemblage, it has some striking peculiarities, namely the absence or low representation of some typical and widespread Antarctic genera (Antarctoscyphus and Schizotricha/Symplectoscyphus, respectively).     

Benthic foraminifera and trace metal distribution: a case study from the Burullus Lagoon,Egypt

Benthic foraminifera are widely used to detect the health of their habitat, where they are very sensitive to even slight variations in the ecosystem. Therefore, the main objectives of this study are to examine the benthic foraminiferal assemblages in the sediments of Burullus Lagoon, evaluate the pollution levels and deduce the impact of trace metals on foraminifera. The continuous discharge of trace metals from agricultural, industrial and domestic sources into the lagoon may lead to a severe environmental problem. The concentrations of Mn, Cu, Cd, Zn and Pb within the sediments were measured. Recently, the assessment of contamination is principally based on the contamination indices which provide fast and simple quantitative values on the degree of pollution in a given aquatic environment. Thus, some indices, including the contamination factor, the degree of contamination, pollution load index, geoaccumulation index, ecological risk factor and potential ecological risk index are applied in this investigation. Based on the contamination factors, the sediments are very highly contaminated with Cd, considerably to very highly contaminated with Cu and Zn, moderately contaminated with Mn, low to moderately contaminated with Pb. All sites display very high values for the degree of contamination. Moreover, the values of the pollution load index are higher than 1, indicating that the lagoon is polluted. Depending on the geoaccumulation index, the contaminants are arranged as follows Cd > Zn > Cu > Mn > Pb. It is clear that Cd is the main contributor to the ecological risk factor in Burullus Lagoon. Concerning the richness of the foraminiferal assemblages, it fluctuates between 1–5 species per sample. Because of its higher tolerance to extreme conditions (changes in salinity and pollution), Ammonia tepida is the most abundant species. The occurrence of rare living individuals (25) is restricted only to sites close to El-Boughaz Inlet where higher salinity and lower levels of pollution are recorded. The same trend of distribution is shown by Cribroelphidium excavatum and miliolids, where they occur at sites with higher salinities. The occurrence of test deformities in all the studied sites may be related to the response of benthic foraminifera to trace metal. The forms of deformation include spiroconvex, reduced chambers, twisted tests, twinning, additional chamber and complex forms. The deformation depends on the nature of pollutants. Twinning and reduced chambers are the most dominant forms in areas close to the agricultural drainage (southern drains), while complex forms are abundant in areas close to industrial drainage (El-Gharbia drain). Thus, salinity and pollution may be the most regulatory factors controlling the distribution of foraminifera. This investigation confirmed the role of benthic foraminifera as a good ecological indicator in Burullus Lagoon.     

Toxicological Aspect of Some Selected Medicinal Plant Samples Collected from Djelfa,Algeria Region

Biological Trace Element Research - Instrumental neutron activation analysis (INAA) has been used to determine the concentration of some toxic chemical elements in a variety of aromatic plants...     

Reproduction of Antarctic Benthic Marine Invertebrates: Tempos, Modes, and Timing

Work on the life histories of common antarctic benthic marineinvertebrates over the past several decades demands a revisionof several widely held paradigms. First, contrary to expectationsderived from work on temperate species, there is little or noevidence for temperature adaptation with respect to reproduction(gametogenesis), development, and growth. It remains to be determinedwhether the slow rates of these processes reflect some inherentinability to adapt to low temperatures, or are a response tofeatures of the antarctic marine environment not directly relatedto low temperature, such as low food resources. Secondly, contraryto the widely accepted opinion designated as "Thorson's rule,"pelagic development is common in many groups of shallow-watermarine invertebrates. In fact in some groups, such as asteroids,pelagicdevelopment is as prevalent in McMurdo Sound, the southern-mostopen-water marine environment in the world, as in central California.In other taxonomic groups, especially gastropods, there doesseem to be a genuine trend toward non-pelagic development fromtropical to antarctic latitudes. Although this trend has beenpredicted by theoretical models, its underlying causes appearto be group specific rather than general. Thirdly, pelagic lecithotrophicdevelopment, often considered to be of negligible importance,occurs in many shallow-water antarctic marine macroinvertebrates.Pelagic lecithotrophy may be an adaptation to a combinationof poor food conditions in antarctic waters most of the yearand slow rates of development. Nevertheless, some of the mostabundant and widespread antarctic marine invertebrates havepelagic planktotrophic larvae that take very long times to completedevelopment to metamorphosis. These species areparticularlyprevalent in productive regions of shallow water (<30 m),which are frequently disturbed by anchor ice formation, andthe production of numerous pelagic planktotrophic larvaemayrepresent a strategy for colonization. Although planktotrophiclarvae tend to be seasonal in occurrence, their production isnot linked particularly closely to the mid-summer pulse of phytoplanktonproduction. These larvae show no evidence of starvation, evenduring times when phytoplankton abundance is very low, and theymay depend on unusual sources of food, such as bacteria. Howthey escape the selective conditions that apparently led toa predominance of non-feeding modes of development in antarcticmarine invertebrates remains as a major challenge for antarcticmarine biology.     

