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Observational data from two field campaigns in the Amazon forest were used to study the vertical structure of turbulence above the forest. The analysis was performed using the reduced turbulent kinetic energy (TKE) budget and its associated two-dimensional phase space. Results revealed the existence of two regions within the roughness sublayer in which the TKE budget cannot be explained by the canonical flat-terrain TKE budgets in the canopy roughness sublayer or in the lower portion of the convective ABL. Data analysis also suggested that deviations from horizontal homogeneity have a large contribution to the TKE budget. Results from LES of a model canopy over idealized topography presented similar features, leading to the conclusion that flow distortions caused by topography are responsible for the observed features in the TKE budget. These results support the conclusion that the boundary layer above the Amazon forest is strongly impacted by the gentle topography underneath.

Observations of the vertical structure of the turbulent flow in different stability regimes above and within the Amazon Forest at the Amazon Tall Tower Observatory (ATTO) site have been presented in Part I. Here, the influence of stability on the inception and development of coherent structures is investigated. According to the mixing-layer analogy the coherent vortices that dominate the turbulent flows at the canopy-atmosphere interface are generated by hydrodynamical instabilities triggered by an inflection in the vertical profile of the mean wind speed at or near the canopy top. The coherent motions time, Tpeak and separation length scale, ?, depend on the shear length scale, Ls, close to the canopy top. The present analysis studies the characteristics of Ls, Tpeak and ? in the five stability regimes defined in Part I. The behaviour of Ls with stability is evaluated and parameterized. Ls increases with decreasing stability, presenting two asymptotes for large unstable and stable stratification and a linear behaviour close to neutral stratification. Coherent structures and their timescale are detected with an original method based on the autocorrelation functions of 5-min subsets of turbulent quantities. The vertical time scale is larger in neutral conditions and decreases for both increasing and decreasing stability. At the canopy top the separation length scale presents a linear dependence on Ls, whose slope is maximum in neutral conditions and decreases departing from neutrality. An original parameterization of the dependence of this slope on h/L, where h is the canopy height and L is the Obukhov length, is shown. Combining the parameterizations, the dependence of the separation length scale is finally presented. ? has a maximum for slightly unstable conditions, linearly decreases towards neutral and weakly stable stratifications and then it tends to zero for very intense unstable and stable stratifications.

The main objective of this work is to better understand the increase of ozone ( O 3 ) in the surface by the influence of density currents formed by downdrafts from mesoscale convective systems, using as tool the JULES-CCATT-BRAMS model. Initially, the superficial increases of O 3 were investigated with the ECMWF Era-Interim reanalysis that showed a plume rich in O 3 located at middle troposphere along with the increase of this gas’ concentration in the surface during the rainy period in Central Amazon. GOES satellite images and surface synoptic charts showed the formation of a squall line (SL) in the interior of the Continent by the influence of a Frontal System that reached the southeast of South America in this period. The numerical simulation results provided an understanding of the three-dimensional structure of the chemistry and thermodynamics of the atmosphere during the passage of this SL at dawn on April 14, 2014. The downdrafts from SL bring cooler, drier, dense air to near the surface. This downdrafts air column passed by the O 3 “plume” in the middle troposphere, formed rich gas density currents and low level jets were induced near the surface and spread the O 3 . Finally, this cleaner air column decreased the surface carbon monoxide ( CO ) levels, and as a result of the increase in O 3 concentration resulted in an increase in surface nitrogen dioxide ( NO 2 ).

The pristine Amazon rainforest is a unique place to study ozone (O3) deposition rates and tropospheric transport, due to the absence of nearby sources of anthropogenic pollution. Parts of the low background O3 are considered to be transported from the stratosphere into the troposphere. This occurs due to general entrainment of stratospheric air at the tropopause. Within the troposphere, downdrafts provide effective vertical mixing and are known to increase surface O3 values. Low-level jets can also enhance O3 concentrations due to long range transport and locally induced mixing in the nocturnal boundary layer. Therefore, we study these phenomena based on long term datasets from 2012 to present from tall measurements towers (80 m and 325 m).Ozone mixing ratios were measured at the ATTO site (Amazon Tall Tower Observatory) in the Central Amazon (02°08’38.8’’S, 58°59’59.5’’W) since 2012 at 8 different heights between 5 cm and 80 meters and additional measurements from 80 m up to 325 meters are running since 2017. From 2015 to 2017, 3-dimensional wind measurements have been performed in 150 meters height in 10 Hz sampling rate, showing evidences for the formation of a nocturnal low-level jet (LLJ), which leads to higher turbulent mixing inside the residual layer/ stable nocturnal layer. We were comparing the nocturnal LLJ with downdrafts of air due to strong thunderstorms which led to increases of O3 as well. We are analyzing these events regarding their in-canopy air exchange, their frequency and seasonality and comparing them with the effects of the nocturnal LLJ. As the data series comprises more than eight years of data we are also analyzing the interannual variability.

