This study utilizes the greenhouse gas (GHGs) and reactive gas mixing ratio data collected at the Instant tower, a neighbor ATTO 80 m tower, at different heights with diverse instrumentation. For the gases NOx (nitric oxide (NO) and NO2) and O3, the data for this study were collected between 2013 and 2020 (for O3) and between 2018 and 2020 (for NO and NO2) and monitored for mixing ratios at the heights 0.05, 0.5, 4, 12, 24, 38, 53, and 79 m, where 0.05 m hovers just above the surface and 79 m is elevated approximately 45 m above the canopy. Each height was measured four times per hour, and air was sampled directly from the inlet height. Timestamps were rescaled to 30 min intervals for each altitude. The mixing ratios of NOx (NO and NO2) and O3 were acquired using an Eco Physics CLD TR 780 and a Thermo Scientific 49i O3 analyzer, which measured by UV photometry with a precision of 1 ppb, as referenced in . Employing a gas-phase chemiluminescence technique, the CLD accurately measures the NO mixing ratio to an accuracy of better than 25 ppt. Subsequently, NO2 was determined by converting it to NO through a photolytic converter driven by UV radiation (solid-state photolytic NO2 converter – BLC; DMT, Boulder, CO, USA). Regular calibration was conducted with a dynamic gas calibrator.

For CO, CO2, and CH4, the data for this study were monitored between 2013 and 2020. Sample air from five different heights (4, 24, 38, 53, and 79 m) was led through a buffer system, such as described by , which was connected to two instruments, employing cavity ring-down spectroscopy with the G1301 and G1302 analyzers (Picarro Inc.). The G1301 analyzer measures data with remarkable precision, displaying a minimal standard deviation of less than 0.05 ppm for CO2 and 0.5 ppb for CH4 in the raw readings. Furthermore, the device exhibits stability over time, with a long-term drift of under 2 ppm for CO2 and 1 ppb annually for CH4. The G1302 analyzer was calibrated using a stable gas tank. This comprehensive assessment revealed a standard deviation of 0.04 ppm for CO2 and 7 ppb for CO in the raw data. Both instruments automatically measured three calibration gases every 100 h and a target tank every 30 h. The measurement strategy was to cover all heights four times per hour, with a resampling rate of 30 min.

Isoprene (C5H8) and monoterpenes (C10H16) were collected at the Instant tower using a proton transfer reaction mass spectrometer (PTR-MS) from November 2012 to December 2015, but not continually due to the need for dedicated people for the instrument operation. Mixing ratios were measured at 0.05, 0.5, 4, 12, 24, 38, 53, and 79 m, where the canopy top is between 24 and 38 m. The sample inlets (3/8′′ o.d. insulated Teflon) were connected to the PTR-MS and installed at the foot of the Instant tower. Each level of the vertical profile was sampled every 2 min between different heights. This sequential operation allowed a complete profile to be generated in just 16 min. The measurements were focused on two compounds: isoprene (m/z 69.069) and monoterpenes (m/z 137.132). For a detailed description, see and . All trace gas profiles were linearly interpolated in 5 m steps from the surface to 80 m for better visual quality and equal vertical distribution.

Air temperature and relative humidity were measured at 26 m, wind speed at 42 m, and precipitation and solar radiation at the top of the tower at 79 m; all measurements were collected by weather sensors installed on the Instant tower. Temperature and relative humidity were measured using a thermo-hygrometer (CS215, Rotronic Measurement Solutions, UK), rainfall was obtained using a rain gauge (TB4, Hydrological Services Pty. Ltd., Australia), wind speed was obtained through a 2-D sonic anemometer (WindSonic, Gill Instruments Ltd., UK), and solar radiation was obtained with a net radiometer (NR-LITE2, Kipp & Zonen, Netherlands). The data were collected from 2013 to 2020, but the parameters experienced intermittent failures at various times. From GOES-16 satellite ABI (Advanced Baseline Imager) channel 13, total cloud cover was estimated, collocated at the ATTO site as the frequency of occurrence of brightness temperature (TIR) < 284 K following . The GLM (Geostationary Lightning Mapper) events, describing the lightning activity, were obtained from the GOES-16 GLM sensor, also collocated at the ATTO site as the number of events every 10 min in an area of 5 by 5 pixels in a 20 km radius, similar to . TIR as well as GLM events were resampled every 30 min. Boundary layer heights were measured using a ceilometer model CHM15k (Jenoptik AG, Jena, Germany). The ceilometer is an instrument based on lidar, which involves capturing the intensity of optical backscatter in the wavelength range 900–1100 nm by emitting autonomous vertical pulses. Lidar measurements are reliant on aerosol concentrations in the atmosphere. Within the PBL, aerosol concentrations are notably higher compared to the free atmosphere above, and this contrast serves as the foundation for detecting the PBL height through lidar measurements; see . Boundary layer height data were resampled every 30 min from 2014 to 2020.

