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All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Weak phylogenetic and habitat effects on root trait variation of 218 Neotropical tree species

Tropical forests harbor a large diversity of closely related tree species that can thrive across habitats. This biodiversity has been found to correspond to large functional diversity in aboveground traits, and likely also relates to belowground trait variation. Globally, root trait (co-)variation is driven by different belowground resource strategies of species, environmental variation, and phylogeny; however, these patterns mostly reflect observations from temperate biomes and remain unconfirmed in tropical trees. We examine phylogenetic and environmental effects on root trait (co-)variation of trees across habitats in an Amazonian rainforest. Roots of 218 tree species from ten dominant families were sampled across three major habitats near Manaus, Brazil. We quantified five morphological and architectural root traits to (i) investigate how they reflected different resource strategies across species, (ii) compare them between families and superorders to test phylogenetic effects, and (iii) compare them between habitats to determine environmental effects on root trait expressions and variability. Root traits discriminated species along a tradeoff between root diameter and root branching and, secondly, due to variation in root tissue density. Our results further show weak phylogenetic effects on tropical tree root variation, for example, families from the same superorder showed large divergence in their root traits, while those from different superorders often overlapped in their root morphology and architecture. Root traits differed significantly between habitats but habitat type had only little effect on overall root trait variation. Our work suggests that the dimensions and drivers that underlie (co-)variation in tropical root traits may differ from global patterns defined by mostly temperate datasets. Due to (a)biotic environmental differences, different root trait dimensions may underlie the belowground functional diversity in (Neo)tropical forests, and we found little evidence for the strong phylogenetic conservatism observed in root traits in temperate biomes. We highlight important avenues for future research on tropical roots in order to determine the degree of, and shifts in functional diversity belowground as communities and environments change in tropical forests.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Stem respiration and growth in a central Amazon rainforest

Tropical forests cycle a large amount of CO 2 between the land and atmosphere, with a substantial portion of the return flux due tree respiratory processes. However, in situ estimates of woody tissue respiratory fluxes and carbon use efficiencies (CUEW) and their dependencies on physiological processes including stem wood production (Pw) and transpiration in tropical forests remain scarce. In this work, we synthesize monthly Pw and daytime stem CO 2 efflux (ES) measurements over one year from 80 trees with variable biomass accumulation rates in the central Amazon. On average, carbon flux to woody tissues, expressed in the same stem area normalized units as ES, averaged 0.90 ± 1.2 µmol m -2 s -1 for Pw, and 0.55 ± 0.33 µmol m -2 s -1 for daytime ES. A positive linear correlation was found between stem growth rates and stem CO 2 efflux, with respiratory carbon loss equivalent to 15 ± 3% of stem carbon accrual. CUEW of stems was non-linearly correlated with growth and was as high as 77-87% for a fast-growing tree. Diurnal measurements of stem CO 2 efflux for three individuals showed a daytime reduction of ES by 15-50% during periods of high sap flow and transpiration. The results demonstrate that high daytime ES fluxes are associated with high CUE W during fast tree growth, reaching higher values than previously observed in the Amazon Basin (e.g. maximum CUEW up to 77-87%, versus 30-56%). The observations are consistent with the emerging view that diurnal dynamics of stem water status influences growth processes and associated respiratory metabolism.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Case Studies of Forest Windthrows and Mesoscale Convective Systems in Amazonia

Abstract This study identifies 38 cases of windthrows in the Amazonia to explore the relationship between windthrows and the characteristics (storm passing time, cloud top temperature, and maximum precipitation) of mesoscale convective systems (MCSs) that produced them. Most of windthrow cases in this study occurred in August and September. The storm passing time is positively correlated with the size of windthrows. MCSs with colder cloud top temperature (with a mean at 206 K)—indicating deeper convection—resulted in large windthrows, while those with warm cloud top (with a mean above 230 K) resulted in relatively small windthrows except for windthrows in the western Amazonia. No significant relationship is found between maximum precipitation intensity and the area of windthrows.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Hot Droughts and Forest Tree Dynamics in the Amazon - Statistical Models, Scripts, Data, and Outputs

