New Ways to Collect Data in the Antarctic

Conducting Antarctic research is challenging. Not only is the environment difficult, given low temperatures, high winds, and ice cover, but also the availability of sampling platforms is limited. The U.S. National Science Foundation has only two vessels that can routinely operate in ice‐covered waters, the research vessel/icebreaker N.B. Palmer and the Antarctic research support vessel L.M. Gould. The restricted availability of vessels makes research operations difficult to schedule, especially during austral spring and summer. Traditional sampling methods (those confined to ships and moorings) have provided insights into distributions and processes in the Southern Ocean, but new research questions require new sampling means

Variations In the Abundance and Distribution of Aggregates In the Ross Sea, Antarctica

The vertical distribution and temporal changes in aggregate abundance and sizes were measured in the Ross Sea, Antarctica between 2002 and 2005 to acquire a more complete understanding of the mechanisms and rates of carbon export from the euphotic layer. Aggregate abundance was determined by photographic techniques, and water column parameters (temperature, salinity, fluorescence, transmissometry) were assessed from CTD profiles. During the first three years the numbers of aggregates increased seasonally, being much more abundant within the upper 200 m in late summer than in early summer from 50 to 100 m (12.5 L–1 in early summer vs. 42.9 L–1 in late summer). In Year 4 aggregate numbers were substantially greater than in other years, and average aggregate abundance was maximal in early rather than late summer (177 vs. 84.5 L–1), which we attributed to the maximum biomass and aggregate formation being reached earlier than in other years. The contribution of aggregate particulate organic carbon to the total particulate carbon pool was estimated to be 20%. Ghost colonies, collapsed colonies of the haptophyte Phaeocystis antarctica, were observed during late summer in Year 4, with maximum numbers in the upper 100 m of ca. 40 L–1. Aggregate abundance, particulate organic carbon and ghost colonies all decreased exponentially with depth, and the rate of ghost colony disappearance suggested that their contribution to sedimentary input was small at the time of sampling. Bottom nepheloid layers were commonly observed in late summer in both transmissometer and aggregate data. Late summer nepheloid layers had fluorescent material within them, suggesting that the particles were likely generated during the same growing season. Longer studies encompassing the entire production season would be useful in further elucidating the role of these aggregates in the carbon cycle of these regions

Variations in the abundance and distribution of aggregates in the Ross Sea, Antarctica

The vertical distribution and temporal changes in aggregate abundance and sizes were measured in the Ross Sea, Antarctica between 2002 and 2005 to acquire a more complete understanding of the mechanisms and rates of carbon export from the euphotic layer. Aggregate abundance was determined by photographic techniques, and water column parameters (temperature, salinity, fluorescence, transmissometry) were assessed from CTD profiles. During the first three years the numbers of aggregates increased seasonally, being much more abundant within the upper 200 m in late summer than in early summer from 50 to 100 m (12.5 L–1 in early summer vs. 42.9 L–1 in late summer). In Year 4 aggregate numbers were substantially greater than in other years, and average aggregate abundance was maximal in early rather than late summer (177 vs. 84.5 L–1), which we attributed to the maximum biomass and aggregate formation being reached earlier than in other years. The contribution of aggregate particulate organic carbon to the total particulate carbon pool was estimated to be 20%. Ghost colonies, collapsed colonies of the haptophyte Phaeocystis antarctica, were observed during late summer in Year 4, with maximum numbers in the upper 100 m of ca. 40 L–1. Aggregate abundance, particulate organic carbon and ghost colonies all decreased exponentially with depth, and the rate of ghost colony disappearance suggested that their contribution to sedimentary input was small at the time of sampling. Bottom nepheloid layers were commonly observed in late summer in both transmissometer and aggregate data. Late summer nepheloid layers had fluorescent material within them, suggesting that the particles were likely generated during the same growing season. Longer studies encompassing the entire production season would be useful in further elucidating the role of these aggregates in the carbon cycle of these regions

Particle Fluxes During Austral Spring and Summer in the Southern Ross Sea, Antarctica

The flux of particles from the euphotic zone through 200 m was investigated on the Ross Sea continental shelf during two cruises, the first in November-December 1994 and the second in December 1995 and January 1996. An assessment of surface layer phytoplankton biomass and productivity was made simultaneously. Particle flux was measured using floating sediment traps whose collection efficiency was assessed rigorously. Phytoplankton biomass and productivity increased rapidly in November-December, and biomass was maximal in mid-December. Thereafter productivity appeared to decline substantially. Biomass declined as well, but mot as rapidly as productivity. Vertical flux rates were low early in the bloom period, averaging 457 mg m(-2) d(-1), but increased markedly in late December and January (mean = 1160 mg m(-2) d(-1)). Daily losses due to vertical flux represented only 2.3% of the surface layer particulate organic carbon standing stock. Measured particle fluxes were greater than those observed previously, and this is attributed to the period and depths sampled as well as to the care taken to ensure accuracy of sample collection. As in other regions, vertical flux of biogenic material is coupled with surface layer production and biomass. In our study area, however, a distinct temporal lag is introduced between surface production and flux at depth as a result of the temporal characteristics of the dominant mechanism generating large particles (aggregation) as well as the characteristic species of the region (Phaeocystis antarctica)

A Balanced Nitrogen Budget of the Surface Layer of the Southern Ross Sea, Antarctica