222Rn is a naturally occurring radioactive noble gas of terrestrial origin and is produced via the decay of the long-lived radium isotope 226Ra, present in most rock and soil types . 222Rn is measured in Bq m-3, corresponding to the amount of radon radioactive decay per second in a volume of air, and is used as a proxy for surface–atmospheric mixing and transport. 222Rn and CO2 undergo similar exchange processes between the soil and the atmosphere, and all trace gases experience comparable atmospheric mixing phenomena as atmospheric mixing is turbulent. The exhalation of 222Rn from the soil can be considered almost constant in the absence of rain and changes in pressure. Consequently, it can serve as a proxy for assessing the dynamics of CO2 emission and sink to and from the soil . Atmospheric radon activity concentration was measured at 80 m on the ATTO tall tower. Radon activity measurements covered the period from January 2019 to December 2020. The measurement used a static filter collecting radon progeny with a filter method and assuming radioactive equilibrium between atmospheric radon and its children as described by ; a correction was made to account for the aerosol loss in the intake line as presented in . The data were combined with rainfall to produce a composite for day and night to evaluate the relative importance of surface fluxes for the changes in the gas mixing ratio during rainfall events. The radon source can be assumed to be approximately constant over the diurnal cycle and horizontally uniform on local scales . One limitation of this measurement is the error associated with situations where the relative humidity is larger than 95 % or during rain events, when part of the atmospheric radon progeny may have been lost due to scavenging effects. In these situations, the general assumption that progeny are in equilibrium with the radon gas may be violated. To avoid this imprecision, the measurements used in this study account for only cases where the relative humidity is smaller than this threshold and are only applied for the range of 2 h before the time of maximum rain.

We conducted a composite study following the same methodology as , in which composites were based on the time of maximum rainfall events. This study intends to analyze the gas mixing ratio evolution during rainfall events by selecting moments within 4 h time slots and using composite analysis to obtain the medium pattern evolution before and after maximum rainfall. Composite analyses are useful to study physical hypotheses that occur over time . This method quantifies standardized instances of a specific phenomenon, such as a rainfall event, and consolidates them into a composite. In this study, we computed the gas mixing ratio during rainfall events with a maximum rain rate inside the 4 h time slot as the reference time. This analysis considered a time frame spanning 2 h before and after the peak rain rate. A rainfall event was defined as any instance where the rain rate exceeded 0.5 mm h-1 within a 4 h window, with the peak occurring at the moment of maximum rain rate.

To compute the composites, we first defined the median mixing ratio during the rain event as the median value of the trace gas C at the height z during all times when rain was observed during the day (Cday(z)median) and the night (Cnight(z)median). The composite was constructed as the median at each time (t) corresponding to the window between 15 min before and 15 min after time t. The composite was formed for each trace gas for day and night for the time between 2 h before and 2 h after the maximum rainfall every 30 min. The mixing ratio composite difference is then calculated as ΔCday/night(z,t)=Cday/night(z,t)-Cday/night(z)median. The composite was defined in this way to highlight the variability of the gas mixing ratio during the rainfall event.

