Spatial variation of otolith elemental signatures among juvenile gray snapper (<Emphasis Type="Italic">Lutjanus griseus</Emphasis>) inhabiting southern Florida waters

Juvenile gray snapper, Lutjanus griseus, are believed to use bays and estuaries in southern Florida as nurseries before moving out to the adjoining reef tract as adults. Using high-resolution sector field-inductively coupled plasma-mass spectrometry (SF-ICP-MS), the elemental chemistry of the otoliths of juveniles from five nursery regions was resolved by establishing elemental “signatures” for each region. In this study we simultaneously analyzed 32 elements including a suite of rare earth elements. A stepwise variable selection procedure retained a subset of eight elements that contributed substantially to separating otolith samples, including two rare earth elements; this is one of the first studies in which rare earth elements in otoliths have contributed to separation of fish stocks. The classification success rate in assigning fishes to the correct region of origin was 82%. Resolution of sites less than 10 km apart suggested high site fidelity in juvenile gray snapper and little mixing of water masses between sites. The juvenile nursery signatures will be used to determine the relative contribution of different nurseries to the adult population on an adjoining reef tract.     

The importance of life stage to population connectivity in whiting (Merlangius merlangus) from the northern European shelf

Juvenile movements are rarely considered in studies of connectivity. This study investigates movements in juvenile and adult life stages of an ecologically important temperate piscivore, the whiting (Merlangius merlangus). Adult movement was assessed from tag-recapture data collected between 1958 and 1980 around the coast of Scotland. Displacement distances ranged from 53 to 123 km. Adults rarely dispersed offshore in the North Sea, and exchange with the west of Scotland was negligible. Connectivity between nursery and spawning grounds was investigated using otolith microchemistry. Five juvenile nursery areas were discriminated with an accuracy of 75–85%. Comparing isotopic signatures of adults and juveniles indicated that several nursery areas contributed to each spawning aggregation. The lack of evidence for return migrations suggested an opportunistic and non-philopatric recruitment strategy within a single population unit. Differences in the proportion contribution of juveniles to adult aggregations also indicated that the “value” of nursery areas differed and the Scottish west coast could be viewed as a net source of recruits to the North Sea. Given the extent of juvenile dispersal, this study highlights the fact that all stages of the life cycle should be considered in studies of connectivity.     

Scales of variation in otolith elemental chemistry of juvenile staghorn sculpin (<Emphasis Type="Italic">Leptocottus armatus</Emphasis>) in three Pacific Northwest estuaries

Although distinct otolith elemental signatures are often observed in fish collected from different estuaries, significant differences are also observed among sites within estuaries. Variation at these smaller spatial scales is not well quantified and has the potential to lead to inappropriate interpretations of otolith elemental data. To quantify variation at multiple scales, the otolith elemental composition (Mg:Ca, Mn:Ca, Sr:Ca, Ba:Ca, and Pb:Ca) of juvenile staghorn sculpin (Leptocottus armatus Girard, 1854) collected from five sites within three estuaries, the Columbia River (two sites) and Coos Bay (one site), Oregon, and Humboldt Bay, California (two sites), was examined. Using laser ablation-inductively coupled plasma mass spectrometry, each otolith was sampled at three zones: (1) within the primordium, which represents the egg and early larval periods; (2) at the outer edge, which represents the juvenile period just prior to collection; and (3) midway between the primordial and edge samples, which represents the late larval and early juvenile period. There were significant differences in otolith metal-to-calcium ratios at all scales examined. Using multi-element otolith signatures, fish were classified to estuary and site within estuary with relatively high levels of accuracy (av = 70–90%). The largest differences in metal-to-calcium ratios were observed between sites within estuaries (<5 km apart) and the smallest differences were observed among otolith zones. Variation in otolith chemistry may be used to provide information on probable habitat use by estuarine fish but studies must be carefully designed. Electronic supplementary material  Supplementary material is available in the online version of this article at and is accessible for authorized users.     

