Application of Atomic Force Microscopy to Observation of Marine Bacteria

The atomic force microscopy (AFM) is a recently developed, bench-top instrument that can image the surface structures of biological specimens at high resolution with simultaneous measurement of their size. This paper describes the application of AFM to marine bacteria. Both natural and cultured bacteria were retained on a filter or placed on glass, washed, air-dried and observed by AFM. The instrumental condition, the choice of suitable filter, effect of fixation and filtration, comparison with epifluorescent microscopic (EFM) count, and the size and shape of bacterial cells were investigated. An Isopore filter was best for concentration and subsequent observation because of its surface flatness. Cross section images showed that both rod and coccoid cells were flattened, the former usually having a two-humped shape. Bacterial cells were differentiated from non-living particles based on their cross section shape and size. Bacterial counts by AFM and EFM showed good agreement. Although size measurement is easily done by the instrument, AFM tends to overestimate the size of microspheres. More work is thus needed on the size measurement of living organisms. Because AFM easily provides images of natural bacterial cells at high magnification, it can be used as a new tool to study the fine structures of marine bacteria. This revised version was published online in July 2006 with corrections to the Cover Date.     

Internal Microanatomy and Zoological Affinity of the Early Cambrian Olivooides

The early Cambrian pentamerous microfossil Olivooides/Punctatus in South China, which is characterized by a diagnostic stellate tubular apex, has been well-known for its almost complete development sequence that can be confidently traced from embryos and hatched juveniles, to conical adults. However, its zoological affinity remains highly controversial. Here we describe the internal microanatomic structures of the soft-body inside the peridermal theca of Olivooides multisulcatus Qian, 1977, including interradial pairs of tentacles, adradial and perradial frenula, perradial oral marginal lappets and twins of perradial gastric saccule-like humps as well as a circular velarium with striated coronal muscles. Particularly, one specimen shows bifurcated velarial canals along the bell aperture. Both the components of the soft-body and the external theca (or cyst) are arranged in perfect pentaradial symmetry. These characteristics are more compatible with those of living cubomedusans and co-occurring Cambrian athecate embryonic cubozoans. Concerning the presence of peridermal theca, Olivooides most likely represents an extinct thecate stem-group cubomedusae but devoid of both perradial eyes and specialized pedalia. The well-grown soft body inside the peridermal tube displays a set of mixed features of both polyp and medusa.     

Passive seismic response controlled high-rise building with high damping device

This paper describes a feasibility study on a high-damping device (HiDAM) installed in a building structure by way of a bracing mechanism. A seismic response analysis with respect to a high-rise building approximately 100 m high is reported. Proper adjustment of the damping coefficient of the HiDAM (oil damper) provided an over all damping factor of about 10–20 per cent to the building structure, and reductions in the response, deformation and shear forces were verified analytically. This paper reports also the performance confirmation tests conducted on a model device of the HiDAM which satisfied the specifications determined from the analytical results. The test results demonstrate the feasibility of the HiDAM and the possibility of utilizing it in high-rise buildings.     

Microbial responses using denaturing gradient gel electrophoresis to oil and chemical dispersant in enclosed ecosystems

Microbial responses to the addition of oil with or without a chemical dispersant were examined in mesocosm and microcosm experiments by using denaturing gradient gel electrophoresis of bacterial ribosomal DNA and direct cell counting. When a water-soluble fraction of oil was added to seawater, increases in cell density were observed in the first 24h, followed by a decrease in abundance and a change in bacterial species composition. After addition of an oil-dispersant mixture, increases in cell density and changes in community structure coincided, and the amount of bacteria remained high. These phenomena also occurred in response to addition of only dispersant. Our results suggest that the chemical dispersant may be used as a nutrient source by some bacterial groups and may directly or indirectly prevent the growth of other bacterial groups.     

Dynamic analysis of structures with Maxwell model

A numerical method has been developed for the dynamic analysis of a tall building structure with viscous dampers. Viscous dampers are installed between the top of an inverted V‐shaped brace and the upper beam on each storey to reduce vibrations during strong disturbances like earthquakes. Analytically, it is modelled as a multi‐degree‐of freedom (MDOF) system with the Maxwell models. First, the computational method is formulated in the time domain by introducing a finite element of the Maxwell model into the equation of motion in the discrete‐time system, which is based on the direct numerical integration. Next, analyses for numerical stability and accuracy of the proposed method are discussed. The results show its numerical stability. Finally, the proposed method is applied to the numerical analysis of a realistic building structure to demonstrate its practical validity.     

Organohalogen compounds in deep-sea fishes from the western North Pacific, off-Tohoku, Japan: Contamination status and bioaccumulation profiles

Twelve species of deep-sea fishes collected in 2005 from the western North Pacific, off-Tohoku, Japan were analyzed for organohalogen compounds. Among the compounds analyzed, concentrations of DDTs and PCBs (up to 23,000 and 12,400 ng/g lipid wt, respectively) were the highest. The present study is the foremost to report the occurrence of brominated flame retardants such as PBDEs and HBCDs in deep-sea organisms from the North Pacific region. Significant positive correlations found between δ¹⁵N (‰) and PCBs, DDTs and PBDEs suggest the high biomagnification potential of these contaminants in food web. The large variation in δ¹³C (‰) values observed between the species indicate multiple sources of carbon in the food web and specific accumulation of hydrophobic organohalogen compounds in benthic dwelling carnivore species like snubnosed eel. The results obtained in this study highlight the usefulness of deep-sea fishes as sentinel species to monitor the deep-sea environment.     