We evaluated the composites at three distinct time points: at the onset, at the end of the rain event, and at the moment of peak rainfall intensity. The results exhibited qualitative similarity in gas mixing ratio evolution across these different calculations, except for the gas mixing ratio at the moment designated as the reference time. Figure S1 in the Supplement shows an example of the composite describing the ozone mixing ratio at a height of 79 m. It shows the variation during the rain event, at the onset, at the moment of maximum rainfall, and at the end of the rain event. It can be seen that the composite does not show a very different behavior. The largest effect is at the moment of maximum rainfall because it fixes the time of maximum convective activity, the vertical transport, and the rainfall rate, which influence the turbulence and the air mixing. It can be seen that the definition of the moment as the zero time is not very different among the different composites; this is because many of the rainfall events (about 38 % of the events) have a duration of less than half an hour. Therefore, the time of the beginning, the time of the maximum rain rate, and the time of the end of the rainfall event are considered simultaneously in the composite. The histogram of rainfall rate and event duration is discussed and presented in Sect. 3.2. Considering that more than 64 % of the rain events have a duration of less than 2 h, the composite mainly comprises hours with and without rainfall. The main idea is to consider the mixing ratio variation before and after the maximum rain event rather than the absolute value or when the atmosphere returns to the background mixing ratio. We specifically chose the moment of maximum rain rate as the reference time to center the composite analysis on the most intense phase of rainfall activity. The selection of a 0.5 mm h-1 threshold was based on its proximity to the resolution of the tipping amount. As it was expected that daytime and nighttime conditions are different, considering the presence or absence of solar radiation, we decided to separate the rain events into daytime events (occurring between 08:00 and 17:00 Local Manaus Time) and nighttime events (occurring between 20:00 and 05:00 Local Manaus Time). All composite results are presented as median values.

Between 2013 and 2020, a total of 1291 rain events were recorded. Since the collection period was different for each group of gases, the number of to-be-studied rain events differed per group. The composite dataset utilized 647, 650, 673, and 774 rain events during the daytime and 286, 285, 291, and 264 rain events during the nighttime for CO2, CH4, CO, and O3, respectively. For NO and NO2, the data spanned the period from 2018 to 2020, but due to the intricacies associated with the measurement of NO and NO2, certain time intervals experienced data gaps. Consequently, these gaps impacted the composite dataset when combined with rainfall data. The composite datasets involving rainfall events were derived from 114 and 54 rain events during the day and night, respectively, for NO. Similarly, for NO2, the composites were constructed using 104 and 54 rain events during the day and night. In the case of volatile organic compounds (VOCs), collected between November 2012 and December 2015, the composite datasets that considered rainfall events were calculated using 258 rain events during the daytime and 94 rain events during the nighttime. The various gases, their corresponding data collection periods, and the influence of rainfall events have contributed to a complex dataset that captures the dynamics of atmospheric constituents over the central Amazon.

The gas profiles shown in Fig.  serve as the baseline for the composite analysis, highlighting the profiles around (4 h window) the precipitation events. Composites were derived by calculating deviations from the median profile within a 4 h window, covering 2 h before and 2 h after the peak rain rate. The profiles presented in Fig.  represent the basis for calculating gas mixing ratio differences in the composites. The canopy rises to heights around 32 m, and as a reference, a line at 32 m is included in Fig. . The figures are presented as the median and the 30th and 70th percentiles. The CO2 profile exhibits distinct patterns characterized by elevated mixing ratios at night, a gradual reduction within the canopy during the day, and a relatively constant mixing ratio above the canopy. During the nocturnal hours, the vertical gradient of the mixing ratio decreases steadily. These profiles clearly show the nighttime source of CO2 within the canopy. Similarly, CO demonstrates analogous patterns, with its vertical distribution exhibiting similarities between day and night. However, CO has a much larger variability. We should consider the fact that these figures include the dry and the wet seasons, which have different background values. In contrast, CH4 displays a similar mixing ratio during daytime and nighttime, and its vertical variability remains minimal, typically less than 4 ppb. Even if the CH4 median is quite similar between day and night and has a nearly zero vertical gradient, one cannot explain the large variability between the 30th and 70th percentile. Therefore, no significant difference is found between day and night or in the vertical distribution. These profiles provide insights into the different vertical dynamics of greenhouse gases with strong sources and sinks, like CO2, and weak or absent local sources like CH4.