Classification of juvenile rockfish,<Emphasis Type="Italic"> Sebastes inermis</Emphasis>, to<Emphasis Type="Italic"> Zostera</Emphasis> and<Emphasis Type="Italic"> Sargassum</Emphasis> beds,using the macrostructure and chemistry of otoliths

Young-of-the-year (YOY) Sebastes inermis use Zostera and Sargassum beds as nursery grounds, although it is not known which habitat YOY prefer. In this study, YOY S. inermis were accurately assigned to Zostera or Sargassum beds by two approaches: the width and length of the otolith nucleus and the composition of trace elements in otoliths. The otolith nucleus was initially opaque and then showed a marked shift to hyaline deposition once YOY settled in the nursery grounds. The first hyaline zone (FHZ) was deposited earlier in Zostera beds (from mid-May to early June) than in Sargassum beds (around mid-summer). Likewise, irrespective of settlement year, the FHZ was formed at both significantly younger ages and shorter back-calculated sizes (total length, TL) in the Zostera bed (overall mean: 131±3 days; 2.5±1.7 mm TL) than in the Sargassum bed (overall mean: 158±12 days; 61.3±1.00 mm TL). YOY collected in the Zostera bed were born earlier (mainly in January) than YOY from the Sargassum bed (mainly in February). In addition, a significant linear relationship was found between the age at formation of the FHZ and nucleus dimensions, suggesting that nucleus dimensions were a reliable macroscopic indicator of the time of formation of the FHZ and, consequently, also an indicator of the nursery where YOY grew. Linear discriminant function analysis (LDFA) based on the width and length of the otolith nucleus could distinguish juveniles from Zostera (88–96%) and Sargassum (96–97%) beds with a high degree of accuracy. In the other approach, six detectable trace elements (Li, Mn, Ni, Cu, Zn, and Ba) in otoliths of YOY collected in the nursery grounds were measured by high-resolution, inductively coupled mass spectrometry. LDFA based on the trace elemental composition separated YOY from three nurseries with 100% of accuracy. Findings suggest that both the trace elemental composition and nucleus dimensions of otoliths can be used as natural tags of the nursery grounds of S. inermis, offering a considerable potential for answering questions on habitat use and the contribution of nursery grounds to the adult stock.Communicated by T. Ikeda, Hakodate     

Variation in condition of coastal Newfoundland 0-group Atlantic cod (Gadus morhua): field and laboratory studies using simple condition indices

Demersal 0-group Atlantic cod (Gadus morhua L.) were collected in Trinity Bay, Newfoundland, Canada, between August 1993 and January 1994. Diet composition and simple indices of condition (hepato-somatic index, condition factors and body ash content) were determined. Laboratory experiments were also conducted to determine whether simple indices of condition reflect differences in energy intake (ration level) and to determine minimum index of condition values, assessed from 0-group cod that died due to exhaustion of their energy reserves. Determination of lower critical indices of condition provided a meaningful interpretation of field data on feeding, condition and survival of 0-group cod. In the wild, indices of condition reflecting variation in liver and muscle energy reserves of cod increased rapidly with the consumption of Calanus finmarchicus, which exhibited a high incidence of oil sacs, and declined abruptly when this lipid-rich prey was no longer consumed. Liver and muscle condition of 0-group cod from the field varied seasonally, but their condition was consistently above that of cod that died in the laboratory. Laboratory studies, using three ration levels, revealed that condition indices differed over time and among ration levels. Indices of condition representing variation in muscle energy reserves exhibited a steady decline once the hepato-somatic index fell below about 2.0. We interpret this as evidence for depletion of lipids first and then proteins, a pattern similar to that of larger juveniles and adults. We conclude that as long as 0-group cod are above a “safe” level of condition their body length can still increase even when condition is declining. Received: 2 September 1997 / Accepted: 8 December 1998     

Variation in concentrations of trace elements in otoliths and eye lenses of a temperate reef fish, Parma microlepis, as a function of depth, spatial scale, and age

 Territorial Parma microlepis (Günther) (Pomacentridae) were collected at different depths, at three sites in each of four estuaries near Sydney, Australia. Element concentrations were measured by induc- tively-coupled–plasma mass spectrometry. Significant differences in concentrations of Mn and Ba were found in the otoliths of fish sampled in different depth strata, with concentrations generally greatest in fish found in water <4 m deep. Depth-related differences varied among estuaries (e.g. 0 to 1.2 μg Ba g⁻¹ otolith). In most estuaries there was a negative linear relationship between concentrations of Mn and Ba in otoliths and actual depth. Great variation was found within an estuary among sites separated by 0.5 to 3 km. In the eye lenses, concentrations of Rb differed according to depth of capture of fish. The age of fish (1+ to 34 yr) had no influence on the concentrations of elements in otoliths or lenses. Multivariate comparisons of elemental composition (= fingerprints) detected significant differences among depth strata. Fish collected from shallow water had the clearest multivariate classification according to depth. There was a close match between our shallow strata and the average depths reached by low-salinity/high-temperature estuarine plumes. The element composition of whole otoliths and lenses represents average concentrations experienced by the fish. The temporal resolution of differences in ambient conditions is likely to be coarse in the fish (i.e. months to years). Received: 9 April 1999 / Accepted: 29 February 2000     

