A Large-Eddy Simulation Study of the Convective Boundary Layer over Philadelphia during the 1999 Summer NE-OPS Campaign

This study presents a large-eddy simulation (LES) study of the convective boundary layer on August 1, 1999 over Philadelphia, PA during a summer ozone episode. The study is an evaluation of the Colorado State University's Regional Atmospheric Modeling System Version 4.3 (RAMS4.3) with the LES option using Northeast Oxidant and Particulate Study (NE-OPS) data. Simulations were performed with different imposed sensible heat fluxes at the ground surface. The model was initialized with the atmospheric sounding data collected at Philadelphia at 1230 UTC and model integrations continued till 2130 UTC. The resulting mean profiles of temperature and humidity obtained from the LES model were compared with atmospheric soundings, tethered balloon and aircraft data collected during the NE-OPS 1999 field campaign. Also the model-derived vertical profiles of virtual temperature were compared with NE-OPS Radio Acoustic Sounder System (RASS) data while the humidity profiles were compared with NE-OPS lidar data. The comparison of the radiosonde data with the LES model predictions suggests that the growth of the mixing layer is reasonably well simulated by the model. Overall, the agreement of temperature predictions of the LES model with the radiosonde observations is good. The model appears to underestimate humidity values for the case of higher imposed sensible heat flux. However, the humidity values in the mixing layer agree quite well with radiosonde observations for the case of lower imposed sensible heat flux. The model-predicted temperature and humidity profiles are in reasonable agreement with the tethered balloon data except for some small overestimation of temperature at lower layers and some underestimation of humidity values. However, the humidity profiles as simulated by the model agree quite well with the tethered balloon data for the case of lower imposed sensible heat flux. The model-predicted virtual temperature profile is also in better agreement with RASS data for the case of lower imposed sensible heat flux. The model-predicted temperature profile further agrees quite well with aircraft data for the case of lower imposed heat flux. However, the relative humidity values predicted by the model are lower compared with the aircraft data. The model-predicted humidity profiles are only in partial agreement with the lidar data. The results of this study suggest that the explicitly resolved energetic eddies seem to provide the correct forcing necessary to produce good agreement with observations for the case of an imposed sensible heat flux of 0.1 K m s^–1 at the surface.     

Using a 1-D mixing model to simulate the vertical flux of heat and oxygen in a lake subject to episodic mixing

A one-dimensional, two-layer lake model is used to simulate the daily temperature and oxygen profile of an English Lake in response to changes in wind, air temperature and radiation. The thermal model component derives from the TEMIX lake model originally developed by the Institute of Limnology in St. Petersburg [Mironov, D.V., Golosov, S.D., Zilitinkevitch, S.S., Kreiman, K.D., Terzhevik, A.Y., 1991. Seasonal changes of temperature and mixing conditions in a lake. In: Zilitinkevitch, S.S. (Ed.), Modelling Air–Lake Interactions. Springer-Verlag, pp. 74–90]. This paper describes the model's adaptation and its extension to incorporate dissolved oxygen to simulate periods of anoxia of short duration during summer stratification. The new oxygen model component, which is based on mass-balance principles, divides the lake into two layers in a similar way to the thermal model. Its primary purpose is to model periods of anoxia for use in studies of fish survival. The model has been tested over a 10-year period from 1991 to 1999 using daily weather data and fortnightly observations of chlorophyll a and secchi depth. Ten years of fortnightly oxygen measurements, together with 2 years of more detailed (hourly) oxygen data, indicate that simulated and observed oxygen levels are in reasonable agreement considering the sparseness of the chlorophyll observations. The balance between the relative effects of temperature and BOD on oxygen depletion is of particular importance to model accuracy.     

