Reproductive biology of Mustelus lenticulatus from Kaikoura and Nelson

Mustelus lenticulatus is a non‐placental ovoviviparous shark with a gestation period of about 11 months. Young are born at a total length of 30–32 cm from September to December. Copulation, and ovulation of a further set of eggs, rapidly follows parturition. Fecundity increases with the length of the female; the most eggs found in one female was 24; the mean for all females was 10.73.

Males mature at about 85 cm total length and females at 95 cm at Kaikoura. Nelson males probably mature at a smaller size than do Kaikoura males. Nelson females mature at about 85 cm. Maximum observed lengths were 137 cm for females and 115 cm for males.     

Distributions of dissolved and particulate biogenic thiols in the subartic Pacific Ocean

Dissolved and particulate concentrations of the biogenic thiols cysteine (Cys), arginine–cysteine (Arg–Cys), glutamine–cysteine (Gln–Cys), γ-glutamate–cysteine (γ-Glu–Cys) and glutathione (GSH) were measured in the subartic Pacific Ocean in the summer of 2003 using high performance liquid chromatography (HPLC) with precolumn derivatization as reported in previous work. In this study, a preconcentration protocol for the derivatized thiols was utilized to extend detection limits of dissolved thiols to picomolar levels. The measured concentrations of particulate and dissolved thiols were uncoupled, with distinctive depth profiles and large differences in the particulate to dissolved ratios between individual compounds. Glutathione was the most abundant particulate thiol whereas the most abundant dissolved thiol was γ-Glu–Cys, with concentrations as high as 15 nM. Given the relatively small pool of intracellular γ-Glu–Cys and the very low dissolved concentrations of GSH, we hypothesize that glutathione released from cells is rapidly converted to the potentially degradation resistant γ-Glu–Cys outside the cell. The relatively high concentrations of other dissolved thiols compared to particulate concentrations implies both biological exudation and slow degradation rates. Some thiols appear to vary with changes in nutrient availability but this effect is difficult to decouple from changes in community structure inferred from pigment analyses. Dissolved thiol concentrations also exceed typical metal concentrations in the subartic Pacific, supporting previous arguments that they may be important in metal speciation.     

A community-wide intercomparison exercise for the determination of dissolved iron in seawater

The first large-scale international intercomparison of analytical methods for the determination of dissolved iron in seawater was carried out between October 2000 and December 2002. The exercise was conducted as a rigorously “blind” comparison of 7 analytical techniques by 24 international laboratories. The comparison was based on a large volume (700 L), filtered surface seawater sample collected from the South Atlantic Ocean (the “IRONAGES” sample), which was acidified, mixed and bottled at sea. Two 1-L sample bottles were sent to each participant. Integrity and blindness were achieved by having the experiment designed and carried out by a small team, and overseen by an independent data manager. Storage, homogeneity and time-series stability experiments conducted over 2.5 years showed that inter-bottle variability of the IRONAGES sample was good (< 7%), although there was a decrease in iron concentration in the bottles over time (0.8–0.5 nM) before a stable value was observed. This raises questions over the suitability of sample acidification and storage.     

Observations on the Burrows and Burrowing Behaviour of the Red Band-Fish, Cepola rubescens L.

Abstract. The red band-fish, Cepola rubescens L., lives in burrows in sublittoral muddy sediments. The authors first presented information on the burrows of this species in the 1970s. The present paper presents new information on burrow structure, describes the method of excavation, and comments on the bioturbatory significance of the species. The work derives from field and laboratory studies. A burrow typically consists of a vertical shaft which opens into an expanded terminal chamber. In some cases a side shaft may be added. The paper includes a size analysis of 130 burrows measured in the field and detailed morphological information from a selection of burrows which were cast with polyester resin. The fish burrows are frequently intersected by the burrows of other species and interspecific associations may develop. Burrow size reflects the size of the occupant and may approach 1 m in depth. The biogenic movement of water and particles to this depth is often overlooked in bioturbation studies and is discussed. Burrow distribution is aggregate, which has implications for the bioturbatory impact of the species. Burrows are constructed by mouth excavation and this is described in detail. Fish transport fine material within their mouths and coarse material is grasped in the jaws. Large spoil heaps occur at burrow openings. One obvious effect of this bioturbatory activity at the field site was the redistribution of coarse material (shell gravel) from depth to the sediment surface.     