In situ experiment of ontogenetic variability in the otolith chemistry of Stegastes partitus

Otolith chemistry can be used to assess pelagic larval fish connectivity by comparing spatially variable otolith edge chemistry (corresponding to the site of collection) to otolith core chemistry (corresponding to the site of hatching). However, because the otolith’s edge and core represent different life stages, the deposition of elements may differ, thus complicating direct comparisons of edge and core chemistry to investigate connectivity. Here we present data from a field experiment in which otoliths from embryos (3 days post-fertilization) and juveniles of Stegastes partitus were collected at the same site and time, and chemically analyzed to assess whether elemental concentrations of otoliths vary ontogenetically. Separate multivariate analyses, each investigating the spatial/temporal variability in the chemistry of either embryo otoliths or the edges of juvenile otoliths, revealed significant differences, suggesting an environmental influence to the chemical signals of otoliths. A nested multivariate analysis assessing whether otolith chemistry varied with life history stage (i.e., ontogenetic variability) indicated that elemental concentrations of embryo otoliths were significantly greater than that of juvenile otolith edges. Specifically, embryo elemental concentrations of Mn, Zn, Sn, Ba, Ce, and Pb were between 2 and 163 times greater than those of the corresponding juvenile otoliths, and thus the environment was not the primary determinant of embryo otolith chemistry. Consequently, caution is warranted when interpreting environmental patterns of otolith cores, particularly when using them as a proxy for natal signatures.     

Exploring the potential of otolith microchemistry to enhance diet analysis in pinnipeds

Increasing the scope and accuracy of information about pinniped diets obtainable from non-invasive techniques is increasingly important, particularly in cases where pinniped species are threatened or endangered. This study is the first to explore the potential for using elemental analysis of the otoliths found in scat to enhance the information available for diet analyses. We investigated the effects of pinniped digestion on otolith microchemistry using laser ablation inductively coupled plasma mass spectrometry (LA-ICPMS). We compared the elements contained in the edges (adult stage) and cores (larval/juvenile stage) of otoliths from Pacific herring (Clupea pallasii), Atka mackerel (Pleurogrammus monopterygius), and Walleye pollock (Theragra chalcogramma) recovered from the scat of captive Steller sea lions (Eumetopias jubatus) to elements in a sample of pristine (undigested) otoliths. We found that digestion had a significant effect on four of the six sampled combinations of species and otolith region (herring edges and cores, mackerel edges, and pollock cores), and that Rb most frequently showed significant differences in concentration after digestion. We could significantly discriminate among species of both pristine and digested otoliths using either otolith edges or cores with the elements Ba, Rb, Sr, Y, and Mg. When compared to previously identified digested otoliths, unknown samples of the three species of digested otoliths could be discriminated with 55–100% accuracy depending on species and otolith region. When compared to a library of previously identified pristine and digested otoliths, unknown samples of digested otoliths could be discriminated to species with 65–88% accuracy. When the group of unknown digested otoliths was compared to known pristine otoliths, discrimination ranged from 45 to 65%. These results indicate that elemental analysis could be used to supplement visual identification of otoliths from scat. However, further research is required to determine whether elemental analysis of digested otoliths could be useful for prey fish population studies.     

Elemental concentrations in air, water, and aquatic biota in two rural provinces in northern Vietnam

The present study on environmental pollution in northern Vietnam investigates elemental concentrations in fine particulate matter (PM_2.5), freshwater, and aquatic biota at two sites with differing levels of industrial activities. An Thin is situated 47 km east of Hanoi in the neighbourhood of a coal combustion power plant, whereas the reference site, Duy Minh, is situated in the agricultural province of Ha Nam, 40 km south of Hanoi. Elemental concentrations were analysed using energy-dispersive X-ray fluorescence, total reflection X-ray fluorescence, and graphite furnace atomic absorption spectro-metry. All investigated elements in fine particles (PM_2.5) had significantly higher concentrations in An Thin, thus identifying the air at this site as polluted. In contrast to the aerosol samples, elemental concentrations as well as quantitative differences between the sampling sites were low in freshwater and biota, indicating that the impact of atmospheric deposition was limited.     