To understand marine biogeochemical cycles, it is critical to quantitatively balance organic matter transformations within the euphotic zone. Such an assessment for nitrogen is difficult because of lateral advection, uncertainties in individual measurements, the complexity of elemental transformations (including nitrification and denitrification), and the difficulty of collecting data on appropriate space and time scales. Two cruises were conducted to the southern Ross Sea, Antarctica, to understand the time-varying fluxes of nitrogen into its various pools. From these data a balanced inventory was constructed. Nitrate removal in the upper 200 m was balanced by particulate and dissolved organic nitrogen production, ammonification, and vertical flux. In austral spring nearly all (92%) of the new production remained as particulate nitrogen, but this percentage decreased markedly (52%) by mid-summer, when nitrogen regeneration, PN flux, and DON production were 23, 13 and 12% of net production, respectively. The organic matter budget in this coastal Antarctic site is dominated by particle transformations

Dissolved oxygen dynamics during a phytoplankton bloom in the Ross Sea polynya

The Ross Sea polynya is one of the most productive regions in the Southern Ocean. However, limited access and high spatio-temporal variability of physical and biological processes limit the use of conventional oceanographic methods to measure early season primary productivity. High-resolution observations from two Seagliders provide insights into the timing of a bloom in the southern Ross Sea polynya in December 2010. Changes in chlorophyll and oxygen concentrations are used to assess bloom dynamics. Using a ratio of dissolved oxygen to carbon, net primary production is estimated over the duration of the bloom showing a sensitive balance between net autotrophy and heterotrophy. The two gliders, observing spatially distinct regions during the same period, found net community production rates of -0.9±0.7 and 0.7±0.4 g C m-2 d-1. The difference highlights the spatial variability of biological processes and is probably caused by observing different stages of the bloom. The challenge of obtaining accurate primary productivity estimates highlights the need for increased observational efforts, particularly focusing on subsurface processes not resolved using surface or remote observations. Without an increased observational effort and the involvement of emerging technologies, it will not be possible to determine the seasonal trophic balance of the Ross Sea polynya and quantify the shelf's importance in carbon export

Imported lassa fever in Germany: molecular characterization of a new lassa virus strain.

We describe the isolation and characterization of a new Lassa virus strain imported into Germany by a traveler who had visited Ghana, Côte D'Ivoire, and Burkina Faso. This strain, designated "AV," originated from a region in West Africa where Lassa fever has not been reported. Viral S RNA isolated from the patient's serum was amplified and sequenced. A long-range reverse transcription polymerase chain reaction allowed amplification of the full-length (3.4 kb) S RNA. The coding sequences of strain AV differed from those of all known Lassa prototype strains (Josiah, Nigeria, and LP) by approximately 20%, mainly at third codon positions. Phylogenetically, strain AV appears to be most closely related to strain Josiah from Sierra Leone. Lassa viruses comprise a group of genetically highly diverse strains, which has implications for vaccine development. The new method for full-length S RNA amplification may facilitate identification and molecular analysis of new arenaviruses or arenavirus strains

Identification of epitopes recognised by mucosal CD4+ T-cell populations from cattle experimentally colonised with Escherichia coli O157:H7

Additional file 5. Sequence alignment of Intimin epitopes against Intimin sequences from non-O157 EHEC serotypes. Alignment of Intimin CD4+ T-cell epitope sequences with representative Intimin sequences from EHEC serotypes O145, O127, O26, O103, O121, O45 and O111. Percentage values indicate % similarity to the EHEC O157:H7 reference sequence

The rise and fall of methanotrophy following a deepwater oil-well blowout

The blowout of the Macondo oil well in the Gulf of Mexico in April 2010 injected up to 500,000 tonnes of natural gas, mainly methane, into the deep sea1. Most of the methane released was thought to have been consumed by marine microbes between July and August 20102, 3. Here, we report spatially extensive measurements of methane concentrations and oxidation rates in the nine months following the spill. We show that although gas-rich deepwater plumes were a short-lived feature, water column concentrations of methane remained above background levels throughout the rest of the year. Rates of microbial methane oxidation peaked in the deepwater plumes in May and early June, coincident with a rapid rise in the abundance of known and new methane-oxidizing microbes. At this time, rates of methane oxidation reached up to 5,900 nmol l−1 d−1—the highest rates documented in the global pelagic ocean before the blowout4. Rates of methane oxidation fell to less than 50 nmol l−1 d−1 in late June, and continued to decline throughout the remainder of the year. We suggest the precipitous drop in methane consumption in late June, despite the persistence of methane in the water column, underscores the important role that physiological and environmental factors play in constraining the activity of methane-oxidizing bacteria in the Gulf of Mexico

History, epidemiology and regional diversities of urolithiasis

Archeological findings give profound evidence that humans have suffered from kidney and bladder stones for centuries. Bladder stones were more prevalent during older ages, but kidney stones became more prevalent during the past 100 years, at least in the more developed countries. Also, treatment options and conservative measures, as well as ‘surgical’ interventions have also been known for a long time. Our current preventive measures are definitively comparable to those of our predecessors. Stone removal, first lithotomy for bladder stones, followed by transurethral methods, was definitively painful and had severe side effects. Then, as now, the incidence of urolithiasis in a given population was dependent on the geographic area, racial distribution, socio-economic status and dietary habits. Changes in the latter factors during the past decades have affected the incidence and also the site and chemical composition of calculi, with calcium oxalate stones being now the most prevalent. Major differences in frequency of other constituents, particularly uric acid and struvite, reflect eating habits and infection risk factors specific to certain populations. Extensive epidemiological observations have emphasized the importance of nutritional factors in the pathogenesis of urolithiasis, and specific dietary advice is, nowadays, often the most appropriate for prevention and treatment of urolithiasis