Huddling up in a dry environment: the physiological benefits of aggregation in an intertidal gastropod

In many intertidal gastropods, the formation of aggregations and closing of the opercular opening are behaviors commonly assumed to be associated with water conservation and maintenance of body temperature during tidal emersion periods. In the laboratory, we quantified the relationship between these two behaviors in a littorinid snail common to the north-central shores of Chile, Echinolittorina peruviana, and evaluated any benefit of these behaviors during desiccating conditions. We predicted that solitary individuals would maintain their opercula open for less time than aggregated snails when exposed to drier conditions due, at least in part, to differences in evaporative water loss. In laboratory trials, where relative humidity was manipulated, we observed that aggregated snails maintained their opercula open for longer periods of time than solitary snails under increasingly drier conditions. These results, together with observations of body temperature, suggest that aggregated animals may able to maintain gaseous exchange with their environment for longer periods of time than solitary individuals in response to desiccation stress. Our results suggest an interactive effect of two behaviors that confer physiological benefits when confronted with extreme physical conditions experienced during periods of emersion.     

Determination of the optimum MM5 configuration for long term CMAQ simulations of aerosol bound pollutants in Europe

Realistic meteorological fields are a prerequisite for the determination of pollutant concentrations and depositions by means of a chemistry transport model. Different configurations of the 5th generation NCAR/Penn State University mesoscale meteorological model MM5 were tested to determine the optimum set up for long term hindcasts that cover several months up to years. Four dimensional data assimilation (FDDA) significantly enhances the spatio temporal representation of temperature, humidity and wind. Best agreement with radiosonde observations could be achieved when temperature, humidity and wind were grid nudged every 6 h. The quality of the resulting meteorological fields showed no significant systematic temporal or spatial variation over Europe in a model run of the year 2000. It was found that the hydrological cycle was not correctly reproduced by the model when no nudging was applied. The relevant model run showed too high relative humidity and too high rainfall when compared to observations. This led to considerably lower aerosol concentrations close to ground and a shift in the deposition patterns of particle bound pollutants like the carcinogenic benzo(a)pyrene (B(a)P). Guest Editor: Dr. S. T. Rao.     

Effects of temperature on oocyte growth in the Mediterranean terebellid Eupolymnia nuebulosa (Annelida: Polychaeta)

Eupolymnia nebulosa (Montagu) is a widely distributed terebellid polychaete that builds its tubes on the coastal shelf in areas with mixed soft and hard bottoms. From a long-term survey in the Bay of Banyuls, France (NW Mediterranean), we found an advancement of the timing of the spawning period coincident with a delayed breakdown of the thermocline. We postulate that persistent high temperatures can influence gamete development by stimulating oocyte growth, resulting in earlier spawning. During 1992 and 1993, we used a between-individuals experimental approach to assess the possible effect of temperature on oocyte growth based on: (1) determination of the growing fraction of the oocyte population (i.e. oocyte net growth); (2) identification of differences in oocyte growth-rate among females; (3) comparison of non-significantly different size-distributions of the growing oocyte fraction (net oocyte size-distributions) at the beginning of the experiments with those at the end. No effect of temperature on oocyte growth was detectable at the population level, but a positive individual response to prolonged high temperature was evident. Thus, the lack of a significant response by the population to prolonged high temperature does not imply a lack of individual response. We propose a model of oocyte-growth dynamics based on temperature that incorporates previous observations of extended oogenesis and oocyte growth during periods of both increasing and decreasing temperature and on the scattered pattern of oocyte size-distributions at the onset of spawning. Received: 4 November 1996 / Accepted: 18 January 1997     

Parameterization of Albedo over Heterogeneous Surfaces in Coupled Land-Atmosphere Schemes for Environmental Modeling. Part I: Theoretical Background

In grid-based environmental models, the underlying surface consists of patches of solid and liquid parts and different plant communities, creating a very heterogeneous picture in the grid cell. In these cases, numerical modelers usually use a simple arithmetic average to determine the grid-cell albedo, a key variable in the parameterization of the land-surface radiative transfer over the grid cell. The object of this paper is to consider the assumptions for aggregating the albedo over a very heterogeneous surface where various surfaces occur at different heights, and, then propose a method for deriving a general expression for it. The suggested expression for the albedo is compared with the conventional approach, for the two-patches grid-cell with a simple geometrical distribution and different heights of its components. A numerical test is performed to compare the two approaches by numerical simulation of the evolution of the surface temperature over the particular grid-cell. Specifically, a one-dimensional land-surface model was applied to an isolated rocky grid-cell with a hole in the center; the model was forced with meteorological observations taken on July 17, 1999 in Philadelphia, PA.     