Population structure and life history of orange roughy (Hoplostethus atlanticus) in the SW Pacific: inferences from otolith chemistry

We examined site differences in the elemental composition of the primordium and ontogenetic variability of Sr in otoliths of fish from Australia and New Zealand and, as an out-group, the North Atlantic. Differences among sites in primordium composition are slight, but significant for all five elements assayed (Sr, Pb, Cu, Zn and Hg), but principally reflect differences between the North Atlantic and SW Pacific specimens, do not replicate for independent samples in the SW Pacific and constitute a poor “natural tag” in roughy, with <25% of fish successfully assigned to source location. However, mean Sr weight-fractions at the primordium showed similar latitudinal variation across sites in Australia, New Zealand and the Tasman Sea, indicating both spatially structured populations and a common structuring process across the region. Comparisons of ontogenetic variability of Sr in otoliths from juveniles and young adults within and between sites in the SW Pacific strongly support the hypothesis that variability in this element is site-specific and environmentally sensitive, although the environmental factors involved are not obvious. The otolith analysis confirms previous suggestions that juvenile and adult Hoplostethus atlanticus are relatively sedentary, but also indicates that the population sub-structuring by age within sites is more complex and there are likely to be more spawning areas in Australian waters than previously thought. More broadly, although single point analysis of otolith composition at the primordium resolves a population structure in roughy, alone it is not precise enough to test hypotheses about the processes causing this structure. Ontogenetic variability in Sr provides better resolution of spatial structure, even in a relatively homogenous marine environment like the deep ocean, and also provides insight into behavioural and ecological factors. Ontogenetic analyses of Sr in otoliths are expensive to obtain, require more effort in specimen preparation than single point analyses, and are difficult to compare statistically, but the increased information they yield warrants their broader consideration in marine species.     

Environmental variability and fledging body mass of Common Guillemot Uria aalge chicks

To gain a better understanding of population processes and in the light of the critically endangered status of the Common Guillemot Uria aalge in Norway, we investigate which environmental factors might affect the fitness of guillemot chicks as they depart from the nest site over a 16-year period on a colony in NE Norway. Although prey composition did not seem to influence the fledging body mass of the chicks, there were significant relationships between the yearly variations in chick body mass and abundance of two important prey species (1-group herring Clupea harengus that is an important chick food item and 0-group cod Gadus morhua that is an important adult food item), population size and the sea surface temperature around the colony. The positive influence of young herring and cod on Common Guillemot chick mass occurred during a period of warming in the Barents Sea such that future recruitment into the population will depend partly on the long-term changes in ocean climate in the region.     

Genetic heterogeneity among blacktip shark,<Emphasis Type="Italic"> Carcharhinus limbatus</Emphasis>, continental nurseries along the U.S. Atlantic and Gulf of Mexico

Genetic population structure of the blacktip shark, Carcharhinus limbatus, a commercially and recreationally important species in the southeast U.S. shark fishery, was investigated using mitochondrial DNA control region sequences. Neonate blacktip sharks were sampled from three nurseries, Pine Island Sound, Terra Ceia Bay, and Yankeetown, along the Gulf of Mexico coast of Florida (Gulf) and one nursery, Bulls Bay, on the Atlantic Ocean coast of South Carolina (Atlantic). Sequencing of the complete mitochondrial control region of 169 neonates revealed 10 polymorphic sites and 13 haplotypes. Overall haplotype diversity and percent nucleotide diversity were 0.710 and 0.106%, respectively. Haplotype frequencies were compared among nurseries to determine if the high mobility and seasonal migrations of adult blacktip sharks have maintained genetic homogeneity among nurseries in the Atlantic and Gulf. Chi-square analysis and AMOVA did not detect significant structuring of haplotypes among the three Gulf nurseries, P(²)=0.294, _ST=–0.005 to –0.002. All pairwise AMOVA between Gulf nurseries and the Atlantic nursery detected significant partitioning of haplotypes between the Gulf and Atlantic (_ST=0.087–0.129, P<0.008), as did comparison between grouped Florida Gulf nurseries and the Atlantic, _CT=0.090, P<0.001. Based upon the dispersal abilities and seasonal migrations of blacktip sharks, these results support the presence of philopatry for nursery areas among female blacktip sharks. Our data also support the treatment of Atlantic and Gulf blacktip shark nursery areas as separate management units.Communicated by P.W.Sammarco, Chauvin     

Chemistry of tuna otoliths: assessment of base composition and postmortem handling effects

