Preservation of the shell matrix protein dermatopontin in 1500 year old land snail fossils from the Bonin islands

Organic molecules such as proteins can be preserved in certain fossils. The bulk properties of fossil proteins of both vertebrates and invertebrates have been studied for over half a century. Named proteins have so far been identified, however, only in vertebrate fossils, such as collagen from mammoth bones. Using immunological assays, we examined 1500 year old fossils of the extinct land snail Mandarina luhuana from the Bonin islands for the presence of dermatopontin, a molluscan shell matrix protein. First, we examined the shell microstructure and mineralogy of the fossil shells using scanning electron microscopy (SEM) and powder X-ray diffraction (XRD) in order to estimate the extent of diagenetic alteration. The results suggest that the original microstructure and mineralogy of the shells are preserved. Antiserum raised against the Type-1 dermatopontin fragment of the living land snail Euhadra brandtii showed significant immunological reactivity with the extracts from the fossil shells of M. luhuana. Immunological binding curves drawn for the shell extracts of extant M. aureola and the extinct M. luhuana confirmed the presence of dermatopontin in the fossil shells and provided an estimate that about 75–98% of the original dermatopontin was lost from the M. luhuana fossils. This is the first report of a named protein being identified in invertebrate fossils.     

Sedimentation of terrigenous red soils in coastal area adjacent to an estuary and coral reefs,the Okkubi River estuary,Okinawa Island,Japan

Sedimentation process of fine-grained terrigenous red soils was observed on the seafloor by coral reefs near an estuary using a paired mooring of turbidity meter and sediment trap or a mooring of sediment trap and current meter. Silty clays contained in the bottom calcareous sands were mainly resuspended and trapped in both surface and bottom layer traps, at noncatastrophic normal sedimentation periods. In addition, silty clays were supplied to this mooring site by inflowing river. Turbidity and the flux rate determined by sediment traps show certain relationship accompanied with the coefficient, which is changed by precipitation, current, and other conditions. Resuspension process caused by a typhoon was recorded as both core sequence of sediment trap and time-series data of bottom current. Maximum velocity of 49.5 cm/s was recorded from bottom currents resulting from the passing of attyphoon at the mooring site. A graded sand layer is interbedded in dark-gray, silty clay and considered to be a resuspended sediment resulting from the passing of the typhoon. Flux of the resuspended sediments by the typhoon was estimated from this core sequence and compared to the flux observed at the normal sedimentation.     

Decadal Variability of Subsurface Temperature in the Central North Pacific

Decadal variability of subsurface temperature in the North Pacific has been investigated. Two dominant regions were found; the central subarctic region (CSa) and the north-eastern subtropical region (NESt). In CSa, cooling (warming) of wintertime subsurface temperature corresponds to the large (small) temperature gradient and southward (northward) shift of subsurface temperature front, associated with the increase (decrease) of positive wind stress curl and the southward (northward) shift of curl τ zero line with 2 years delay. It is suggested that the relocation of subtropical-subarctic boundary plays an important role. In NESt, importance of heat flux through the sea surface and heat divergence in the Ekman layer is also discussed. This revised version was published online in July 2006 with corrections to the Cover Date.     

The effects of the reed,Phragmites australis (Trin.), on substratum grain-size distribution in a salt marsh

The effects of the reed,Phragmites australis (Trin.), growing in a brackish water lagoon, were studied in relation to the grain-size distribution of the substratum. At the salt marshes near the lagoon, the upper soils from the surface to a depth of 20 cm contained much silt-clay. These fine particles were found to be transferred from the river and fish ponds near the lagoon, and to be deposited when the tidal rhythm changed, that is, when the water current stopped. In addition, the fine particles, which were deposited on the bottom of the lagoon adjacent to the marshes, became resuspended as a result of wind-caused wave action, and then were transported and redeposited in the salt marshes at the flood tide. Since the reeds further reduced the water current caused by the waves and tide, the reeds were thought to promote redeposition of the resuspended matter. In other words, the reeds were considered to protect deposited and redeposited particles such as silt and clay from resuspension as a result of wave action by reducing the effects of waves and wind. These processes suggested that silt-clay will become abundant in the substratum of the salt marsh adjacent to the lagoon.     

Concentration and behavior of detrital mineral grains suspended in the water column of the open sea in the western Pacific

The pattern of distribution of detrital mineral grains in the water column was investigated at three stations in the western Pacific during July through August of 1979. The sedimentation of detrital mineral grains was also studied using piston cores from two sites adjacent to the three stations. The concentration of suspended detrital mineral grains in the subsurface waters becomes lower with increasing distance from the land, and shows a prominent peak in the intermediate zone of the water column. The sharp increase in water density and viscosity in the pycnocline in the intermediate zone decreases the settling velocity of grains, and may result in the accumulation of falling grains in the intermediate layer. Proportion of detrital mineral grains to organic remains in the sediment was more than two orders of magnitude larger than in the overlying water column, and reasons for this are briefly discussed.     

Convergence,divergence and vertical velocity at a tidal front in Hiuchi-Nada,Japan

The detailed flow structure around a tical front in Hiuchi-Nada, Japan was observed with the use of ADCP (Acoustic Doppler Current Profiler). The surface convergence region is observed at the transition zone between vertically well mixed area and the stratified area. The surface divergence regions exist next to the surface convergence region. The strong downward current is estimated in the middle layer just below the surface convergence region. The maximum surface convergence and the maximum downward velocity in the middle layer are 1.0×10^–4 s^–1 and 0.12 cm s^–1, respectively.     