This study provides a detailed analysis of the influence of atmospheric stratification on the flow dynamics above and within a dense forest for a 19-days campaign at the Amazon Tall Tower Observatory (ATTO) site. Observations taken at seven levels within and above the forest along an 81-meter and a 325-meter towers allow a unique investigation of the vertical evolution of the turbulent field in the roughness sublayer and in the surface layer above it.Five different stability classes were defined on the basis of the behavior of turbulent heat, momentum and CO2 fluxes and variance ratio as a function of h/L stability parameter (where h is the canopy height and L is the Obukhov length). The novelty is the identification of a ‘super-stable’ (SS) regime (h/L>3) characterized by extremely low wind speeds, the almost completely suppression of turbulence and a clear dominance of submeso motions both above and within the forest.The obtained data classification was used to study the influence of atmospheric stratification on the vertical profiles of turbulent statistics. The spectral characteristics of coherent structures and of submeso motions (that may influence the energy and mass exchange above the Amazon forest) have been analyzed by wavelet analyses. The role of the main structures in momentum, heat and CO2 transport at the different levels inside and above the forest and in different diabatic conditions was thoroughly investigated through multiresolution and quadrant analyses.In unstable and neutral stability, the flow above the canopy appears modulated by ejections, whereas downward and intermittent sweeps dominate the transport inside the canopy. In the roughness sublayer (z £ 2h) the coherent structures dominating the transport within and above the canopy have a characteristic temporal scale of about 100 sec, whereas above this layer the transport is mainly driven by larger scale convection (temporal scale of about 15 min).In stable conditions the height of roughness sublayer progressively decreases with increasing stability reaching the minimum value (z2. In the weakly stable regime (0.152 transport.

Understanding the processes that govern the mixing and transport of scalars within and above the Amazon Forest is of great importance for many environmental applications. The impact of atmospheric stability on the roughness sublayer (RSL) as well as the influence on it by the processes in the overlying atmosphere are investigated using measurements collected at the Atmospheric Tall Tower Observatory. Five different stabilities are defined according to the turbulent fluxes' behaviour. Ejections dominate the transport in the RSL. In near neutral and unstable conditions coherent structures propagate up to 2-3 times the canopy height (h) and intermittently penetrate in the lowest part of the forest where sweeps drive the transport processes. In the unstable regime a weakening of the wind inflection at the canopy top and a transition to a convective regime above z = 2 h are observed. In stable conditions three regimes were defined characterised by a progressive lowering of the RSL and the weakening of the mixing-layer type coherent structures. In the 'weakly stable' regime the intense momentum and scalar fluxes appear driven by the coherent structures being able to penetrate inside the canopy intermittently coupling the flow above and within the forest. The 'very stable' regime is characterized by weak winds, a weakening of coherent structures and a decrease of the turbulent fluxes inhibited by buoyancy. The definition of a 'super stable' regime allowed the identification of a peculiar condition characterized by low-wind and weak coherent structures confined close to the canopy top and producing negligible transport. Submeso motions dominate the flow dynamics in this regime both above and inside the RSL. Multiresolution analysis highlights the ability of submeso motions to propagate inside the canopy and to modulate the exchange, particularly of scalars, fully driving the large positive CO2 flux observed inside the forest in the super stable regime.