The O3 profile follows a similar diurnal pattern, with higher mixing ratios during the daytime and an increase in mixing ratio with height. O3 mixing ratio and vertical variation are nearly identical during the day and night. O3 varies from the surface to 79 m by around 7 ppb during the day and 6 ppb at night. This day–night contrast becomes more pronounced above the canopy level. These profiles illustrate how ozone-rich air infiltrates the canopy during rainfall events, contributing to its complexity. The faster decrease in O3 mixing ratios within the canopy primarily results from the interactions between BVOCs and O3 and reaction with the vegetation, as highlighted by . Nevertheless, during instances of rain and, consequently, downdrafts, a surge in turbulence occurs within the canopy, leading to the upward movement of air from the top to the bottom. This atmospheric transport mechanism contributes to an augmentation in O3 mixing ratios within the canopy, as elucidated by . We also note a large variability of O3 due to the different background values during the dry and wet seasons (Fig. S3). Conversely, the mixing ratio of NO remains primarily confined within the canopy, with marginal differences between day and night. However, a distinction arises just below the canopy, where nighttime mixing ratios are larger. This characteristic delineates the interplay of ground-level production and consumption processes within and above the canopy, influenced by the dynamics of the nocturnal boundary layer and its impact on nighttime mixing ratio levels. NO2 exhibits a distinct day–night contrast in its characteristics. At night, its mixing ratio remains relatively homogeneous, while during the day, there is an exponential decrease in the mixing ratio from within the canopy to higher altitudes. Additionally, nighttime mixing ratios above the canopy are higher, indicating production and accumulation within the canopy and consumption within and above during daylight hours.

Isoprene and monoterpenes display similar behavior, with their primary source at the canopy's top. Their mixing ratios decrease both above and below the canopy. During nighttime, isoprene exhibits minimal variation in mixing ratio with height, showing a nearly uniform distribution, with a gradual increase with altitude. In contrast, monoterpenes accumulate in the canopy at night and could be released during rain events. Although their mixing ratio is lower than during the day, their vertical distribution remains constant. The monoterpene production could be influenced by mechanical turbulence within the vegetation, especially during rainfall events, and modulated by the air temperature.

Figures S2, S3, and S4 show the difference between the gas mixing ratio during rain and non-rain events for day and night and wet and dry seasons. These figures provide information on the variability of the mixing ratio profile of each gas during the wet and dry seasons and the rainy and non-rainy moments, giving an idea of the background in each season and during the day and night. The CO2 mixing ratio varies only about 2 ppm during the day and 8 ppm during the night between rain and non-rain events. The variation between dry and wet seasons is small compared to other gases. For CO, the difference between rain and non-rain is around 2 and 6 ppb. Day and night variations are small compared to the seasonal variation of around 20 ppb. The variation in the rain and non-rain profiles has the same behavior between the seasons. The CH4 variation due to rain and the absence of rain is less than 1 ppb during the dry season and during the day. However, the largest vertical gradient is observed during the dry season and the day, with a maximum around the canopy. The difference between rain and the absence of rain is about 3–4 ppb during the wet season and during the night. The seasonal difference is about 6 ppb. Figure S3 shows the ozone, nitric oxide, and nitrogen dioxide profiles. O3 has a significant difference between the dry- and wet-season mixing ratio; the day and night difference shows a different profile, with a more homogeneous profile within the canopy during the night. It is interesting to note that the non-rain event during the dry season has a higher ozone concentration, whereas the opposite behavior is observed during the wet season. This is because the background ozone mixing ratio during the dry season is very high, and the wash-out effect seems to compensate for the effect of the injection of ozone-rich air from higher altitudes. NO shows a less pronounced seasonal variation. The profiles show a higher concentration near the surface and a faster decrease with height, and the non-rainy background shows a higher mixing ratio. NO2 shows a nearly similar variation with height during day and night for both the dry and wet seasons, with a minimum mixing ratio just below the canopy, highlighting an important process of mixing ratio reduction at this height. Finally, Fig. S4 shows the profiles of isoprene and monoterpene. All profiles show a maximum around the canopy and a different mixing ratio between rain and non-rain events. There is a considerable seasonal variation, with more than twice the concentration during the rainy season. During rain events, monoterpenes show a mixing ratio similar to or higher than during non-rain events. Isoprene, however, has a higher concentration during non-rain events, except during the dry season, when the concentration is higher during rainy days.

The composite does not distinguish between the dry and wet seasons, even though most rain events occur during the rainy season. The main objective of this study is to evaluate the variation of the mixing ratio of a specific gas with the rain event, observing before and after the maximum rain rate. Therefore, a composite was made from 2 h before to 2 h after the maximum rain rate, and the average of the median profile during these 4 h was calculated (Fig. ) and subtracted from each time step. This was done to highlight the variation during the rain event rather than the absolute concentration, which varies between days and seasons. Therefore, the mean values of the composite should be zero.