A high resolution measurement of the morning ABL transition using distributed temperature sensing and an unmanned aircraft system

We used an unmanned aircraft system (UAS) to lift and suspend distributed temperature sensing (DTS) technologies to observe the onset of an early morning transition from stable to unstably stratified atmospheric conditions. DTS employs a fiber optic cable interrogated by laser light, and uses the temperature dependent Raman scattering phenomenon and the speed of light to obtain a discrete spatial measurement of the temperature along the cable. The UAS/DTS combination yielded observations of temperature in the lower atmosphere with high resolution (1 s and 0.1 m) and extent (85 m) that revealed the detailed processes that occurred over a single morning transition. The experimental site was selected on the basis of previous experiments and long term data records; which indicate that diurnal boundary layer development and wind sectors are predictable and consistent. The data showed a complex interplay of motions that occur during the morning transition that resulted in propagation and growth of unstable wave modes. We observed a rapid cooling of the air aloft (layer above the strong vertical temperature gradient) layer directly after sunrise due to vertical mixing followed by an erosion of the strong gradient at the stable layer top. Midway through the transition, unstable wave modes were observed that are consistent with Kelvin–Helmholtz motions. These motions became amplified through the later stages of the transition.     

The effects of an abnormal decrease in temperature on the Eastern Pacific reef-building coral Pocillopora verrucosa

Coral bleaching events are associated with abnormal increases in temperature, such as those produced during El Niño. Recently, a breakdown in the coral–dinoflagellate (genus Symbiodinium) endosymbiosis has been documented in corals exposed to anomalously cold-water temperatures associated with La Niña events. Given the ecological significance of such events, as well as the threat of global climate change, surprisingly little is known about the physiological response of corals to cold stress. This study evaluated some physiological effects of continuous temperature decline in colonies of the eastern Pacific reef-building coral Pocillopora verrucosa. Twenty days of incubation at 18.5–19.0 °C resulted in a substantial decrease in holobiont lipid and Chla content, as well as an increase in Symbiodinium density. These observations suggest a combination of symbiont acclimation due to the temperature decline and reallocation of carbon toward algal growth as opposed to translocation to the host coral. With a decreased availability of symbiont-derived carbon, the coral likely catabolized storage lipids in order to survive the stress event. Despite this stress and some tissue necrosis, no mortality was noted and corals recovered quickly when returned to the ambient temperature. As these results are in marked contrast to similar studies investigating elevated temperature on this coral from this same location, Pocillopora in the Mexican Central Pacific may be more prone to long-term damage and mortality during periods of ocean warming as opposed to ocean cooling.     

A Minimal Model of Adiabatic Isotherms Surfacing in Very Shallow Waters

Based on a phenomenology that is rather frequent in the Gulf of Trieste (Northern Adriatic Sea), we analytically model the short time evolution of the temperature field inside a shallow layer of coastal water induced by a sudden offshore wind. In particular, we reproduce in a very simple way the unsteady surfacing of the isotherms forced by the marine current circulating in a vertical plane perpendicular to the coastline. The model is in agreement with the observations of a significant event recorded on 25 June, 2002 in the Gulf of Trieste.     

Continuous plankton records: relationships between species of phytoplankton and zooplankton in the seasonal cycle

Seasonal fluctuations in abundance and their geographical variations in the north-east Atlantic Ocean and the North Sea for 49 taxa of both phytoplankton and zooplankton have been studied by multivariate techniques. Most of the observed variability in both seasonal and geographical fluctuations in abundance can be attributed to differences between the taxa with respect to population growth rates modulated by temperature coupled with the distribution of overwintering stocks, with the overall pattern also influenced by the timing of the establishment and breakdown of vertical stability in the water column. The observations indicate that for any species, the similarity between its seasonal cycles in the various areas, which represent a wide range of hydrographic regimes, is appreciably greater than any differences induced by interaction between the species in any particular area.     

