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.     

Seasonal and Spatial Variations of Total Mass Flux around Coral Reefs in the Southern Ryukyus,Japan

Total mass flux, size distribution of sediment particles and some chemical components such as total carbon (TC), total nitrogen (TN) and calcium carbonate (CaCO₃) were monitored monthly using a multi-cup sediment traps at seven coral reef sites (6 reef flat and 1 reef slope) of the Marine Protected Areas around Ishigaki, Kohama, Kuroshima and Iriomote Islands in the southern Ryukyus, Japan from September 2000 to September 2001. The size distribution of trapped sediments revealed mostly uni-modal fine sand to mud in the reef flat and gravelly to coarse sand in the reef slope. The total mass flux ranged between 0.54 to 872 gm⁻²d⁻¹, and showed a pronounced seasonality (high in summer-autumn and low in spring) at each site, which was consistent with the rainfall and typhoon regime. Exceptionally high values were observed on the reef slope (Iriomote) in February–March 2001 (1533 gm⁻²d⁻¹) owing to a large amount of bottom sediment re-suspension. On the reef flat (Todoroki South and North; Ishigaki), values obtained in July–August 2001 (872 gm⁻²d⁻¹) and August–September 2001 (800 gm^{− 2}d⁻¹) indicate the high terrestrial discharge from Todoroki River. Trapped sediment particles consist of CaCO₃ (1.2–27.1%) and a non-carbonate fraction (98.8–72.9%), which contains total carbon (4.9–26%), carbonate carbon (CO₂-C) (0.2–3.1%) and non-carbonate carbon (NC-C) (7.9–25.6%). Total nitrogen content was in the range 0.02–0.48%. TN is contained mainly in the carbonate fraction and NC-C may be contained in the non-carbonate fraction. The low TN/OC ratio of the trapped sediments suggests that they were mostly of terrestrial origin and that both fractions migrated. The high total mass flux derived from Todoroki River exceeded the threshold at which a lethal effect on coral community is caused. The results stress the importance of conducting seasonal studies of sedimentation over more than one year and at more than one location in south Japan coral reef ecosystems to gain an understanding of the processes controlling the total mass fluxes and their nutrients content, also to develop an awareness of how to prevent the damage of coral reef ecosystems and, if it does occur, to allow mitigation measures to be undertaken.     

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.     

Experimental study on internal waves in a stratified shear flow

This paper describes experiments on interfacial phenomena in a stratified shear flow having a sharp velocity shear at a density interface. The interface was visualized in vertical cross-section using dye, and the flow pattern was traced using aluminum powder. Two kinds of internal waves with different phase velocities and wave profiles were observed. They are here named p(positive)-waves and n(negative)-waves, respectively. By means of a two-dimensional visualization technique, the following facts have been confirmed regarding these waves. (1) The two kinds of waves propagate in the opposite direction relative to a system moving with the mean velocity at the interface, and their dispersion relations approximately agree with the two solutions of interfacial waves in a two-layer system of a linear basic shear flow. (2) The p-wave has sharp crests and flat troughs, and the n-wave has the reverse of this. This difference in wave profile is due to the finite amplitude effect. (3) Phase velocity of each wave lies within the range of the mean velocity profile, so that a critical layer exists and each wave has a “cat's eye” flow pattern in the vicinity of the critical layer, when observed in a system moving with the phase velocity. Consequently, these two waves are symmetrical with respect to the interface. The mechanisms of generation of these waves, and the entrainment process are discussed. It is inferred that when the “cat's eye” flow pattern is distorted and a stagnation point approaches the interface, entrainment in the form of a stretched wisp from the lower to the upper layer occurs for the p-wave, and from the upper to the lower layer for the n-wave.     

Standing stocks and production rates of phytoplankton and planktonic copepods in the Inland Sea of Japan

Standing stocks and production rates of phytoplankton and planktonic copepods were investigated at 15 stations in the Inland Sea of Japan during four cruises in October–November 1979, January, April and June 1980. The overall mean of phytoplankton biomass was relatively constant during the study period, ranging from 2.3 mg chl.a m^–3 in April to 3.6 mg chl.a m^–3 in October–November. Primary production was low in January (mean: 90 mg C m^–2 d^–1), but higher than 375 mg C m^–2 d^–1 on the other occasions. Integrated annual primary production was 122 g C m^–2 yr^–1. In terms of carbon weight,Paracalanus parvus was the most important copepod species. The variation of the mean copepod biomass (range: 7.6 mg C m^–3 in April to 20.2 mg C m^–3 in June) was smaller than that of copepod production, which was estimated by the Ikeda-Motoda's physiological method. Copepod producion was low in cold seasons (0.6 and 0.9 mg C m^–3 d^–1 in January and April, respectively), and increased, following the elevation of primary production, to 4.9 mg C m^–3 d^–1 in June. Annual copepod production was 33.7 g C m^–2 yr^–1, of which herbivore (secondary) production was 26.4 g C m^–2 yr^–1 (21.7% of primary production). The ratios of pelagic planktivorous fish catch and total fish catch to the primary production were 0.82 and 1.8%, respectively, indicating very high efficiency in exploiting fishery resources in the Inland Sea of Japan.     