Changes in gas mixing ratio during rainfall events could be modulated by an ensemble of effects, from the vertical advection of free-troposphere air to changes in surface fluxes, changes in the cloud cover inducing a reduction in solar radiation reaching the canopy, temperature changes, and the wash-out effect by the rain, among other processes . We used a proxy value based on atmospheric 222Rn activity concentration measurements to evaluate the effect and dynamics of the soil fluxes. Of course, this proxy only applies to gases that are co-emitted with 222Rn from the soil, such as CO2, NO, and possibly CH4, after a rain event. The relative humidity threshold (<95 %) employed in the data analysis considerably reduced the sample size; for the day events, the composite had 109 cases and for the night 23 cases. Figure  shows how 222Rn varies before the maximum rainfall event during the day and during the night, measured at 80 m height above the ground. During the day, the 222Rn activity concentration is nearly constant 2 h before the maximum rain rate. There is a slight decrease half an hour before the moment of maximum rainfall, which is likely due to the effect of the onset of precipitation, causing wash-out and radioactive imbalance thereafter. On the other hand, during nighttime, radon concentrations peak 1 h before the maximum rain intensity, followed by a slight drop in activity concentration and also half an hour before the moment of maximum rainfall, possibly due to the same wash-out effect. We should observe a large variability during the night due to the small sample; the large variability of the sampling and the wide confidence interval do not allow us to say that these changes in behavior associated with rainfall are statistically significant. However, we tested the behavior separately for only 2019 and 2020, and the pattern of maximum activity concentration before maximum rainfall is consistent between the 2 years. This analysis suggests that preceding rain events, there is a nearly constant surface flow during the day and an increase in surface flows at night. These features will be discussed in detail in the upcoming subsections. The increase in radon activity concentrations is more pronounced during nighttime, possibly linked to atmospheric stability leading to the accumulation of trace gases with a local source. For further evaluation of the 222Rn behavior with other gases (CO2, CO, CH4) see Fig. S5 showing the behavior side by side, with normalized variation based on standard variation. These figures will be discussed during the analysis of each of these gases in the next session.

Figure a and b show the histogram of the duration of the rainfall events and the maximum observed rain rate of each event. Most of the events have a duration of less than an hour and a rain rate of less than 1 mm h-1; therefore, the composites are mainly composed of short events with low rain rates. There are some cases with high rain rates and event duration of more than 400 min and 25 mm h-1, but about 64 % of the cases have a duration of less than 2 h and rain rates of less than 5 mm h-1. The maximum rain rate could occur at any moment of the rainfall event. However, it currently occurs closer to the rainfall initiation than the end of the event due to stratiform rain that follows the convective, most intense, rain. Figure c illustrates the temporal variations in several key meteorological parameters, including temperature, relative humidity, wind speed, solar radiation, boundary layer height, and lightning events, within a 4 h window surrounding the time of maximum rain rate. Temperature exhibits a decreasing trend from 1 h prior to the peak rainfall, reaching its lowest point approximately 30 min after the maximum rainfall intensity. Conversely, relative humidity experiences a steady increase, with the highest humidity levels occurring about 30 min after the peak rainfall. Wind speed attains its maximum value at the time of the highest rainfall rate, while total cloud cover shows an overcast situation 1.5 h before the maximum rain rate, and solar radiation registers its lowest value concurrently with the maximum rain rate. Boundary layer height initiates a decline around 30 min before the maximum rainfall, indicating a notable influence of precipitation on the atmospheric boundary layer. Furthermore, lightning events (hereafter called GLM events) reach their maximum simultaneously.

Rainfall is correlated with changes in other meteorological variables, as described above, but gas solubility is also directly affected by rain events. Rain can increase the rate of air–water gas exchange. empirically calculated the gas transfer velocity and rainfall rate for different rainfall rates and drop sizes, quantifying the enhancement of air–water gas exchange by rainfall. There is also the wet deposition effect, which may not be an efficient removal mechanism for hydrophobic gases as described by . The direct rainfall effect depends on the solubility of gases, and wet deposition is highly complex, especially for VOCs, due to the water solubility of this heterogeneous mixture covering several orders of magnitude .

