@article{yamashita_kurita_yamada_miller_tomiyama_2017, title={A simulation model for estimating optimum stocking density of cultured juvenile flounder Paralichthys olivaceus in relation to prey productivity}, volume={186}, journal={Fisheries Research (Amsterdam, Netherlands)}, author={Yamashita, Y. and Kurita, Y. and Yamada, H. and Miller, J. M. and Tomiyama, T.}, year={2017}, pages={572–578} }
 @inproceedings{fonseca_neill_miller_cabral_2010, title={Ecophys.Fish perspectives on growth of juvenile soles, Solea solea and Solea senegalensis, in the Tagus estuary, Portugal}, volume={64}, number={1-2}, booktitle={Journal of Sea Research}, author={Fonseca, V. F. and Neill, W. H. and Miller, J. M. and Cabral, H. N.}, year={2010}, pages={118–124} }
 @article{taylor_miller_pietrafesa_dickey_ross_2010, title={Winter winds and river discharge determine juvenile southern flounder (Paralichthys lethostigma) recruitment and distribution in North Carolina estuaries}, volume={64}, ISSN={["1873-1414"]}, DOI={10.1016/j.seares.2009.09.006}, abstractNote={Retrospective analyses of a 23 year data set on abundance of Age 0 southern flounder in 105 estuarine nursery areas in the coastal region of North Carolina showed that discernible temporal and spatial patterns exist among clusters of stations. Furthermore, these patterns could be quantitatively related to certain meteorological and hydrological variables, namely winds from the east–southeast (E–SE) and from the north–northeast (N–NE) sectors and river runoff, which explained up to 83% of the interannual variability in numbers. We developed a regression model using recent catch data (1987–2002) and used the model to hindcast an earlier segment of the time series (1979–1986). The model was found to be quite robust, and could predict year class strength within 1 to 80% in the test set of data. We interpret these results to mean that hydrodynamic factors are principally responsible for the observed interannual recruitment variability in southern flounder in NC, since the interannual pattern in abundance of Age 0 fish persists for 2 more years of adult life. Finally, we discuss the implications of the variable spatial distribution patterns for estimates of year class strength from juvenile abundance data. It is possible that estimates of year class strength with a useful level of confidence could be obtained from meteorological data during the larval migration period.}, number={1-2}, journal={JOURNAL OF SEA RESEARCH}, author={Taylor, J. Christopher and Miller, John M. and Pietrafesa, Leonard J. and Dickey, David A. and Ross, Steve W.}, year={2010}, pages={15–25} }
 @article{del toro-silva_miller_taylor_ellis_2008, title={Influence of oxygen and temperature on growth and metabolic performance of Paralichthys lethostigma (Pleuronectiformes : Paralichthyidae)}, volume={358}, ISSN={["1879-1697"]}, DOI={10.1016/j.jembe.2008.01.019}, abstractNote={In this study, we apply Fry's classification of environmental factors to demonstrate the limiting effects of oxygen and its interaction with temperature on the growth of juvenile P. lethostigma. We also evaluated the properties of two metabolic indices, marginal metabolic scope (MMS) and limiting oxygen concentration (LOC), as indicators of metabolic scope. We found that oxygen limitation has its greatest impact near the optimum temperature for growth of the species. At 29 °C a reduction from 6.00 mg/L to 4.00 mg/L caused a 50% reduction in growth rate while at 27 °C the reduction had no significant effect on growth rate. The results are particularly relevant because these temperatures and oxygen concentrations are commonly observed in nursery areas during summer months. At all temperatures fish from the lowest oxygen treatment (1.75 mg/L) had negative growth rates. Comparisons between daily oscillating oxygen treatments and constant treatments failed to demonstrate significant effects. At temperatures past the optimum, growth rates between the 6.00 mg/L and 4.00 mg/L treatments were not statistically different. LOC was significantly affected by temperature, oxygen, and their interaction. Estimates were positively correlated with oxygen treatment (R2 > 0.71) and negatively correlated with temperature at moderate and low oxygen concentrations (R2 > − 0.84). MMS was significantly affected by temperature and oxygen and was significantly correlated with oxygen treatment (R2 > − 0.91), but correlations with temperature were not as clear. In conclusion, oxygen and temperature interactions have significant effects on metabolic scope and growth rates of fish, well above the accepted hypoxia threshold of 2.00 mg/L and MMS has proved a useful estimator of the metabolic scope of the organism within an environment.}, number={2}, journal={JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY}, author={Del Toro-Silva, F. M. and Miller, J. M. and Taylor, J. C. and Ellis, T. A.}, year={2008}, month={Apr}, pages={113–123} }