The Wavelet and the Multiresolution analysis are applied to ten nocturnal hours of observations of 3-D wind velocity taken within and above a forest canopy in Central Amazonia. Data from the ATTO Project, consisting in 7 levels of turbulence observations along both 81 and 325-meter towers, are used. The presented night is dynamically rich presenting three distinct periods. In the first one the boundary layer is characterized by canopy waves and coherent structures generated at the canopy top. In the second period an intense orographic gravity wave generated at around 150 m strongly influences the boundary layer structure, both above and below the canopy. In the third period, a very stable stratification at the canopy top enables the development of a low-level jet that interferes and disrupts the vertical orographic wave. During the night the wavelet cospectra identified turbulent and non-turbulent structures with different length and time-scales that are generated at different levels above the canopy and propagated inside it. The contributions of the different temporal scales of the flow above and within the canopy were identified using Wavelet and Multiresolution two-point cospectra. The analysis showed how turbulent and wave-like structures propagates in different ways and, further, the ability of low-frequency processes to penetrate within the canopy and to influence the transport of energy and scalar in the roughness sublayer and within canopy.Keywords: Coherent structures, Canopy Waves, Gravity Waves, Stable Boundary Layer, Low-Level Jet, wave-turbulence interaction.

Atmospheric turbulence characteristics within and above rain forest canopies are investigated at several sites located in the Amazon region of Brazil. Turbulence data provided by bi- and three-dimensional sonic anemometers, which were deployed at heights ranging from near the forest floor to about 80 m, are analyzed to describe the principal features of atmospheric turbulence, sensible heat flux (H), and components of the turbulent kinetic energy (TKE) budget equation. The analyses focused on weak (WW) and strong (SW) wind conditions to achieve the research objectives of evaluating the turbulence structure above and below the rain forest canopy and estimating the degree of coupling between air layers above the forest and deep in the canopy. Turbulence statistical moments show that atmospheric eddies, generated above the canopy, hardly penetrate the region below 0.5h (h is the canopy height). Forest-atmosphere exchanges of heat differ depending on the observed wind regimes. Sensible heat fluxes decrease with canopy depth for SW conditions and are approximately constant with the height for WW above the canopy. Sensible heat flux profiles reveal a transition layer (around 0.6h) which sometimes exchanges heat with the upper and sometimes with the lower forest canopy, depending on time of day and weather conditions. TKE balance results show that during the daytime period in SW conditions the shear production is at least an order of magnitude greater than the buoyancy above the forest canopy. This turbulence, however, is practically all dissipated in the region above 0.5h. Thus, the air layer from the soil surface to 0.5h is largely decoupled from the upper part of the forest canopy. This feature of having the bottom of the canopy mostly decoupled from the air aloft in the dense and tall rain forest can exert control on the residence times and turbulent transport of plant-emitted gases out of the forest canopy.

We investigated the role of turbulent coherent structures (CS), gravity waves (GW) and low-level jet (LLJ) propagation in the flow dynamics of the Nocturnal Boundary Layer (NBL) within and above a forest canopy at the Amazon Tall Tower Observatory (ATTO), in Central Amazon. Seven levels of wind velocity and temperature measurements allowed the study of the flow structure below and above the surface layer. We analyzed one dynamically rich night in 2015, which includes three distinct periods. In the first one, the NBL is characterized by CS generated at the canopy top. In the second period, the change in wind direction triggers the onset of a orographic GW above the roughness sublayer. The wave, suppressing the propagation of CS, strongly influences the boundary layer structure, both above and below the canopy. In the third period, low turbulence intensity at the canopy top enables the development of a LLJ. As the jet shear layer propagates upward, it disrupts the wave oscillations, while LLJ dominates the flow dynamics. The wavelet analyses identified i) turbulent and non-turbulent structures with different length and time-scales; ii) coupling of the flow at different levels and the vertical propagation of turbulent and wave motions; and iii) the ability of turbulent and low frequency processes associated with the orographic GW to penetrate within the canopy. Further, scalar measurements of methane, carbon monoxide and carbon dioxide identified the LLJ nose as upward limit for how far scalars can be transported.

In this work, we investigate the ozone dynamics during the occurrence of both downdrafts associated with mesoscale convective storms and non-classical low-level jets. Extensive data sets, comprised of air chemistry and meteorological observations made in the Amazon region of Brazil over the course of 2014–15, are analyzed to address several questions. A first objective is to investigate the atmospheric thermodynamic and dynamic conditions associated with storm-generated ozone enhancements in the Amazon region. A second objective is to determine the magnitude and the frequency of ground-level ozone enhancements related to low-level jets. Ozone enhancements are analyzed as a function of wind shear, low-level jet maximum wind speed, and altitude of jet core. Strong and sudden increases in ozone levels are associated with simultaneous changes in variables such as horizontal wind speed, convective available potential energy, turbulence intensity and vertical velocity skewness. Rapid increases in vertical velocity skewness give support to the hypothesis that the ozone enhancements are directly related to downdrafts. Low-level jets associated with advancing density currents are often present during and after storm downdrafts that transport ozone-enriched air from aloft to the surface.