Seasonal Variability of Near-Surface Heat Budget of Selected Oceanic Areas in the North Tropical Indian Ocean

The results obtained from an Ocean General Circulation Model (OGCM), the Modular Ocean Model 2.2, forced with the National Center for Environmental Prediction/National Center for Atmospheric Research reanalysis data, and observational data have been utilized to document the climatological seasonal cycle of the upper ocean response in the Tropical Indian Ocean. We address the various roles played by the net surface heat flux and the local and remote ocean dynamics for the seasonal variation of near-surface heat budget in the Tropical Indian Ocean. The investigation is based in seven selected boxes in the Arabian Sea, Bay of Bengal and the Equatorial Indian Ocean. The changes of basin-wide heat budget of ocean process in the Arabian Sea and the Western Equatorial Indian Ocean show an annual cycle, whereas those in the Bay of Bengal and the Eastern Equatorial Indian Ocean show a semi-annual cycle. The time tendency of heat budget in the Arabian Sea depends on both the net surface heat flux and ocean dynamics while on the other hand, that in the Bay of Bengal depends mainly on the net surface flux. However, it has been found that the changes of heat budget are very different between western and eastern regional sea areas in the Arabian Sea and the Bay of Bengal, respectively. This difference depends on seasonal variations of the different local wind forcing and the different ocean dynamics associated with ocean eddies and Kelvin and Rossby waves in each regional sea areas. We also discuss the comparison and the connection for the seasonal variation of near-surface heat budget among their regional sea areas. This revised version was published online in July 2006 with corrections to the Cover Date.     

Estimating the geostrophic velocity obtained by HF radar observations in the upstream area of the Kuroshio

A method to extract geostrophic current in the daily mean HF radar data in the Kuroshio upstream region is established by comparison with geostrophic velocity determined from the along-track altimetry data. The estimated Ekman current in the HF velocity is 1.2% (1.5%) and 48° (38°)-clockwise rotated with respect to the daily mean wind in (outside) the Kuroshio. Furthermore, additional temporal smoothing is found necessary to remove residual ageostrophic currents such as the inertial oscillation. After removal of the ageostrophic components, the HF geostrophic velocity agrees well with that from the altimetry data with rms difference 0.14 (0.12) m/s in (outside) the Kuroshio.     

Comparison of bromodeoxyuridine immunoassay with tritiated thymidine radioassay for measuring bacterial productivity in oceanic waters

Recently, bromodeoxyuridine (BrdU) has been successfully applied to the measurement of bacterial productivity as an alternative to tritiated thymidine (³H-TdR), which is widely used but often restricted by regulations, particularly in field settings. Here, I report improvements to existing BrdU methods to simplify procedures and increase sensitivity. The feasibility of the method was tested measuring bacterial production in low-productive waters. The method provided radioisotope-free measurements of bacterial production rates at shorter (∼1 h) on-board processing time of samples than previously reported procedures. It was applicable to the detection of rates ranging from 0.021 to 2.7 pmol BrdU l⁻¹h⁻¹. BrdU incorporation rates measured by immunoassay showed a statistically significant correlation with ³H-TdR incorporation rates measured by radioassay (r = 0.74, n = 24, p < 0.001). The linear regression obtained (BrdU = 0.80[³H-TdR] − 0.016) showed a similar relationship to previously reported regressions (BrdU = 0.65[³H-TdR] + 0.12, [³H-BrdU] = 0.69[³H-TdR] − 0.81). There were no statistically significant differences among these regression lines. These results suggest that the method described here provides a non-radioisotopic productivity measurement of bacteria in oceanic epipelagic waters, while retaining continuity of the data with other existing ³H-TdR and BrdU methods.     

Fluid–Sediment Interaction in a Marine Shallow-Water Hydrothermal System in the Wakamiko Submarine Crater, South Kyushu, Japan

The Wakamiko submarine crater is a small depression located in Kagoshima Bay, southwest Japan. Marine shallow‐water hydrothermal activity associated with fumarolic gas emissions at the crater sea floor (water depth 200 m) is considered to be related with magmatic activity of the Aira Caldera. During the NT05‐13 dive expedition conducted in August 2005 using remotely operated vehicle Hyper‐Dolphine (Japan Agency for Marine‐Earth Science and Technology), an active shimmering site was discovered (tentatively named the North site) at approximately 1 km from the previously known site (tentatively named the South site). Surface sediment (up to 30 cm) was cored from six localities including these active sites, and the alteration minerals and pore fluid chemistry were studied. The pore fluids of these sites showed a drastic change in chemical profile from that of seawater, even at 30 cm below the surface, which is attributed to mixing of the ascending hydrothermal component and seawater. The hydrothermal component of the North site is estimated to be derived from a hydrothermal aquifer at 230°C based on the hydrothermal end‐member composition. Occurrence of illite/smectite interstratified minerals in the North site sediment is attributed to in situ fluid–sediment interaction at a temperature around 150°C, which is in accordance with the pore fluid chemistry. In contrast, montmorillonite was identified as the dominant alteration mineral in the South site sediment. Together with the significant low potassium concentration of the hydrothermal end‐member, the abundant occurrence of low‐temperature alteration mineral suggests that the hydrothermal aquifer in the South site is not as high as 200°C. Moreover, the montmorillonite is likely to be unstable with the present pore fluid chemistry at the measured temperature (117°C). This disagreement implies unstable hydrothermal activity at the South site, in contrast to the equilibrium between the pore fluid and alteration minerals in the North site sediment. This difference may reflect the thermal and/or hydrological structure of the Wakamiko Crater hydrothermal system.