 @article{necaise_ross_miller_2005, title={Estuarine habitat evaluation measured by growth of juvenile summer flounder Paralichthys dentatus in a North Carolina estuary}, volume={285}, ISSN={["1616-1599"]}, DOI={10.3354/meps285157}, abstractNote={Habitat quality and fish success, in terms of growth and mortality, are presumably correlated, and abiotic conditions are likely to be a major component in determining habitat quality. We assessed habitat quality in terms of fish growth and mortality using basic abiotic factors as the major variables. Juvenile summer flounder Paralichthys dentatus (42 to 59 mm total length) were caged at 5 sites in and around Masonboro Island, North Carolina, USA, during June and July 1999. Temperature, dissolved oxygen, salinity and pH were recorded every 30 min at each enclosure site during the experiment. Potential predators were excluded by cages and known quantities of food were provided to reduce potential impacts of food availability. Fish were individually tagged, and growth rates calculated for surviving fish. Abiotic conditions varied significantly among sites, although no differences in growth rates were detected among sites. Variability in growth rates both within and among sites was high, with 1 site experiencing total mortality. Results suggest that basic abiotic conditions, at the levels and durations that occur within a southeastern US estuary during summer, have little impact on juvenile summer flounder growth, but may influence survival.}, journal={MARINE ECOLOGY PROGRESS SERIES}, author={Necaise, AMD and Ross, SW and Miller, JM}, year={2005}, pages={157–168} }
 @article{neill_brandes_burke_craig_dimichele_duchon_edwards_fontaine_gatlin_hutchins_et al._2004, title={Ecophys.Fish: A simulation model of fish growth in time-varying environmental regimes}, volume={12}, ISSN={["1547-6553"]}, DOI={10.1080/10641260490479818}, abstractNote={Ecophys.Fish is a deterministic STELLA® model for simulating rates of fish growth in environmental regimes that have simultaneous temporal variation in food, oxygen, temperature, pH, and salinity. The purpose of this article is to introduce Ecophys.Fish to those who might want to use it as a framework or starting point for applications of their own. We believe our model, although focused in autecology, will prove useful at organizational levels both below and above the individual fish. Ecophys.Fish is a quantitatively explicit interpretation of concepts originally formalized by F.E.J. Fry, almost 60 years ago. Fry's “physiological classification of environment” and his concept of “metabolic scope for activity” were coupled with conventional bioenergetics to provide the model's theoretical basis. The model's inputs are initial size of fish, and time series of temperature, pH, dissolved-oxygen concentration (DO), salinity, and food availability and its energy content. Outputs are food consumption, oxygen consumption, waste production, energy content of fish biomass, and growth. Indirectly, the output is a measure of relative fitness of the fish-environment system to support fish growth. Two variants of the model represent the euryhaline red drum (Sciaenops ocellatus) and the freshwater bluegill (Lepomis macrochirus). Ecophys.Fish had its beginnings in laboratory experiments with juvenile red drum. These experiments enabled definition of functions and their parameterization, leading to a working model that effectively simulated growth of red drum in various pond and estuary trials with caged fish. Subsequently, Ecophys.Fish was converted to simulate growth rates of caged bluegill involved in stream ecoassays. The latter work confirmed the model's generality and the utility of automated routine respirometry for empirically estimating a key model parameter. Ecophys.Fish comprises an effective tool for resolving sources of variation in fish growth, even in natural systems with high levels of environmental variability. Moreover, the model has utility for probing biological and ecological mechanisms underlying fish growth and production. Finally, Ecophys.Fish is capable of producing rich hypotheses, e.g., 1) the optimum temperature for growth decreases whenever DO, food availability, or energy density of available food is limiting; 2) with unlimited DO and food availability, the optimum temperature for growth increases with increasing fish size but only when energy density of food is limiting; and, 3) when neither availability nor energy density of food is limiting, growth can be much faster under diel-cycling regimes of temperature and DO than under the optimum constant temperature/DO regime. Under Ecophys.Fish, environmental regimes that are best for survival are not necessarily those that are best for growth.}, number={4}, journal={REVIEWS IN FISHERIES SCIENCE}, author={Neill, WH and Brandes, TS and Burke, BJ and Craig, SR and Dimichele, LV and Duchon, K and Edwards, RE and Fontaine, LP and Gatlin, DM and Hutchins, C and et al.}, year={2004}, pages={233–288} }
