Microbial photosynthesis in coral reef sediments (Heron Reef, Australia)

We investigated microphytobenthic photosynthesis at four stations in the coral reef sediments at Heron Reef, Australia. The microphytobenthos was dominated by diatoms, dinoflagellates and cyanobacteria, as indicated by biomarker pigment analysis. Conspicuous algae firmly attached to the sand grains (ca. 100 μm in diameter, surrounded by a hard transparent wall) were rich in peridinin, a marker pigment for dinoflagellates, but also showed a high diversity based on cyanobacterial 16S rDNA gene sequence analysis. Specimens of these algae that were buried below the photic zone exhibited an unexpected stimulation of respiration by light, resulting in an increase of local oxygen concentrations upon darkening. Net photosynthesis of the sediments varied between 1.9 and 8.5 mmol O₂ m⁻² h⁻¹ and was strongly correlated with Chl a content, which lay between 31 and 84 mg m⁻². An estimate based on our spatially limited dataset indicates that the microphytobenthic production for the entire reef is in the order of magnitude of the production estimated for corals. Photosynthesis stimulated calcification at all investigated sites (0.2–1.0 mmol Ca²⁺ m⁻² h⁻¹). The sediments of at least three stations were net calcifying. Sedimentary N₂-fixation rates (measured by acetylene reduction assays at two sites) ranged between 0.9 to 3.9 mmol N₂ m⁻² h⁻¹ and were highest in the light, indicating the importance of heterocystous cyanobacteria. In coral fingers no N₂-fixation was measurable, which stresses the importance of the sediment compartment for reef nitrogen cycling.     

Industry participation in stock assessment: the New Zealand SNA1 snapper (Pagrus auratus) fishery

We describe industry funded contributions to the assessment of the SNA1 snapper (Pagrus auratus) fishery during the 1990s and discuss the advantages and disadvantages of industry funded research. We also provide background on the history of fisheries management in New Zealand, on the current assessment and management processes, and on the SNA1 snapper fishery. In the SNA1 fishery, the contributions of industry and the cooperation with Government scientists has resulted in high quality assessments. In our opinion, the advantages of industry funded research out weigh the disadvantages and suggest that industry funded assessments are highly desirable and should be an integral part of any management system.     

Measurement and modeling of bed shear stress under solitary waves

Direct measurements of bed shear stresses (using a shear cell apparatus) generated by non-breaking solitary waves are presented. The measurements were carried out over a smooth bed in laminar and transitional flow regimes (~ 10⁴ < R_e < ~ 10⁵). Measurements were carried out where the wave height to water depth (h/d) ratio varied between 0.12 and 0.68; maximum near bed velocity varied between 0.16 m/s and 0.51 m/s and the maximum total shear stress (sum of skin shear stress and Froude–Krylov force) varied between 0.386 Pa and 2.06 Pa. The total stress is important in determining the stability of submarine sediment and in sheet flow regimes. Analytical modeling was carried out to predict total and skin shear stresses using convolution integration methods forced with the free stream velocity and incorporating a range of eddy viscosity models. Wave friction factors were estimated from skin shear stress at different instances over the wave (viz., time of maximum positive total shear stress, maximum skin shear stress and at the time of maximum velocity) using both the maximum velocity and the instantaneous velocity at that phase of the wave cycle. Similarly, force coefficients obtained from total stress were estimated at time of maximum positive and negative total stress and at maximum velocity. Maximum positive total shear stress was approximately 1.5 times larger than minimum negative total stress. Modeled and measured positive bed shear stresses are well correlated using the best convolution model, but the model underestimates the data by about 4%. Friction factors are dependent on the choice of normalizing using the maximum velocity, as is conventional, or the instantaneous velocity. These differ because the stress is not in phase with the velocity in general. Friction factors are consistent with previous data for monochromatic waves, and vary inversely with the square-root of the Reynolds number. The total shear stress leads the free stream fluid velocity by approximately 50°, whereas the skin friction shear stress leads by about 30°, which is similar to that reported by earlier researchers.     

Carbon balance in a salt marsh: Interactions of diffusive export, tidal deposition and rainfall-caused erosion

Studies of the concentrations of particulate and dissolved organic carbon in the Duplin River, of the tidal exchange of POC and DOC in the marsh, of the standing stock and movement of Spartina alterniflora wrack in the Duplin, and of the removal of carbon from the surface of the marsh by rain were conducted at Sapelo Island, Georgia in order to test three hypotheses about export of carbon from the Duplin River watershed. We found that the gradients in POC and DOC concentrations are such that carbon is being transported down the Duplin River throughout the year, although in smaller quantities than previously believed. In contrast, almost all tidal exchanges within the marsh result in deposition of carbon. Most of this deposited carbon is subsequently eroded as a result of rain falling on the exposed marsh surface, and is washed back into the tidal creeks. This cycle of deposition and erosion is a possible mechanism keeping POC in the thin aerobic surface layer of the marsh, thus increasing its availability to detritivores and aerobic microbes. The standing stock of wrack is only a fraction of the S. alterniflora produced each year, and its export is a negligible term in the carbon balance equation.     

Mineral assemblages occurring around hydrocarbon vents in the northern Gulf of Mexico

Magnesian calcites are the most abundant authigenic minerals associated with hydrocarbon vents at 25 sites, in water depths ranging from 100 to 600 m in the Green Canyon area and about 2200 m in the Alaminos Canyon area on the Continental Slope of the northern Gulf of Mexico. The most frequently encountered magnesian calcites have 10–15 mol% MgCO₃ and the apparent structural disorder revealed by XRD peak widths increases with Mg substitution. There are no systematic variations in Mg content with respect to water depth or geographic location. The calcite saturation state of the precipitating fluid is primarily determined by the nature of the fluids escaping from the vents, not the ambient seawater.     

Design of a 3D Chirp Sub-bottom Imaging System

Chirp sub-bottom profilers are marine acoustic devices that use a known and repeatable source signature (1–24 kHz) to produce decimetre vertical resolution cross-sections of the sub-seabed. Here the design and development of the first true 3D Chirp system is described. When developing the design, critical factors that had to be considered included spatial aliasing, and precise positioning of sources and receivers. Full 3D numerical modelling of the combined source and receiver directivity was completed to determine optimal source and receiver geometries. The design incorporates four source transducers (1.5–13 kHz) that can be arranged into different configurations, including Maltese Cross, a square and two separated pairs. The receive array comprises 240 hydrophones in 60 groups whose group-centres are separated by 25 cm in both horizontal directions, with each hydrophone group containing four individual elements and a pre-amplifier. After careful consideration, it was concluded that the only way to determine with sufficient accuracy the source–receiver geometry, was to fix the sources and receivers within a rigid array. Positional information for the array is given by a Real Time Kinematic GPS and attitude system incorporating four antennas to give position, heading, pitch and roll. It is shown that this system offers vertical positioning accuracy with a root-mean-square (rms) error less than 2.6 cm, while the horizontal positioning rms error was less than 2.0 cm. The system is configured so that the Chirp source signature can be chosen by software aboard the acquisition vessel. The complete system is described and initial navigational and seismic data results are presented. These data demonstrate that the approach of using fixed source-receiver geometry combined with RTK navigation can provide complete 3D imaging of the sub-surface.