This package contains data, outputs, equations, and R scripts for analyses for manuscript entitled "Hot droughts in the Amazon: A window to a future hypertropical climate" by J. Chambers et al., in particular it contains statistical models and analyses for the INPA BIONTE tree mortality study. The Models folder contains details for all statistical models in PDF files. The Scripts folder contains the R scripts for Bayesian Hierarchical Models (two text files) and SEMs (one text file) are separate and reasonably annotated. All data associated with these scripts are in the data folder. The Data folder contains two of the three CSV files used for the analyses and are called by the R scripts. Two of them are part of published datasets (`BIONTE_mortality-rates.csv` from Lima et al. 2024, DOI:10.15486/ngt/1898910 and `SPEI.csv` from Pastorello et al. 2023 DOI:10.15486/ngt/1958257) and also provided in this package for convenience (please see the corresponding datasets for usage and citation terms). The third dataset (`BIONTE_gapfilled_wd.csv`) contains sensitive information and can be obtained by contacting the manuscript lead author. The Outputs folder contains the two output files that provide extra information about the analyses. The file `figuresFeb2025d.pdf` contains all the figures from the manuscript - captions are in the manuscript. The file `ChambersMS.pdf` contains primary results from Bayesian statistical models, regression analyses, and validation steps applied to the tree mortality data from the INPA experiments. The document includes visual summaries, model diagnostics, and leave-one-out (LOO) validation results. A breakdown of file contents can be found in the README file that is part of this package.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Effects of Water Table Fluctuation on Greenhouse Gas Emissions from Wetland Soils in the Peruvian Amazon

Amazonian swamp forests remove large amounts of carbon dioxide (CO 2 ) but produce methane (CH 4 ). Both are important greenhouse gases (GHG). Drought and cultivation cut the CH 4 emissions but may release CO 2 . Varying oxygen content in nitrogen-rich soil produces nitrous oxide (N 2 O), which is the third most important GHG. Despite the potentially tremendous changes, GHG emissions from wetland soils under different land uses and environmental conditions have rarely been compared in the Amazon. We measured environmental characteristics, and CO 2 , CH 4 and N 2 O emissions from the soil surface with manual opaque chambers in three sites near Iquitos, Peru from September 2019 to March 2020: a pristine peat swamp forest, a young forest and a slash-and-burn manioc field. The manioc field showed moderate soil respiration and N 2 O emission. The peat swamp forests under slight water table drawdown emitted large amounts of CO 2 and CH 4 . A heavy post-drought shower created a hot moment of N 2 O in the pristine swamp forest, likely produced by nitrifiers. All in all, even small changes in soil moisture can create hot moments of GHG emissions from Amazonian wetland soils, and should therefore be carefully monitored.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Multivariate environmental and trait-based controls of transpiration in the Central Amazon Rainforest

Tropical forest tree mortality is increasing due to more severe droughts, yet our understanding of how tree traits and life strategies are linked to drought stress has been limited by measurement scarcity. The BIONTE (BIOmass and NuTrient Experiment) near Manaus, Brazil hosts one of the world’s largest sap flow installations, with sensors in 90 canopy trees across a wood density gradient monitored since June 2022. The 2023 El Niño drought provided a unique opportunity to evaluate how water availability impacts tree transpiration. An interpretable machine learning framework was used to study the complex interactions between transpiration and multiple environmental variables such as soil water availability and vapor pressure deficit (VPD), and how these interactions vary with wood density and individual trees. We found varying responses of transpiration from different trees during the El Niño drought. Transpiration generally increased with temperature, with stronger effects in wetter areas and in trees with low to medium wood density. However, this response was modulated by stomatal sensitivity to VPD, which constrained transpiration under high atmospheric demand, particularly in intermediate-moisture area. The inflection in transpiration rate at high temperatures (>32°C) underscores the role of stomatal and hydraulic regulation in limiting water loss and protecting trees from excessive evaporative demand. Analysis of soil water contribution to transpiration revealed unimodal patterns in wetter area, with peak contributions near 0.45 cm 3 cm -3 of surface soil water and declining or flat responses beyond that threshold, suggesting a shift from water- to energy-limited transpiration. In contrast, drier areas exhibited limited transpiration sensitivity to soil water conditions and minimal trait-based variation in VPD responses, indicating supply-limited conditions. Despite higher wood density trees being generally more resilient, this study shows diverse tree drought resilience, prompting further investigation into the specific traits and dynamics between environmental variables in regulating transpiration and other physiological processes in trees.