Nutrient flux into an intense deep chlorophyll layer in a mode-water eddy

An intense deep chlorophyll layer in the Sargasso Sea was reported near the center of an anticyclonic mode-water eddy by McGillicuddy et al. [2007. Eddy–wind interactions stimulate extraordinary mid-ocean plankton blooms, Science, accepted]. The high chlorophyll was associated with anomalously high concentrations of diatoms and with a maximum in the vertical profile of ¹⁴C primary productivity. Here we report tracer measurements of the vertical advection and turbulent diffusion of deep-water nutrients into this chlorophyll layer. Tracer released in the chlorophyll layer revealed upward motion relative to isopycnal surfaces of about 0.4 m/d, due to solar heating and mixing. The density surfaces themselves shoaled by about 0.1 m/d. The upward flux of dissolved inorganic nitrogen, averaged over 36 days, was approximately 0.6 mmol/m²/d due to both upwelling and mixing. This flux is about 40% of the basin wide, annually averaged, nitrogen flux required to drive the annual new production in the Sargasso Sea, estimated from the oxygen cycle in the euphotic zone, the oxygen demand below the euphotic zone, and from the ³He excess in the mixed layer. The observed upwelling of the fluid was consistent with theoretical models [Dewar, W.K., Flierl, G.R., 1987. Some effects of wind on rings. Journal of Physical Oceanography 17, 1653–1667; Martin, A.P., Richards, K.J., 2001. Mechanisms for vertical nutrient transport within a North Atlantic mesoscale eddy. Deep-Sea Research II 48, 757–773] in which eddy surface currents cause spatial variations in surface stress. The diapycnal diffusivity at the base of the euphotic zone was 3.5±0.5×10⁻⁵ m²/s. Diapycnal mixing was probably enhanced over more typical values by the series of storms passing over the eddy during the experiment and may have been enhanced further by the trapping of near-inertial waves generated within the eddy.     

Preindustrial, historical, and fertilization simulations using a global ocean carbon model with new parameterizations of iron limitation, calcification, and N2 fixation

The Canadian Model of Ocean Carbon (CMOC) has been developed as part of a global coupled climate carbon model. In a stand-alone integration to preindustrial equilibrium, the model ecosystem and global ocean carbon cycle are in general agreement with estimates based on observations. CMOC reproduces global mean estimates and spatial distributions of various indicators of the strength of the biological pump; the spatial distribution of the air-sea exchange of CO₂ is consistent with present-day estimates. Agreement with the observed distribution of alkalinity is good, consistent with recent estimates of the mean rain ratio that are lower than historic estimates, and with calcification occurring primarily in the lower latitudes. With anthropogenic emissions and climate forcing from a 1850-2000 climate model simulation, anthropogenic CO₂ accumulates at a similar rate and with a similar spatial distribution as estimated from observations. A hypothetical scenario for complete elimination of iron limitation generates maximal rates of uptake of atmospheric CO₂ of less than 1 PgC y⁻¹, or about 11% of 2004 industrial emissions. Even a ‘perfect’ future of sustained fertilization would have a minor impact on atmospheric CO₂ growth. In the long term, the onset of fertilization causes the ocean to take up an additional 77 PgC after several thousand years, compared with about 84 PgC thought to have occurred during the transition into the last glacial maximum due to iron fertilization associated with increased dust deposition.     

A numerical scheme for morphological bed level calculations

The typical equation for bed level change in sediment transport in river, estuary and near shore systems is based on conservation of sediment mass. It is generally a nonlinear conservation equation for bed level. The physics here are similar to shallow water wave equations and gas dynamics equation which will develop shock waves in many circumstances. Many state-of-art morphological models use classical lower order Lax–Wendroff or modified Lax–Wendroff schemes for morphology which are not very stable for long time sediment transport processes simulation. Filtering or artificial diffusion are often added to achieve stability. In this paper, several shock capturing schemes are discussed for simulating bed level change with different accuracy and stability behaviors. The conclusion is in favor of a fifth order Euler-WENO scheme which is introduced to sediment transport simulations here over other schemes. The Euler-WENO scheme is shown to have significant advantages over schemes with artificial viscosity and filtering processes, hence is highly recommended especially for phase-resolving sediment transport models.     

Application of a vanishing, quasi-sigma, vertical coordinate for simulation of high-speed, deep currents over the Sigsbee Escarpment in the Gulf of Mexico

Recent observations over the Sigsbee Escarpment in the Gulf of Mexico have revealed extremely energetic deep currents (near 1 m s⁻¹), which are trapped along the escarpment. Both scientific interest and engineering needs demand dynamical understanding of these extreme events, and can benefit from a numerical model designed to complement observational and theoretical investigations in this region of complicated topography. The primary objective of this study is to develop a modeling methodology capable of simulating these physical processes and apply the model to the Sigsbee Escarpment region. The very steep slope of the Sigsbee Escarpment (0.05–0.1) limits the application of ocean models with traditional terrain-following (sigma) vertical coordinates, which may represent the very complicated topography in the region adequately, can result in large truncation errors during calculation of the horizontal pressure gradient. A new vertical coordinate system, termed a vanishing quasi-sigma coordinate, is implemented in the Navy Coastal Ocean Model for application to the Sigsbee Escarpment region. Vertical coordinate surfaces for this grid have noticeably gentler slopes than a traditional sigma grid, while still following the terrain near the ocean bottom. The new vertical grid is tested with a suite of numerical experiments and compared to a classical sigma-layer model. The numerical error is substantially reduced in the model with the new vertical grid. A one-year, realistic, numerical simulation is performed to simulate strong, deep currents over the Escarpment using a very-high-resolution nested modeling approach. The model results are analyzed to demonstrate that the deep-ocean currents in the simulation replicate the prominent dynamical features of the observed intense currents in the region.