The 2015/16 El Niño event caused unprecedented drought and warming in the Amazon basin. How tropical forests react to such extreme events in terms of volatile organic compound (VOC) emissions is of interest as the frequency of these events is predicted to increase through climate change. The diverse VOCs emitted can be significant for plants' carbon budgets, influence ozone and particle production, and through their reactivity impact OH concentrations. Total OH reactivity is a directly measureable quantity that gives the reaction frequency of OH radicals with all reactive species in the atmosphere in s?1. Here we present a comparison of the OH reactivity diel cycle from November 2015, i.e., extreme drought and elevated temperatures associated with strong El Niño conditions, with November 2012, a ?normal? El Niño Southern Oscillation (ENSO)-neutral period. Interestingly, the diel maximum of OH reactivity during the El Niño event occurred at sunset instead of, under normal conditions, early afternoon. The absolute total diel OH reactivity, however, did not change significantly. Daytime OH reactivity averages were 24.3 ± 14.5 s?1 in 2012 and 24.6 ± 11.9 s?1 in 2015, respectively. Our findings suggest that a combination of stronger turbulent transport above the canopy with stress-related monoterpene and, possibly, other biogenic volatile organic compound (BVOC) emissions were responsible for the increased reactivity at sunset. Made available in DSpace on 2019-03-02T00:42:38Z (GMT). No. of bitstreams: 1 ffgc0100012.pdf: 4348193 bytes, checksum: 1104061953b5e93aea6d22f2494c9c22 (MD5) Previous issue date: 2019-02-28

The structure of atmospheric turbulence is analyzed based on the existence of three different night-time turbulent regimes observed in the Amazon forest, classified according to Sun's criteria: regime 1: weak turbulence, low wind speed; regime 2: strong turbulence, with high wind speed, and regime 3: intermittent turbulence events. Next, we have investigated some of the main statistical characteristics of turbulent regimes. In situations with strong winds and high values of turbulent kinetic energy (4% of cases) sensible heat fluxes are about 40 times higher than the ones under light winds and low turbulent kinetic energy values (95% of cases). Furthermore, the inflection point height in the wind profile and shear length scale Lh = uh/(du/dz) (where uh is the mean wind velocity at canopy top) increases with the regime 2, with the occurrence of strong mixing in the atmospheric boundary layer. In addition the coherent structure time scale in the regime 2 is greater than regime 1. Regime 3 is essentially nonstationary.

The most turbulent vortices that populate the forest-atmosphere interface have canopy height length scales. These vortices are mainly responsible for turbulent exchanges between inside and above canopy region. Thus, we used the vertical wind profiles obtained by 10 anemometers installed inside and above the forest canopy of the Rebio-Jaru experimental site, in the Amazon Rainforest. A third degree polynomial function was developed to better fit the wind profile and therefore estimate the inflection point height of the vertical wind profile ( z i ) a length scale associated with wind shear ( L s ), and the wind speed at height z i . These length and velocity scales were used to obtain better fits for the dimensional wind profiles and turbulence statistical moments. Three dimensionless profile models were compared using friction velocity, wind velocity in z i and wind velocity at canopy height. It was observed that the dimensionless profiles using the velocity and shear calculated at z i provided support for the elaboration of more realistic parameterization of the turbulent exchange processes that occur both at the forest-atmosphere interface and inside the canopy.

The Atmospheric Boundary Layer height ( z i ) is an important quantity used in many parameterizations in surface flux calculations. However, to obtain this height, it is necessary to use atmospheric radiosonde, which can be expensive or even logistically unfeasible in some places in the Amazon. The objective of this work is to estimate z i through the spectrum of the zonal wind component above multiple surfaces of the Amazon region, comparing with the results available in the literature. The z i daily cycle information was generally consistent with minimum values at night and maximum values during the day on all surfaces studied. On the other hand, results seem to run away from expectations, such as z i being larger for the lake than for the savana. It follows that the method has potential to be used in the z i calculation, but still needs further study to improve it.