Drought↗
DOE OSTI2026

Water availability modulates maximum canopy heights of low-elevation Amazonian second-growth forests

Tropical second-growth forests of the Amazon sequester large amounts of carbon and are important carbon sinks, contributing substantially to climate change mitigation, biodiversity conservation, and providing crucial ecosystem services. Deforestation due to selective logging and shifting cultivation is expanding second-growth forest areas in tropical forest regions, which if well managed, regenerate rapidly over time. Maximum forest canopy height is an important metric of biomass and carbon accumulation in second-growth forests and is strongly influenced by water availability. The water limitation hypothesis explains the positive influence of water availability on maximum tree heights and has been examined and demonstrated at a small-scale using field data, and at a global scale, with limited accuracy, using remote sensing data in tropical ecosystems. However, this hypothesis concerning maximum canopy height has not been much studied at regional and national scales for tropical second-growth forests. In this study, we leveraged NASA GEDI spaceborne lidar data across the Brazilian Amazon and derived second-growth forest relative height metrics for delineating the influence of water availability, second-growth forest age, and topographic elevation on maximum canopy height. Water availability was found to significantly influence the maximum canopy height of second-growth forest trees, of age range from 30 to 35 years, at elevations less than 500 m and maximum precipitation thresholds of 1500 mm. Our results indicate that changing precipitation patterns or increased drought conditions under different climate change regimes could impact forest structure, plant communities, ecosystem functioning, and carbon sequestration capabilities of tropical second-growth forests in the Amazon.

Carbon sequestration↗
DOE OSTI2023

Turbulence regimes in the nocturnal roughness sublayer: Interaction with deep convection and tree mortality in the Amazon

We investigated the influence of seasonality and proximity to the forest canopy on nocturnal turbulence regimes in the roughness sublayer of a Central Amazon forest. Since convective systems of different scales are common in this region, we also analyzed the effect of extreme wind gusts (propagated from convective downdrafts) on the organization of the turbulence regimes, and their potential to cause the mortality of canopy trees. Our data include high-frequency winds, temperature and ozone concentration at different heights during the dry and wet seasons of 2014. In addition, we used critical wind-speed data derived from a tree-winching experiment and a modeling study conducted in the same study site. Two different turbulence regimes were identified at three heights above the canopy: a weakly stable (WS) and a very stable regime (VS). The threshold wind speeds that mark the transition between turbulence regimes were larger during the dry season and increased as a function of the height above the canopy. The turbulent fluxes of sensible heat and momentum during the WS accounted for 88% of the entire nighttime flux. Downdrafts occurred only in the WS and favored a fully coupled state of wind flow along the canopy profile. The destructive potential of winds was four times higher than on nights without downdrafts.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Structural complexity biases vegetation greenness measures

Vegetation ‘greenness’ characterized by spectral vegetation indices (VIs) is an integrative measure of vegetation leaf abundance, biochemical properties and pigment composition. Surprisingly, satellite observations reveal that several major VIs over the US Corn Belt are higher than those over the Amazon rainforest, despite the forests having a greater leaf area. This contradicting pattern underscores the pressing need to understand the underlying drivers and their impacts to prevent misinterpretations. Here we show that macroscale shadows cast by complex forest structures result in lower greenness measures compared with those cast by structurally simple and homogeneous crops. The shadow-induced contradictory pattern of VIs is inevitable because most Earth-observing satellites do not view the Earth in the solar direction and thus view shadows due to the sun–sensor geometry. The shadow impacts have important implications for the interpretation of VIs and solar-induced chlorophyll fluorescence as measures of global vegetation changes. For instance, a land-conversion process from forests to crops over the Amazon shows notable increases in VIs despite a decrease in leaf area. In conclusion, our findings highlight the importance of considering shadow impacts to accurately interpret remotely sensed VIs and solar-induced chlorophyll fluorescence for assessing global vegetation and its changes.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2025