Protocols used to collect and prepare otoliths for chemical analysis may result in either contamination or loss of elements, thus biasing population studies in unknown ways. We evaluated precision and bias associated with collection and cleaning procedures for three Atlantic tuna species: Atlantic bluefin tuna (Thunnus thynnus), yellowfin tuna (T. albacares), and blackfin tuna (T. atlanticus). Elemental concentrations were measured using solution-based inductively coupled plasma mass spectrometry and atomic absorption spectrophotometry. Seven elements were present above detection limits in all samples (Na, Mg, K, Ca, Mn, Sr, Ba). Mean concentrations of all seven elements were statistically indistinguishable in fresh pairs of otoliths of T. thynnus (mean error 5%, range 2-8%) and T. albacares (mean error 5%, range 3-7%); no indication of a left versus right otolith effect was observed. Otolith elemental concentrations were size dependent and significant inverse relationships were observed for Mg, Na, and K. Deliberate contamination of previously cleaned samples using a 10-ppm solution of a mixture of elements demonstrated that otoliths easily acquire surface contamination. Recleaning contaminated otoliths restored elemental concentrations to levels similar to control otoliths. Precision of paired comparisons between cleaned otoliths and those exposed to contamination and recleaned was high (mean error 6%). The effects of storage at two temperatures (7 days at -20°C, 3 days at 1°C) were investigated. For K, Ca, Sr, Mn, and Ba, variation between control (removed immediately) and treatment otoliths (in situ freezing or chilling) was similar to variation observed within fresh otolith pairs (mean error: fresh vs frozen 5%, fresh vs iced 5%). Statistically significant but small (<10%) postmortem storage effects were observed for Na and Mg. Estimates of error indexed to natural ranges in otolith chemistry of T. thynnus and T. albacares from different geographic regions in the Atlantic and Pacific showed that error values of several elements (Mg, Mn, Ba, Na, K) accounted for a small proportion of the natural range, suggesting levels of precision achieved in this study are suitable for the purpose of stock delineation.     

鱼类耳石元素指纹研究进展

耳石是沉积在真骨鱼类内耳中的一种矿物结构,其主要成分是碳酸盐.在鱼类的生活过程中,水环境中的化学元素经过代谢稳定地沉积在耳石上,由于生活水域化学环境的差异,鱼类耳石的元素组成或含量存在一定的差异,而使耳石上的元素指纹成为一种天然标志,记录了鱼类所经历的生态环境及其变化.耳石元素指纹研究主要包括同位素成分分析、锶钙比率研究(Sr/Ca)以及一些痕量元素分析等,这些可以用于鱼类种群识别、生活史研究、生活环境重建,以及高龄鱼的年龄鉴定,在鱼类生态学和渔业资源学研究中具有广泛的应用前景.参57     

Relative contribution of migratory type on the reproduction of migrating silver eels, <Emphasis Type="Italic">Anguilla japonica</Emphasis>, collected off Shikoku Island,Japan

In order to understand the reproductive contribution among migratory types in the Japanese eel, Anguilla japonica, otolith strontium (Sr) and calcium (Ca) concentrations by X-ray electron microprobe analysis were examined for 37 silver eels collected in Kii Channel off Shikoku Island during the spawning migration season. The wide range of otolith Sr:Ca ratios indicated that the habitat use of A. japonica was not obligatory but facultative among fresh, brackish and marine waters during their growth phases after recruitment to the coastal areas as glass eels. Three migratory types, which were categorized as river eels, estuarine eels and sea eels were found. The estuarine eels were dominant (59%), followed by sea eels (22%) and river eels (19%). The low proportion of river eels from the spawning migration season suggested that the estuarine and sea eels inhabiting the nearby coastal areas might make a larger reproductive contribution to the next generation in this area.     

Population structure of red drum (<Emphasis Type="Italic">Sciaenops ocellatus</Emphasis>) as determined by otolith chemistry

To examine current genetic-based paradigms pertaining to the structure and possible philopatry of red drum populations, we used solution-based inductively coupled plasma-mass spectrometry (ICP-MS) to analyze the otolith chemistry of juvenile red drum (Sciaenops ocellatus) from eight different estuaries in the Gulf of Mexico (Gulf) and the North Atlantic Ocean. One estuary (Tampa Bay, Fla.) was sampled in three different years. Analyses of variance for five elemental ratios (Mg/Ca, Mn/Ca, Zn/Ca, Sr/Ca, Ba/Ca) were all significantly different between estuaries, as was a multi-element signature (MANOVA, Pillais trace F _{50, 1020}=19.41, P<0.0001). We also found that red drum from the Gulf could be distinguished from those taken from the Atlantic Ocean with 99.5% accuracy, likely due to differences in water chemistry between these water masses. A discriminant function developed using these elemental ratios was more than 80% accurate in assigning juvenile red drum to their natal estuary, or in the case of Tampa Bay, to the correct year of spawning. We also used laser ablation ICP-MS to examine the otolith core chemistry of adult red drum collected from spawning aggregations near Tampa Bay. Using a discriminant function analysis with a calibration data set derived from juvenile signatures, we found that 75% of the adult cores matched the juvenile signal established for Tampa Bay 1982. Although preliminary, the results presented here suggest that red drum may return to their natal estuary to spawn, which has been postulated from genetic data.Communicated by P.W. Sammarco, Chauvin     