To effectively illustrate the variations in the gas profiles before and during precipitation events, the calculations were performed as deviations from the average profile within 4 h windows, spanning 2 h before and 2 h after the peak rain rate. To enhance visual clarity, the figures represent the deviation inside the 4 h window, centered in the moment of maximum rain rate, and employing distinct scales to accentuate pre- and post-rain contrasts. The composite is used to describe the changes in the gas mixing ratio with the rain event. We calculated the diurnal cycles of the gas mixing ratio with and without rain to demonstrate the significance of the differences between the gas concentration during the rainy and non-rainy events. Figure S6 shows the median of all gas species mixing ratios for the rainy and non-rainy events. The figures show the quantitative difference between the two situations and provide an indication of how a particular gas concentration varies during rain events. A discussion of each gas and its evolution during the rain events is presented in detail in the following figures.

Figure  depicts the diurnal and nocturnal evolution of the deviation from the median profile, presented in the preceding section, for CO2, CO, and CH4 mixing ratio profiles within a 2 h window before and after the peak of rainfall events.

The majority of gas mixing ratios exhibit a decline concurrent with precipitation. The CO2 profile varies between the surface and above the canopy at 79 m before and after the rain event from around 1.8 ppm during the day to 3.3 ppm at night (total range of variation). While the CO2 mixing ratio shows limited sensitivity to rain, particularly during the day, the influence is more pronounced at night, manifesting a significant reduction in mixing ratios below the canopy. This data underscore the variable response of CO2 mixing ratios to rainfall, emphasizing its more prominent role in nocturnal conditions, possibly due to the enhanced mixing conditions associated with rainfall having a relatively larger impact on the nighttime CO2 mixing ratio buildup than during the daytime. CO2 mixing ratios, possibly affected by local sinks and sources (vegetation and soil), behave differently during day and night. During the night, the largest variation is below the canopy but in phase with the heights above. During the day, there is a decrease in concentration inside the canopy with the rainfall, but above the canopy, the variation is very small with a slight increase with rainfall. Probably because of the reduction of photosynthesis due to the increase in cloud cover, it could result in a slight increase in CO2 mixing ratio above the canopy. Higher mixing ratios near the ground and lower ones at the canopy height suggest sources close to the forest floor, such as soil and understory ecosystem respiration, and a stronger photosynthetic sink at the higher heights. The decrease in the CO2 mixing ratio within the canopy during the rain event is correlated with the simultaneous increase in humidity and decrease in temperature as a consequence of the reduction in radiation due to the increase in cloud cover . As discussed above, these environmental conditions suppress both soil and tree CO2 exchange and surface flux and reduce photosynthesis. Another possible reason could be associated with increased mixing within the canopy, destroying the stable layer within the canopy by mixing free-tropospheric air into the canopy . These two effects may contribute to the reduction in CO2 mixing ratio after the rain event; however, the importance of each of these effects could not be quantified with the current data.

During the night before the rain event, there is a clear increase in the mixing ratio at 79 m according to the radon surface flux proxy (see Fig. S5). The nocturnal production of CO2 combined with the turbulent fluxes associated with the gust fronts of the rain events may increase the mixing ratio above the canopy. The rain event leads to turbulent air mixing from above down to the ground, resulting in a strong decrease in CO2 mixing ratio.

The evaluation of CO mixing ratios around rain events (Fig. c, d) shows a similar behavior during the day and night, though with some important differences. Before the rain event, CO profiles exhibit high differences near the ground and show lower mixing ratio differences near the canopy, mainly during the day. Thus, there is likely a source of CO near the forest floor . In global CO inventories, the biosphere is regarded to act as both a source and a sink, but large uncertainties remain about the strength of individual sources. CO emissions are usually associated with abiotic degradation of organic matter in the form of photodegradation as well as thermal degradation . Living plants have also been reported to show CO emissions, but these are expected to be minimal compared to senescent plant material . Besides soil CO emissions, soil CO consumption cannot be excluded: soil microorganisms are known to oxidize CO to CO2, a process, among others, dependent on available oxygen (soil diffusivity) and temperature . As underlined by , the balance between soil CO uptake and soil CO emission is not well understood, especially in the tropics. These effects are more important during the wet season because the anthropogenic effect (e.g., fire emissions) is very significant during the dry season. As for the CO2 profile, during the night, the rainfall effect is more vertically homogeneous.