 @article{kimball_miller_whitfield_hare_2004, title={Thermal tolerance and potential distribution of invasive lionfish (Pterois volitans/miles complex) on the east coast of the United States}, volume={283}, ISSN={["1616-1599"]}, DOI={10.3354/meps283269}, abstractNote={The occurrence of lionfish (Pterois volitans/miles) complex on the southeast United States shelf represents one of the first documented invasions of a Pacific marine fish species into the western Atlantic Ocean. Temperature has been proposed as a possible factor limiting the range of this introduction. To examine this hypothesis, temperature-tolerance studies were conducted follow- ing the chronic lethal minimum protocol, with death as the endpoint. Overall, the mean chronic lethal minimum was 10.0°C and mean temperature at feeding cessation was 16.1°C. Rate of temperature decrease and acclimation temperature did not have a significant effect on chronic lethal minimum or temperature at feeding cessation. When combined with mean February water temperatures, lionfish thermal tolerance data indicated that lionfish could overwinter on the southeast United States conti- nental shelf, with a northern limit of Cape Hatteras and an inshore limit coincident with the mean 12°C isotherm, which equates to a 10°C minimum water temperature. The mean 12°C bottom isotherm also runs along the continental shelf break (200 m isobath), marking the offshore limit for lionfish on the southeast United States continental shelf. The current southern limit of the invasion is not bound by temperature, as lionfish could survive (but have not yet been reported) on the Florida coast south of Miami, throughout the Gulf of Mexico and Caribbean Sea, extending into the southern hemisphere. Possible reasons for the constrained southern limit may include planktonic transport mechanisms, patterns of juvenile and adult movements, and the initial lionfish introduction site.}, journal={MARINE ECOLOGY PROGRESS SERIES}, author={Kimball, ME and Miller, JM and Whitfield, PE and Hare, JA}, year={2004}, pages={269–278} }
 @article{yamashita_tanaka_miller_2001, title={Ecophysiology of juvenile flatfish in nursery grounds}, volume={45}, ISSN={["1873-1414"]}, DOI={10.1016/S1385-1101(01)00049-1}, abstractNote={Relationships between biotic and abiotic factors and the ecological performance of late larval and juvenile flatfish in nursery grounds are examined from ecophysiological viewpoints. The first events in the nursery are metamorphosis and settlement. Development of organs, osmoregulation and behavioural changes during metamorphosis, and size at metamorphosis are regulated by environmental factors. Various hormones play critical roles in this regulation. Effects of environmental conditions on individual growth in the nursery grounds are described on the basis of Fry's five environmental factors: limiting, controlling, masking, directive and lethal factors. The main limiting factors are food and dissolved oxygen; controlling factors are temperature and body size; masking factors are salinity and pollutants; lethal factors are extreme environments; and directive factors are food, predators and dissolved oxygen. In addition to temperature, it has been indicated that dissolved oxygen seems to be relatively important for flatfish of the eastern US and northern European countries, while food abundance appears to be more critical for Japanese flounder. The feasibility is discussed of ecophysiological modelling to predict individual growth and subpopulation production based on the assessment of the role of environmental variability using the above classification, which organises and integrates environmental effects.}, number={3-4}, journal={JOURNAL OF SEA RESEARCH}, author={Yamashita, Y and Tanaka, M and Miller, JM}, year={2001}, month={Jun}, pages={205–218} }
 @article{taylor_miller_2001, title={Physiological performance of juvenile southern flounder, Paralichthys lethostigma (Jordan and Gilbert, 1884), in chronic and episodic hypoxia}, volume={258}, ISSN={["0022-0981"]}, DOI={10.1016/S0022-0981(01)00215-5}, abstractNote={Dissolved oxygen (DO) is proving to be one of the most important abiotic factors determining growth and survival of juvenile estuarine fish. In shallow, throughout estuarine systems, low DO can occur in two broad categories: a diel oscillating pattern resulting in repeated nocturnal hypoxia due to the photosynthesis-respiration cycle of algal populations, or as prolonged bottom water hypoxia or anoxia caused by stratification. A series of laboratory experiments was conducted to characterize the physiological performance of juvenile southern flounder, Paralichthys lethostigma, (55-65 mm TL) exposed to four treatments of DO: (1) constant normoxia (6.50+/-0.50 mg O(2) l(-1)), (2) constant hypoxia (2.79+/-0.19 mg O(2) l(-1)), (3) constant intermediate hypoxia (4.74+/-0.18 mg O(2) l(-1)), and (4) an oscillating oxygen environment cycling dielly between the normoxic and hypoxic levels (2.8-6.2 mg O(2) l(-1), daily mean=4.40 mg O(2) l(-1)). Routine respiration was positively correlated with DO level and increased significantly during the day in the oscillating treatment in response to increasing DO. Ventilation rates were negatively correlated with the DO level in the constant treatments and increased significantly at night in the oscillating treatment in response to nocturnal hypoxia. Similarly, hematocrit levels were negatively related to DO levels in the constant treatments after 5 and 26 days of exposure to the treatments. Hematocrit levels also increased significantly the oscillating treatment, apparently in response to the episodic nocturnal hypoxia. Growth was significantly reduced in the 2.8 mg O(2) l(-1) treatment and the oscillating treatment but not in the 4.7 mg O(2) l(-1) treatment. Acclimation was evident by an increase in growth rates from week 2 to week 3 and a decrease in hematocrit levels between 5 and 26 days of exposure in the 2.7 and 4.5 mg O(2) l(-1) treatments but was not evident in the normoxic or oscillating treatments. These results suggest that a juvenile fish must remain in even moderately low DO in order for acclimation to occur. The research presented demonstrates that correctly assessing habitat quality in terms of DO requires knowledge of a fish's physiological and environmental history.}, number={2}, journal={JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY}, author={Taylor, JC and Miller, JM}, year={2001}, month={Apr}, pages={195–214} }