Hot droughts in the Amazon provide a window to a future hypertropical climate

Tropical forests represent the warmest and wettest of Earth’s biomes, but with continued anthropogenic warming, they will be pushed to climate states with no current analogue. Droughts in the tropics are already becoming more intense as they occur at successively higher temperatures. Here, in this study, we synthesize multiple datasets to assess the effects of hot droughts on a central Amazon forest. First, a more than 30-year record of annually resolved forest demographic data from a selective logging experiment showed higher tree mortality during intense droughts, particularly among fast-growing pioneer species with low wood density. Second, analysis of ecophysiological field measurements from the 2015 and 2023 El Niño droughts identified a soil moisture threshold beyond which transpiration rates rapidly declined. As rainless days beyond this threshold continued, drought conditions intensified, increasing the potential for tree mortality from hydraulic failure and carbon starvation. Third, analyses from the Coupled Model Intercomparison Project Phase 6 demonstrated that under high-emission scenarios, a large area of tropical forest will shift to a hotter ‘hypertropical’ climate by 2100. Last, under a hypertropical climate, temperature and moisture conditions during typical dry season months will more frequently exceed identified drought mortality thresholds, elevating the risk of forest dieback. Present-day hot droughts are harbingers of this emerging climate, offering a window for studying tropical forests under expected extreme future conditions.

drought↗
DOE OSTI2022

Deforestation triggering irreversible transition in Amazon hydrological cycle

The Amazon is hypothesized to reach an irreversible ‘tipping point’ when deforestation slows the hydrological cycle sufficiently that tropical forest ecosystems cannot be sustained. However, inception of such a tipping point has not been supported by observations and the relevant links between deforestation and atmospheric moisture recycling are poorly understood. Here we show that reduction in evapotranspiration from 20 years of deforestation dried the atmosphere persistently and caused moisture decoupling, i.e. an opposite sign of moisture change between the lower and middle troposphere. Increased deforestation exacerbated the lower troposphere drying and caused it to penetrate deeper into the middle troposphere in the dry and transition seasons over monsoon forests and savannas. Deforestation induced warming-enhanced buoyant updrafts, elevated hot and dry air and thereby reduced downward mixing of water supplies from the tropical Atlantic that normally moisten the Amazon forests. The severe atmospheric desiccation in the southern and eastern Amazon cannot be compensated by enhanced water supplies from the Atlantic Ocean, demonstrating an irreversible transition in Amazon hydrological cycle exacerbated by rapid deforestation. The more recent drying through the seasons over rainforests and during the wet season over the transition zones from rainforests to monsoon forests and savannas, however, suggests a window of opportunity for preventing ecosystem collapse with forest conservation.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

The Latent Dirichlet Allocation model applied to airborne LiDAR data: A case study on mapping forest degradation associated with fragmentation and fire in the Amazon region