Dark survival of autotrophic,planktonic marine diatoms

A general ecological problem is considered: how long can a photoautotrophic microalga, incapable of producing a resting spore (stage), retain its viability in the dark following removal from the euphotic zone? Nine coastal diatoms, including some capable of producing resting spores, were kept in the dark for 90 days at 15°C, and their growth (viability) checked at periodic intervals upon reillumination. Seven of the 9 diatoms retained their viability for 90 days; generation time of illuminated cells then ranged from 2.5 to 10 days. Skeletonema costatum survived only 7 weeks of darkness. Based on the present and published observations, dark survival of this species is inversely related to temperature; it survives at least 24 weeks at 2°C, and from 1 to 4 weeks at 20°C. None of the species was observed to grow in the dark. The effects of temperature and light on dark survival, and of darkness on the chemical composition and photosynthesis following reillumination as reported in the scattered literature are evaluated. Together with the present observations, it is suggested that dark survival of photoautotrophic microalgae: (1) varies between species; (2) may be temperature dependent in some species, as in S. costatum; (3) may be prolonged by periodic illumination at subcompensation intensities for photosynthesis, as shown in Dunaliella tertiolecta. The potential ecological significance of these findings is also considered, should these in vitro results apply to natural populations.     

Biochemical evidence for absence of feeding in puerulus larvae of the Western rock lobster Panulirus cygnus (Decapoda: Palinuridae)

Changes in energy-reserves during the transition from phyllosoma through peurulus to juvenile in the Western rock lobster Panulirus cygnus (George, 1962) were studied by means of carbon: nitrogen analysis. Specimens were collected by means of plankton nets and puerulus collectors along the Western Australian coastline between July 1992 and January 1993. Reserves are accumulated during the last phyllosoma stage and are consumed during the puerulus stage. These observations support the hypothesis that the puerulus is a non-feeding stage. Based on basal metabolic rate and observed changes in reserves, the natant puerulus stage is calculated to last a maximum of 21.6d. When the estimated cost of swimming is taken into account, the duration is reduced to perhaps a week. The latter time-span corre-sponds with field observations that both abundance of planktonic pueruli in oceanic waters and inshore settlement of pueruli peak in the week around new moon. At 18°C, the puerulus metamorphoses to the first juvenile stage within 12.8 d after settlement; at 23°C this is reduced to 8.3 d. After settlement, puerulus larvae have an energetic advantage at elevated temperatures; the increased cost of metabolism is compensated by an accelerated development. The natant puerulus, however, appears to be slightly disadvantaged energetically at elevated temperatures; both C:N ratio and ash-free dry weight of pueruli just after settlement show a decreasing trend as the water temperature increases. The effect of water temperature and the distance from the edge of the continental shelf to the shore on consumption of energy reserves might provide a mechanism to partially explain temporal and spatial patterns in puerulus settlement.     

A comparative study of prognostic MM5 meteorological modeling with aircraft, wind profiler, lidar, tethered balloon and RASS data over Philadelphia during a 1999 summer episode

This study presents a comparative evaluation of the prognostic meteorological Fifth Generation NCAR Pennsylvania State University Mesoscale Model (MM5) using data from the Northeast Oxidant and Particle Study (NE-OPS) research program collected over Philadelphia, PA during a summer episode in 1999. A set of model simulations utilizing a nested grid of 36 km, 12 km and 4 km horizontal resolutions with 21 layers in the vertical direction was performed for a period of 101 h from July 15, 1999; 12 UTC to July 19, 1999; 17 UTC. The model predictions obtained with 4 km horizontal grid resolution were compared with the NE-OPS observations. Comparisons of model temperature with aircraft data revealed that the model exhibited slight underestimation as noted by previous investigators. Comparisons of model temperature with aircraft and tethered balloon data indicate that the mean absolute error varied up to 1.5 °C. The comparisons of model relative humidity with aircraft and tethered balloon indicate that the mean relative error varied from –11% to –22% for the tethered balloon and from –5% to –30% for the aircraft data. The mean relative error for water vapor mixing ratio with respect to the lidar data exhibited a negative bias consistent with the humidity bias corresponding to aircraft and tethered balloon data. The tendency of MM5 to produce estimates of very low wind speeds, especially in the early-mid afternoon hours, as noted by earlier investigators, is seen in this study also. It is indeed true that the initial fields as well as the fields utilized in the data assimilation also contribute to some of the differences between the model and observations. Studies such as these which compare the grid averaged mean state variables with observations have inherent difficulties. Despite the above limitations, the results of the present study broadly conform to the general traits of MM5 as noted by earlier investigators.     