During the night, CO shows a slight vertical gradient with higher CO mixing ratio differences close to the forest floor. The precipitation event causes a more important difference near the ground and may be associated with the processes of uptake and emission of CO with the same transport phenomena discussed for CO2. Above the canopy, at night, at 79 m, an increase in the mixing rate of CO after rain is not observed (see Fig. S5), related to the increase in surface turbulent fluxes, as observed for CO2, but this is less clear for a probably smaller nocturnal source of CO, comparable to that of CO2 (Fig. S5).

CH4 (Fig. e, f), in contrast to the other gases, displays notably less stratification, with variations spanning from the surface to 79 m, amounting to less than 4–6 ppb throughout both day and night periods (see Fig. c). Although a slight stratification can be observed in Fig. e and f, a discernible pattern emerges with the highest mixing ratio differences occurring at the surface during the day, while at night, they are more prevalent at higher levels above the canopy. This daytime behavior can be attributed to weak sources of CH4 production, primarily stemming from microbial anaerobic decomposition processes, depending on temperature and soil humidity, occurring mainly near the ground. As temperatures decrease during nighttime, CH4 production wanes, possibly leading to the observed shift in mixing ratio peaks toward upper levels. Assuming the inlet at 79 m height is within the nocturnal boundary layer, the nocturnal maxima can be explained by the processes described in , but if the inlet height is above the nocturnal boundary layer and inside the residual layer, the CH4 peak could be associated with the mixing ratio of the previous afternoon. Like CO2 and CO, CH4 exhibits a time trend with rainfall with a minimum mixing ratio difference of 2 h subsequent to the peak rainfall intensity. The information presented in Fig. S5 shows a practically unchanged mixing ratio of CH4 during the night before the rain events, which indicates that although there are turbulent fluxes at the surface, the mixing ratio is not affected above the canopy, possibly due to the absence of sources at that time.

Generally, the greenhouse gas mixing ratios (CO2, CO, and CH4) revealed a similar pattern during day and night, and, overall, there is a noticeable declining trend in their mixing ratios after reaching the peak of the rain intensity. This pattern implies that atmospheric transport plays a pivotal role in regulating the levels of trace gases, as evidenced by the concurrent rise in wind speed and boundary layer height, as depicted in Fig. , leading up to the maximum rain rate.

During the nighttime, the influence of atmospheric transport on CO2, CO, and CH4 mixing ratio differences before reaching the maximum rain rate is less stratified compared to daytime. The mixing ratios of these gases exhibit a more homogeneous vertical variability until the point of maximum rain intensity. Still, a more intense effect on the mixing ratio difference for CH4 is observed near 79 m.

The effect of air transport from the free troposphere to the canopy should be the same for all the gases, as it is related to the amount of air exchanged. However, the source–sink patterns of the three gases differ in time and location within the canopy, which is reflected in the pattern observed for the CO2, CO, and CH4 mixing ratio profiles. The data used in this study do not allow transport effects to be completely separated from the effects of sources and sinks. The composite highlights distinct patterns associated with the rain events for the gases presented here. For CO2, the strong vertical gradient for night and day with high mole fractions within the canopy suggests local production of the gas and a poor CO2 gas mixing ratio transported from the free atmosphere. In contrast, CO profiles could be affected by vertical transport, whereas the minimal vertical gradient of CH4 could indicate an almost balanced local production–sink relationship.