Enhanced survival of 0-group gadoid fish under jellyfish umbrellas

Young (0-group) gadoid fish, which have been observed sheltering beneath jellyfish (Scyphozoa and Hydrozoa) umbrellas, may find refugia from predation by retreating among medusan tentacles. The survival of juvenile gadoids may therefore be improved by high abundances of medusae. Jellyfish (including Cyanea lamarckii and C. capillata) were caught in the North Sea during routine sampling for 0-group gadoids (cod Gadus morhua, haddock Melanogrammus aeglefinus, Norway pout Trisopterus esmarkii and whiting Merlangius merlangus) between 1971 and 1986, and considerable overlaps have been shown between the spatial distributions of these fish and medusae. Here correlations are made between the abundance of medusae in the North Sea and the residual survival of 0-group fish, as quantified by the deviation in 1-group recruitment from the expected Ricker modelled estimate. Significant positive correlations between the residual survival of whiting and medusa abundance are evident for each individual Cyanea sp. and for the combined Cyanea spp. ln(maximum) abundance (all R ≥ 0.60, P < 0.01, N = 15). The abundance of jellyfish may thus be an important factor influencing the mortality of whiting in the North Sea, and as such should be considered in the development of ‘ecosystem-based’ management of whiting stocks.     

Behaviour of Chemical Elements in Plants and Soils

Neutron activation analysis was used for the determination of the elemental composition of different plants and soils. Variations in concentrations of elements during the day were found. Mean concentrations, standard deviations and relationships between elements in soils and different parts of plants were studied. It was shown that the behaviour of chemical elements in samples from urban and unpolluted areas have significant differences.     

Trends and Seasonality in the Nitrate Concentrations and Loads of the Bere Stream (Dorset) for the Period 1966-1986

Neutron activation analysis was used for the determination of the elemental composition of different plants and soils. Variations in concentrations of elements during the day were found. Mean concentrations, standard deviations and relationships between elements in soils and different parts of plants were studied. It was shown that the behaviour of chemical elements in samples from urban and unpolluted areas have significant differences.     

Simulating property exchange in estuarine ecosystem models at ecologically appropriate scales

A computational scheme has been developed and tested to simulate property exchange by advection and dispersion in estuaries at time and space scales that are well suited to ecological and management simulations, but are coarse relative to the demands of physical hydrodynamic models. An implementation of the Regional Ocean Model System (ROMS) for the Providence River and Narragansett Bay (RI, USA) was used to determine property exchanges between the spatial elements of an ecological box model. The basis for the method is the statistical tabulation of numerical dye experiments done with the full ROMS physical model. The ROMS model domain was subdivided into fifteen coarse boxes, each with two vertical layers, defining 30 elements that were used for the box model simulations. Dye concentrations were set to arbitrary initial concentrations for all ROMS grids in the large elements, and the ROMS model was run for 24 h. The final distribution of the dye among the elements was used as a tracer for property exchange over that day and was used to develop an exchange matrix. Box model predictions of salinity over 77 days in each element compared favorably with ROMS simulated salinity averaged over the same spatial elements, although the disparity was greater in areas where large river inflows caused strong gradients in ROMS within elements assumed to be homogeneous in the box model. The 77-day simulation included periods of high and low river flow. Despite the large size of the spatial elements, dispersion artifacts were small, much less than the modeled daily exchanges. While others have taken a similar approach, we found a number of theoretical and practical considerations deserved careful attention for this approach to perform satisfactorily. Whereas the full ROMS model takes 9 days on a powerful computing cluster to compute the physics simulation for 77 days, the box model simulates physics and biology for the same interval in 5 s on a personal computer, and a full year in under 1 min. The exchange matrix mixing model is a fast, cost effective, and convenient way to simulate daily variation of complex estuarine physics in ecological modeling at appropriate scales of space and time.