 @article{aliaume_zerbi_joyeux_miller_2000, title={Growth of juvenile Centropomus undecimalis in a tropical island}, volume={59}, ISSN={["1573-5133"]}, DOI={10.1023/A:1007662611839}, number={3}, journal={ENVIRONMENTAL BIOLOGY OF FISHES}, author={Aliaume, C and Zerbi, A and Joyeux, JC and Miller, JM}, year={2000}, month={Nov}, pages={299–308} }
 @article{veer_berghahn_miller_rijnsdorp_2000, title={Recruitment in flatfish, with special emphasis on North Atlantic species: Progress made by the Flatfish Symposia}, volume={57}, ISSN={["1054-3139"]}, DOI={10.1006/jmsc.1999.0523}, abstractNote={Van der Veer, H. W., Berghahn, R., Miller, J. M., and Rijnsdorp, A. D. 2000. Recruitment in flatfish, with special emphasis on North Atlantic species: Progress made by the Flatfish Symposia. – ICES Journal of Marine Science, 57: 202–215. In summarizing the main results on recruitment that emerged from the series of Flatfish Symposia, two aspects were distinguished: mean level and interannual variability. Recruitment to a stock appears to be related to the quantity of juvenile nursery habitats, suggesting that either larval supply or the carrying capacity of the nurseries is the limiting factor. However, available information on growth of 0-group flatfish suggests that the carrying capacity of nursery areas is never reached. Variability in year-class strength is generated during the pelagic egg and larval stage, probably by variations in the hydrodynamic circulation and in the mortality rates of eggs and larvae. Density-dependent processes seem to occur only during the juvenile stages, particularly in respect of growth. However, no impact on recruitment variability has been found. Density-dependent mortality during the phase shortly after settlement dampens the interannual recruitment variability. There is no evidence of densitydependent effects in the adult phase at present, but these may have been important at lower levels of exploitation. The importance of the factors determining recruitment vary not only among species, but also over the species’ range. It is suggested that damping processes can only occur in the demersal stage, implying that variability in year-class strength can only decrease in fish species with a demersal stage. If true, ultimate variability in recruitment in fish species will be related to the relative duration of the pelagic and demersal stages. 2000 International Council for the Exploration of the Sea}, number={2}, journal={ICES JOURNAL OF MARINE SCIENCE}, author={Veer, HW and Berghahn, R and Miller, JM and Rijnsdorp, AD}, year={2000}, month={Apr}, pages={202–215} }
 @article{zerbi_aliaume_miller_1999, title={A comparison between two tagging techniques with notes on juvenile tarpon ecology in Puerto Rico}, volume={64}, number={1}, journal={Bulletin of Marine Science}, author={Zerbi, A. and Aliaume, C. and Miller, J. M.}, year={1999}, pages={9–19} }
 @article{miller_1997, title={Opening address of the Third Flatfish Symposium}, volume={37}, ISSN={["1385-1101"]}, DOI={10.1016/S1385-1101(97)00028-2}, abstractNote={Relationships between biotic and abiotic factors and the ecological performance of late larval and juvenile flatfish in nursery grounds are examined from ecophysiological viewpoints. The first events in the nursery are metamorphosis and settlement. Development of organs, osmoregulation and behavioural changes during metamorphosis, and size at metamorphosis are regulated by environmental factors. Various hormones play critical roles in this regulation. Effects of environmental conditions on individual growth in the nursery grounds are described on the basis of Fry's five environmental factors: limiting, controlling, masking, directive and lethal factors. The main limiting factors are food and dissolved oxygen; controlling factors are temperature and body size; masking factors are salinity and pollutants; lethal factors are extreme environments; and directive factors are food, predators and dissolved oxygen. In addition to temperature, it has been indicated that dissolved oxygen seems to be relatively important for flatfish of the eastern US and northern European countries, while food abundance appears to be more critical for Japanese flounder. The feasibility is discussed of ecophysiological modelling to predict individual growth and subpopulation production based on the assessment of the role of environmental variability using the above classification, which organises and integrates environmental effects.}, number={3-4}, journal={JOURNAL OF SEA RESEARCH}, author={Miller, JM}, year={1997}, month={Nov}, pages={183–186} }