Figure  shows the evolution of O3, NO, and NO2 mixing ratio profiles during the day (a, c, e) and during the night (b, d, f) 2 h before and after the maximum rainfall. Figure a and b show the O3 mixing ratio increasing during precipitation events, as observed by , , and . A considerable increase is driven by a downdraft reaching the ground. This injection of ozone-rich air from the upper levels reaches a maximum about 1 h after rainfall. The O3 increase within the canopy can be attributed to the injection of high levels of O3 mixing ratio from the upper troposphere. The O3 mixing ratio is related to atmospheric chemistry, cloud dynamic transport, and cloud electrification , as indicated by a maximum lightning activity at this time. Of special interest is the less striking variation of the O3 mixing ratio just around and above the canopy during the day, before and after rainfall. This result suggests deposition, decomposition, or uptake by vegetation. This kind of sink masks the variation as affected by the rain event. As this level represents the main source for isoprene and monoterpenes, mainly during the day, a reaction with these VOC species may play a crucial role. The NO/NO2 dynamics within the precipitation event seem to reflect this complex series of reactions near the surface and above the canopy, starting with soil NO emission and accumulation affected by O3, transport processes, and chemical reactions, resulting in the production of NO2. This general view is supported by several reports based on chamber and field experiments indicating that the oxidative regime is governed by O3 and affects several trace gases. These studies contribute to understanding the within-forest oxidative capacity reflected by VOC oxidation products, such as formaldehyde, as observed under daytime conditions near the forest surface . During the day, the rainfall event leads to an opposite behavior between NO2 and NO; the former is increased during rainfall, and NO decreases after the rainfall. NO variation with rainfall mostly occurs within the canopy. During the night, the effect is also observed above the canopy, possibly due to the small height of the nocturnal boundary layer. For NO2, the variation with rain is highest just above the canopy. However, at night, a different pattern emerges, showing the importance of solar radiation in the daily photochemical reaction. At night, the highest variations of NO2 mixing ratio primarily occur around the canopy top. This can be understood as caused by vegetation's missing NO2 uptake. Under daylight, with open stomata, the plant leaves are effectively taking up NO2 from the air, whereas stomata are closed in the dark, and the sink strength decreases to negligible . The rainfall events at night show NO2 being washed out from the air above the canopy, with the strongest loss at the canopy top. Interestingly, a small positive variation remains near the ground after the rainfall. However, this potential source remains unclear as the rain does not activate any soil NO source to produce NO2 but could be the product of the NO and O3 reaction producing NO2. Nevertheless, the behavior of NO anomalies within the forest shows an expected picture of accumulation before and decreasing mixing ratio after rain. Although the absolute difference with rain events is small, it corresponds to about 10 % variation. The NO variation with rain is restricted to the inside canopy during the day and the night.

Figure  shows the evolution of isoprene and monoterpene mixing ratio profiles during the day (a, c) and during the night (b, d) 2 h before and after the maximum rainfall. The depletion of biogenic VOCs under these conditions could generally be related to oxidative atmospheric chemistry leading to secondary organic aerosol. The most important biogenic non-methane VOCs, isoprene and monoterpenes, have their maximum mixing ratio difference increase about 2 h before the rain peak during the day, related to canopy release and upward transport, driven by the meteorological conditions before rainfall, mostly with high air temperatures and intensive solar radiation favoring the biogenic synthesis of isoprene and monoterpenes. Typically, when rain starts in a forest, the temperature and solar irradiance drop rapidly, directly affecting biogenic trace gas production. Subsequently, during this time (daytime), the mixing ratios continue to be lower than before the rain event. This basic behavior is observed at all levels and is comparable to the observations of isoprene after rain events reported in . The clear loss of isoprene and monoterpene emission causes a sharp mixing ratio decrease above the canopy. This drop indicates a set of decomposition pathways, deposition processes, and consumption inside the canopy. Under night conditions, a constant decrease in isoprene is observed before the rain event, followed by a slight increase in isoprene near the ground under rainfall, and it even affects higher heights in the course of time after rainfall. This observation of a slight increase in the isoprene mixing ratio at night looks puzzling, but only at first view. We have to regard the biosynthesis of this compound. Plants produce isoprene within chloroplasts (see , for an overview). But the chloroplastic pathway is of bacterial origin imported by endosymbiosis, a relic of bacterial pathways through the evolution of plastids, obviously. More recently, bacterial isoprene synthesis was confirmed and described as a general issue of the bacterial genome . Thus, we understand the isoprene increase and accumulation near the ground under night conditions due to a light-independent microbial production of this compound, which becomes visible under the applied composite description around rainfall. Furthermore, this pathway might also contribute to further isoprenoid accumulation, i.e., that of monoterpenes. Monoterpenes have a lower mixing ratio during the night, but in contrast to isoprene, the pattern caused by the rain event shows a clear accumulation before the rainfall peaks. This maximum is located at a lower altitude above the forest canopy than during the day. Obviously, there is a source within the lower layers of the forest. We may only speculate about such potential sources, for example plant tissues with stored monoterpenes physically affected by raindrops, such as glands or hairs, or mechanical turbulence caused by the gust front associated with the convective process.