Persistent Unequal Sex Ratio in a Population of Grayling (Salmonidae) and Possible Role of Temperature Increase

In some fishes, water chemistry or temperature affects sex determination or creates sex‐specific selection pressures. The resulting population sex ratios are hard to predict from laboratory studies if the environmental triggers interact with other factors, whereas in field studies, singular observations of unusual sex ratios may be particularly prone to selective reporting. Long‐term monitoring largely avoids these problems. We studied a population of grayling (Thymallus thymallus) in Lake Thun, Switzerland, that has been monitored since 1948. Samples of spawning fish have been caught about 3 times/week around spawning season, and water temperature at the spawning site has been continuously recorded since 1970. We used scale samples collected in different years to determine the average age of spawners (for life‐stage specific analyses) and to identify the cohort born in 2003 (an extraordinarily warm year). Recent tissue samples were genotyped on microsatellite markers to test for genetic bottlenecks in the past and to estimate the genetically effective population size (N_e). Operational sex ratios changed from approximately 65% males before 1993 to approximately 85% males from 1993 to 2011. Sex ratios correlated with the water temperatures the fish experienced in their first year of life. Sex ratios were best explained by the average temperature juvenile fish experienced during their first summer. Grayling abundance is declining, but we found no evidence of a strong genetic bottleneck that would explain the apparent lack of evolutionary response to the unequal sex ratio. Results of other studies show no evidence of endocrine disruptors in the study area. Our findings suggest temperature affects population sex ratio and thereby contributes to population decline. Persistencia de Proporción de Sexos Desigual en una Población de Tímalos (Salmonidae) y el Posible Papel del Incremento de la Temperatura     

Thermal constraints on prey-capture behavior of a burrowing spider in a hot environment

Summary Seothyra henscheli (Eresidae) is a burrowing spider that lives in the dune sea of the southern Namib Desert, Namibia. Prey capture by these spiders involves a foray from a cool subterranean retreat to the undersurface of a capture web that can be lethally hot. Striking, disentangling and retrieving prey from the capture web typically involves several short trips to the capture web, alternating with retreats to the cool burrow. It has been suggested that this behavior limits the increase of body temperature a spider must experience while working at the hot capture web. We used biophysical models in conjunction with direct observations of prey-capture behavior and distributions of sand temperature to estimate body temperatures experienced by S. henscheli during prey capture. In the circumstances we observed, only the relatively long post-strike retreat from the capture web is important in keeping spiders' body temperatures from exceeding their lethal limits. After the post-strike retreat, shuttling appreciably limits the increase in body temperature of small individuals, but may have little effect on body temperature increase in larger spiders. Correspondence to: J.S. Turner at the present address     

The performance of RAMS in representing the convective boundary layer structure in a very steep valley

Data from a comprehensive field study in the Riviera Valley of Southern Switzerland are used to investigate convective boundary layer structure in a steep valley and to evaluate wind and temperature fields, convective boundary layer height, and surface sensible heat fluxes as predicted by the mesoscale model RAMS. Current parameterizations of surface and boundary layer processes in RAMS, as well as in other mesoscale models, are based on scaling laws strictly valid only for flat topography and uniform land cover. Model evaluation is required to investigate whether this limits the applicability of RAMS in steep, inhomogeneous terrain. One clear-sky day with light synoptic winds is selected from the field study. Observed temperature structure across and along the valley is nearly homogeneous while wind structure is complex with a wind speed maximum on one side of the valley. Upvalley flows are not purely thermally driven and mechanical effects near the valley entrance also affect the wind structure. RAMS captured many of the observed boundary layer characteristics within the steep valley. The wind field, temperature structure, and convective boundary layer height in the valley are qualitatively simulated by RAMS, but the horizontal temperature structure across and along the valley is less homogeneous in the model than in the observations. The model reproduced the observed net radiation, except around sunset and sunrise when RAMS does not take into account the shadows cast by the surrounding topography. The observed sensible heat fluxes fall within the range of simulated values at grid points surrounding the measurement sites. Some of the scatter between observed and simulated turbulent sensible heat fluxes are due to sub-grid scale effects related to local topography.     