Benthic hydroids (Cnidaria, Hydrozoa) from off Bouvet Island (Antarctic Ocean)

Twenty-seven species of benthic hydroids have been found in a small collection from off Bouvet Island (Antarctic Ocean). The material was obtained during the XXI/2 German Antarctic expedition with R.V. Polarstern 2003–2004. Of the 27 species collected, 21 were unknown from those waters. Consequently, the number of known species of benthic hydroids from the area has risen to 32, representing a high diversity location for this group in the Southern Ocean considering the sampling effort made. All species, including those previously known from Bouvet waters, are considered with respect to geographical distribution.The present work is an addition to the special issue “Macrobenthic studies at Bouvet island”, presenting work carried out from on board RV Polarstern in 2003/2004 and published in Polar Biology 29 (2006)     

The Distribution of Benthic and Hyporheic Macroinvertebrates from the Heads and Tails of Riffles

The spatial distribution of benthic (up to 0.05 m depth) and hyporheic (0.25 and 0.5 m depth) macroinvertebrates from downwelling zones at the heads of riffles and upwelling zones at the tails of riffles was examined in two studies on a 4th order chalk stream in Dorset, England. In the first study, differences in benthic and hyporheic macroinvertebrate community composition between the head and tail of a single riffle were investigated. In the second study, a replicated design involving eight riffles was used to compare benthic and hyporheic macroinvertebrate community composition both between heads and tails of the same riffles and between riffles. In the first (single riffle) study there were significantly higher mean numbers of benthic invertebrates and families at the riffle head (715 individuals and 13.8 families per 0.0225 m²) compared to the tail (192 individuals and 8.7 families). ANOSIM analysis also showed that the community structure of head and tail benthic samples was significantly different. In the second (replicated riffle) study, there were also significantly more benthic invertebrates at riffle heads ( = 594 per 0.0225 m²) compared to tails ( = 417 per 0.0225 m²), although this was not the case for families, and community structure also differed significantly between riffle heads and tails. In contrast, in the hyporheic zone, there were no significant differences between the total numbers of invertebrates in the riffle heads and tails, or between riffles, although a significant difference in family richness between riffle head and tail samples was identified in the first study. Community analysis revealed progressively poorer separation of riffle head and tail samples at 0.25 m and 0.5 m hyporheic depths. Whilst being able to identify clear differences in benthic communities from riffles heads and tails, the physically heterogeneous nature of the riffle habitats studied made it difficult to account for the consistent differences in macroinvertebrate communities observed with the physical variables measured.     

Supramolecular Organization of Inulinases from Aspergillus awamori,Aspergillus ficuum and Kluyveromyces marxianus: A Comparative Aspect

Biophysics - Computer models for the dimers of inulinases from Aspergillus awamori, Aspergillus ficuum and Kluyveromyces marxianus have been developed. The inulinases dimerization mechanisms from...     

Benthic foraminifers and paleoecology of a Holocene shelly concentration, Salado Basin, Argentina

Foraminiferal fossil assemblages of the shelly concentration, which represents the type section of Cerro de la Gloria Member of Las Escobas Formation, were analyzed for the first time. Taxonomic, quantitative and taphonomical analyses were made in order to obtain paleoenvironmental (physical as well biological) information. The complexity of the internal structure of the taphocoenoses was analyzed to infer the history of the final concentration process. The shell bed of Channel 15 corresponds to a shoreface longshore bar deposited in a brackish, unstable, wave-dominate coast. Shoreface and beach (foreshore) regressive facies were recognized. Taphonomic processes have modified the paleobiocoenoses by the selective preservation of autochthonous elements and by the addition of parautochthonous fauna from relict beachs and lagoons. Thus, the taphocoenoses is a within-habitat time-averaged assemblage composed of species that inhabit shallow shelf marine environments. Discrimination of autochthonous and parautochthonous fauna was possible based on taphonomic signatures of tests. The addition of the parautochthonous elements was related with longshore currents and littoral drift, and with high-energy events, probably with storm-waves, when erosion of the Pre-Mid Holocene substrate was more intense. Thus, the contribution of parautochthonous fauna is directly related with lithology and therefore, with dynamic of the paleoenvironment: in the shoreface, autochthonous fauna dominates in clastic sands with lamination and parallel stratification, whereas parautochthonous elements dominate in shoreface shelly gravels and in the foreshore sands. In the upper part of the section (beach facies), mainly parautochthonous elements related with erosion of the Pre-Mid Holocene substrate was recognized, since the shoreface was only periodically affected by marine processes, i.e., during storms.