Levels and distribution of polybrominated diphenyl ethers and organochlorine compounds in sea turtles from Japan

Three species of sea turtles (green, hawksbill and loggerhead turtles) stranded along the coasts or caught (by-catch) around Ishigaki Island and Kochi, Japan were collected between 1998 and 2006 and analyzed for six organohalogen compounds viz., PBDEs, PCBs, DDTs, CHLs, HCHs and HCB. The present study is the first and foremost to report the occurrence of organohalogen compounds in the sea turtles from Japan. Among the compounds analyzed, concentrations of PCBs, DDTs and CHLs were the highest in all the turtle samples. PBDEs were ubiquitously present in all the turtle species. Comparing with the other two species, concentrations of organohalogens in green turtle were relatively low and decreasing trend in the concentrations were noted with increasing carapace length. Concentrations of OCs in sea turtles from the coasts of Ishigaki Island and Kochi were relatively low as compared to those from other locations in the world.     

Reproductive ecology of the dominant dinoflagellate, <Emphasis Type="Italic">Ceratium fusus</Emphasis>, in coastal area of Sagami Bay,Japan

The seasonal abundance of the dominant dinoflagellate, Ceratium fusus, was investigated from January 2000 to December 2003 in a coastal region of Sagami Bay, Japan. The growth of this species was also examined under laboratory conditions. In Sagami Bay, C. fusus increased significantly from April to September, and decreased from November to February, though it was found at all times through out the observation period. C. fusus increased markedly in September 2001 and August 2003 after heavy rainfalls that produced pycnoclines. Rapid growth was observed over a salinity range of 24 to 30, with the highest specific rate of 0.59 d⁻¹ measured under the following conditions: salinity 27, temperature 24°C, photon irradiance 600 μmol m⁻²s⁻¹. The growth rate of C. fusus increased with increasing irradiance from 58 to 216 μmol m⁻²s⁻¹, plateauing between 216 and 796 μmol m⁻²s⁻¹ under all temperature and salinity treatments (except at a temperature of 12°C). Both field and laboratory experiments indicated that C. fusus has the ability to grow under wide ranges of water temperatures (14–28°C), salinities (20–34), and photon irradiance (50–800 μmol m⁻²s⁻¹); it is also able to grow at low nutrient concentrations. This physiological flexibility ensures that populations persist when bloom conditions come to an end.     

Comparisons of deep-sea sediments and overlying water collected using Multiple Corer and Box Corer

Sediments and overlying water collected using Multiple Corer (MC) and Box Corer (BC) at three stations in Suruga Bay were compared from the view points of meiobenthic and chemical characteristics. Dissolved oxygen, pH, ammonium and nitrite concentrations of the overlying waters were lower, whereas nitrate and phosphate concentrations were higher constantly in the samples collected by MC than those by BC, suggesting contamination of surface seawater in the BC samples. Sediments were sliced into 0–1, 1–2 and 2–3 cm layers, and water content and Eh, and abundance of meiofauna were analyzed. Water content in MC samples was always higher than BC ones. For the whole meiobenthos, MC collected significantly more individuals than BC at only one out of three stations, whereas for harpacticoid copepods, which aggregated to the surface layer of the sediment, MC constantly collected significantly more individuals than BC. In the vertical profiles of both water content and meiofaunal density, data of 0–1, and 1–2 cm layers in the BC samples were similar to those of 1–2 and 2–3 cm layers in the MC samples, respectively. These results suggested only MC can collect the real sediment surface (so called fluffy layer), which was lost due to bow wave effects in the BC samples.     

Development of a Neural Network Algorithm for Retrieving Concentrations of Chlorophyll, Suspended Matter and Yellow Substance from Radiance Data of the Ocean Color and Temperature Scanner

An algorithm is presented to retrieve the concentrations of chlorophyll a, suspended pariclulate matter and yellow substance from normalized water-leaving radiances of the Ocean Color and Temperature Sensor (OCTS) of the Advanced Earth Observing Satellite (ADEOS). It is based on a neural network (NN) algorithm, which is used for the rapid inversion of a radiative transfer procedure with the goal of retrieving not only the concentrations of chlorophyll a but also the two other components that determine the water-leaving radiance spectrum. The NN algorithm was tested using the NASA's SeaBAM (SeaWiFS Bio-Optical Mini-Workshop) test data set and applied to ADEOS/OCTS data of the Northwest Pacific in the region off Sanriku, Japan. The root-mean-square error between chlorophyll a concentrations derived from the SeaBAM reflectance data and the chlorophyll a measurements is 0.62. The retrieved chlorophyll a concentrations of the OCTS data were compared with the corresponding distribution obtained by the standard OCTS algorithm. The concentrations and distribution patterns from both algorithms match for open ocean areas. Since there are no standard OCTS products available for yellow substance and suspended matter and no in situ measurements available for validation, the result of the retrieval by the NN for these two variables could only be assessed by a general knowledge of their concentrations and distribution patterns. This revised version was published online in July 2006 with corrections to the Cover Date.