Soil drying in a tropical forest: Three distinct environments controlled by gap size

Soil water and temperature regimes in the tropical moist forest on Barro Colorado Island, Panama, were simulated directly from meteorological data using the model SWEAT. Separate field observations from root-exclusion, litter-removal and control treatments in one small and one large forest gap were used for calibration and validation. After irrigating all treatments to field capacity, soil matric potential and temperature were measured over 17 days at four depths ≤50 mm using the filter-paper technique and bead thermistors. Understorey environments were also simulated under the same initial conditions. The results suggest that three distinct scenarios, controlled by gap size, describe how the above- and below-ground processes controlling soil drying are coupled: (1) in the large gap, root water extraction by surrounding trees is negligible so soil drying is dominated by evaporation from the soil surface. Soil temperature is dominated by direct solar heating and cooling due to evaporation. (2) In the small gap, root water extraction dominates soil drying with soil evaporation playing a minor role. Soil temperature is still dominated by direct sunlight with some cooling due to evaporation. (3) In the understorey, root water extraction dominates soil drying. Soil temperature is dominated by heat conduction from deep soil layers with some evaporation and sensible heat transfer. The contrasting soil drying regimes imposed by variation in canopy structure enhance micro-environmental heterogeneity and the scope for differential germination and seedling establishment in coexisting tropical tree species.     

A simple Lagrangian model to simulate temporal variability of algae in the Elbe River

We present a five-year (1997–2001) numerical simulation of daily mean chlorophyll a concentrations at station Geesthacht Weir on the lower Elbe River (Germany) using an extremely simple Lagrangian model driven by (a) water discharge, global radiation, water temperature, and (b) silica observations at station Schmilka in the upper reach of the Elbe River. Notwithstanding the lack of many mechanistic details, the model is able to reproduce observed chlorophyll a variability surprisingly well, including a number of sharp valleys and ascents/descents in the observed time series. The model's success is based on the assumption of three key effects: prevailing light conditions, sporadic limitation of algal growth due to lack of silica and algae loss rates that increase above an empirically specified temperature threshold of 20 °C. Trimmed-down model versions are studied to analyse the model's success in terms of these mechanisms.In each of the five years the model consistently fails, however, to properly simulate characteristic steep increases of chlorophyll a concentrations after pronounced spring minima. Curing this model deficiency by global model re-calibration was found to be impossible. However, suspension of silica consumption by algae for up to 10 days in spring is shown to serve as a successful placeholder for processes that are disregarded in the model but apparently play an important role in the distinctly marked period of model failure. For the remainder of the year the very simple model was found to be adequate.     

Stratified flow interactions with a suspended canopy

Field observations of the interactions between a stratified flow and a canopy suspended from the free surface above a solid boundary are described and analysed. Data were recorded in and around the canopy formed by a large long-line mussel farm. The canopy causes a partial blockage of the water flow, reducing velocities in the upper water column. Deceleration of the approaching flow results in a deepening of isopycnals upstream of the canopy. Energy considerations show that the potential for an approaching stratified flow to be diverted beneath a porous canopy is indicated by a densimetric Froude number. Strong stratification or low-velocities inhibit vertical diversion beneath the canopy, instead favouring a horizontal diversion around the sides. The effect on vertical mixing is also considered with a shear layer generated beneath the canopy and turbulence generated from drag within the canopy. In the observations, stratification is shown to be of sufficient strength to limit the effectiveness of the first mixing process, while the turbulence within the canopy is likely to enhance vertical exchange. Velocity and temperature microstructure measurements are used to investigate the effect of the canopy on turbulent dissipation and show that dissipation is enhanced within the canopy.