The present study considers the mean wind velocity profiles measured from a 60 m high tower in the Rebio-Jaru forest (10 ° 04.7 ′ S, 61 ° 52.0 ′ W), located in the Brazilian northwestern state of Rondonia. The data were collected during the wet season as part of an intensive campaign of the large scale biosphere–atmosphere experiment in Amazonia. Nine cup anemometers were vertically placed to provide a good estimate of the inflection point height of the mean wind velocity profile. The resulting data were used to formulate a mean vertical wind speed profile, ū(z), based on key parameters such as the inflection point height and the leaf area index. The modified hyperbolic tangent function was used to provide a more flexible fit to the experimental data. An exponential term was also added to the ū(z) function, so that it can assume the appropriate ‘s’ shape near the ground. Thus, some parameters were incorporated into the analytical profile function to enable more flexibility. The presented results demonstrate that the profile is a good fit to the experimental data measured above and within the Amazon forest canopy.

The occurrence of coherent structures (CS) above the Amazon forest is analyzed. To perform this study, a large eddy simulation (LES) model is used, which has been improved by the introduction of a drag force which is representative of a typical Amazon forest canopy. The results show that the flow is sensitive to the presence of canopy and an inflexion point is simulated in wind profiles. On the region between 1h and 4h several CS features associated with turbulent flow regarding pressure, momentum fluxes, skewness and vorticity fields are detected suggesting that “roll” structures arranged perpendicularly to the mean wind direction populate this region. Other interesting LES results were: (i) the skewness of the wind velocity has also a maximum value on the region, what indicates an asymmetric distribution of the wind velocity relatively to its mean value, a fact that might be associated with the generation process of the “roll” structures; (ii) the horizontal vorticity component transversal to the mean wind direction is greater than the vorticity components on the other orthogonal directions suggesting that “roll” structures move perpendicularly to the mean wind direction.

We analyzed the vertical wind profile measured at six experimental tower sites in dense forest in the Amazon Basin and examined how well two simple models can reproduce these observations. In general, the vertical wind profile below the canopy is strongly affected by the forest structure. From the forest floor to 0.65h (where h = 35 m is the average height of the forest canopy for sites considered), the wind profile is approximately constant with height with speeds less than 1 ms−1. Above 0.65 to 2.25h, the wind speed increases with height. Testing these data with the Yi and Souza models showed that each was able to reproduce satisfactorily the vertical wind profile for different experimental sites in the Amazon. Using the Souza Model, it was possible to use fewer input variables necessary to simulate the profile.

The Amazon Basin plays key roles in the carbon and water cycles, climate change, atmospheric chemistry, and biodiversity. It already has been changed significantly by human activities, and more pervasive change is expected to occur in the next decades. It is therefore essential to establish long-term measurement sites that provide a baseline record of present-day climatic, biogeochemical, and atmospheric conditions and that will be operated over coming decades to monitor change in the Amazon region as human perturbations increase in the future. The Amazon Tall Tower Observatory (ATTO) has been set up in a pristine rain forest region in the central Amazon Basin, about 150 km northeast of the city of Manaus. An ecological survey including a biodiversity assessment has been conducted in the forest region surrounding the site. Two 80 m towers have been operated at the site since 2012, and a 325 m tower is nearing completion in mid-2015. Measurements of micrometeorological and atmospheric chemical variables were initiated in 2012, and their range has continued to broaden over the last few years. The meteorological and micrometeorological measurements include temperature and wind profiles, precipitation, water and energy fluxes, turbulence components, soil temperature profiles and soil heat fluxes, radiation fluxes, and visibility. A tree has been instrumented to measure stem profiles of temperature, light intensity, and water content in cryptogamic covers. The trace gas measurements comprise continuous monitoring of carbon dioxide, carbon monoxide, methane, and ozone at 5 to 8 different heights, complemented by a variety of additional species measured during intensive campaigns (e.g., VOC, NO, NO2, and OH reactivity). Aerosol optical, microphysical, and chemical measurements are made above the canopy as well as in the canopy space. They include light scattering and absorption, aerosol fluorescence, number and volume size distributions, chemical composition, cloud condensation nuclei (CCN) concentrations, and hygroscopicity. Initial results from ecological, meteorological, and chemical studies at the ATTO site are presented in this paper.