Nitrous oxide in the sea

A new gas chromatographic method was developed for the measurement of nitrous oxide (N₂O) in seawater. It takes 15 min for the analysis in a sample of 640 ml seawater.By this method, more than 1000 samples taken over various depths and areas in the sea were analyzed. In the western North Atlantic, the N₂O concentration over a range of oceanic depths gave characteristic profiles that were negatively correlated with oxygen profiles, reaching its maximum (c.a. 1 μg/l) in the oxygen-minimum layer at mid-depths. In the Caribbean, the N₂O maximum reached higher concentrations than in the North Atlantic. N₂O was near equilibrium with that in the atmosphere in Atlantic surface waters, but supersaturation of N₂O was observed in surface waters of the Gulf of St. Lawrence in early June and in most surface samples from the Caribbean Sea in March.The estimated rate of N₂O production in the sea may be significant in terms of geochemical cycling of combined nitrogen to the atmosphere.     

Density,biomass and community structure of demersal fishes off the Pacific coast of northeastern Japan

Demersal fish communities were studied on the lower continental shelf and the upper continental slope along the Pacific coast of northeastern Japan. Species composition, number and weight of each species were examined based on otter trawl samples at 45 stations. Mean density and biomass of demersal fishes were 131 ha^–1 and 21 kg ha^–1, respectively. The ten most abundant species comprised of about 95% of total number and weight of overall catch indicating simple species composition. Gadiform fishesTheragra chalcogramma, Gadus macrocephalus andPhysiculus maximowiczi were the most important species by number, weight and frequency of occurrences, and three main community types represented by the three key species were recognized.Theragra-dominant community showed higher density and biomass, and lower diversity thanPhysiculus-dominant community did. Species diversity of demersal fish community was negatively correlated to density and biomass. Density and biomass of demersal fish community were high on the uppermost slope, and the high abundance resulted from low-diversity communities dominated byT. chalcogramma andG. macrocephalus.     

Flux determination over a smooth surface under strongly unstable conditions

Careful micrometeorological measurements on an empty parking lot allowed determination of the surface fluxes of sensible heatH and of momentum by applying profile equations derived from Monin-Obukhov similarity theory with two sets of the stability correction function for momentum _m and sensible heat _h . These fluxes were compared with reference values ofH independently determined by means of an eddy correlation technique. In general, better agreement was found betweenH values derived from profiles with the stability functions of Brutsaert (1992) and referenceH values, than when the Businger-Dyer functions were used to deriveH. The disagreement in the latter comparison was especially serious under strongly unstable conditions, with the value ofy=–z/L (wherez is the height andL is the Obukhov length) larger than 10. A closer look at the procedure for calculatingH from the profiles revealed that the large differences between theH values derived with these two different versions of the stability correction functions were caused by the small differences of the _h values, and not by the larger differences of the _m values. This result stems from the strong sensitivity of the resultingH values on the choice of _h .     

Infrared polarization of venus: Its periodic fluctuations and evidence for thin haze

Infrared polarimetry of Venus over the phase angles from 18 to 171° has been made extending previous measurements (S. Sato, K. Kawara, Y. Kobayashi, H. Okuda, K. Noguchi, T. Mukai, and S. Mukai (1980). Icarus43, 288) in both wavelength λ and phase angle θ. The results of polarization measurements at 2.25 μm ? λ ? 5.0 μm are (i) small positive and negative values at K(2.25 μm), (ii) a remarkable variation with λ in the CVF(2.2?4.2μm) filter region, (iii) a nearly smooth curve as a function of θ having a peak value of ～36% at θ ～ 90° at both 3.6 μm and L′(3.8 μm), and (iv) a decrease with increasing field of view at M(5.0 μm) due to the contamination of thermal emission from the dark crescent. Furthermore, at 3.6 μm and L′(3.8 μm), (v) higher values at the poles than at the equator and (vi) 4.5- to 5.9-day periodic fluctuations are also found. From a comparison with model calculations, the results confirm the existence of a thin haze layer consisting of submicron-size particles above the main clouds of Venus; e.g., its optical thickness is about 0.1 at λ ～ 0.94 μm. In addition, result (vi) could be explained by a variation of the optical thickness of the haze layer or that of the brightness temperature of the main clouds.