1. LiDAR data are being increasingly used to provide a detailed characterization of the vertical profile of forests. This characterization enables the generation of new insights on the influence of environmental drivers and anthropogenic disturbances on forest structure as well as on how forest structure influences important ecosystem functions and services. Unfortunately, extracting information from LiDAR data in a way that enables the spatial visualization of forest structure, as well as its temporal changes, is challenging due to the high dimensionality of these data. 2. In this study, we show how the Latent Dirichlet Allocation model applied to LiDAR data (LidarLDA) can be used to identify forest structural types and how the relative abundance of these forest types changes throughout the landscape. The code to fit this model is made available through the open-source r package LidarLDA in github. We illustrate the use of LidarLDA both with simulated data and data from a large-scale fire experiment in the Brazilian Amazon region. 3. Using simulated data, we demonstrate that LidarLDA accurately identifies the number of forest types as well as their spatial distribution and absorptance probabilities. For the empirical data, we found that LidarLDA detects both landscape-level patterns in forest structure as well as the strong interacting effect of fire and forest fragmentation on forest structure based on the experimental fire plots. More specifically, LidarLDA reveals that proximity to forest edge exacerbates the impact of fires, and that burned forests remain structurally different from unburned areas for at least 7 years, even when burned only once. Importantly, LidarLDA generates insights on the 3D structure of forest that cannot be obtained using more standard approaches that just focus on top-of-the-canopy information (e.g. canopy height models based on LiDAR data). 4. By enabling the mapping of forest structure and its temporal changes, we believe that LidarLDA will be of broad utility to the ecological research community.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Amazon drought resilience – emerging results point to new empirical needs

Will climate change turn tropical forests from a carbon sink to a source (Pan et al., 2011)? Tropical forests cycle more carbon, water, and energy than any other biome (Bonan, 2008). The Amazon is the largest tropical forest, spanning one-third of South America, and any perturbation in its function has repercussions on the global climate. Mild and severe droughts in the Amazon are predicted to double and triple in area, respectively, by 2100, while the area under wet extremes will increase (Duffy et al., 2015). Our understanding of the role of plants' hydrological environments in determining their drought response, however, is limited (Chitra-Tarak et al., 2018, 2021). An important review by Costa et al. (2023; pp. 714–733) published in this issue of New Phytologist highlights that shallow-water table (WT) forests constitute c. 50% of the Amazon and may act as hydrological refugia during droughts, yet they have been neglected in Amazon forest research to date. Emerging results suggest that the shallow-WT forests that dominate the Amazon basin may increase in productivity under moderate droughts due to relief from hypoxia, suggesting a potential buffer from drought relative to deeper WT forests (Fig. 1). During severe droughts, however, shallow-WT forests may be vulnerable to collapse due to drought-intolerant traits. Addressing the underrepresentation of relatively drought-resilient shallow-WT forests in the Amazon's forest inventories may help resolve the much-debated incongruence in recent studies of the Amazon's drought resilience. Data from forest inventories (biased toward deep-WT forests) indicate that the Amazon's carbon sink is declining, partially because of drought impacts (Phillips et al., 2009; Brienen et al., 2015), whereas basin-wide satellite-based measures of gross primary productivity, which include shallow-WT forests, indicate varied regional responses to droughts (Saleska et al., 2007; Brando et al., 2010). Costa et al.'s (2023) descriptive insights of the intricate balance of geology, topography, hydrology, vegetation, and drought on ecosystem function, as well as their conceptual predictive framework, are useful for developing new empirical research in these understudied ecosystems and improving Earth system models.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Increased Occurrence of Large–Scale Windthrows Across the Amazon Basin

Convective storms with strong downdrafts create windthrows: snapped and uprooted trees that locally alter the structure, composition, and carbon balance of forests. Comparing Landsat imagery from subsequent years, we documented temporal and spatial variation in the occurrence of large (≥30 ha) windthrows across the Amazon basin from 1985 to 2020. Over 33 individual years, we detected 3179 large windthrows. Windthrow density was greatest in the central and western Amazon regions, with ~33% of all events occurring in ~3% of the monitored area. Return intervals for large windthrows in the same location of these “hotspot” regions are centuries to millennia, while over the rest of the Amazon they are >10,000 years. Our data demonstrate a nearly 4–fold increase in windthrow number and affected area between 1985 (78 windthrows and 6,900 ha) and 2020 (264 events and 32,170 ha), with more events of >500 ha size since 1990. Such extremely large events (>500 ha up to 2,543 ha) are responsible for interannual variation in the overall median (84 ± 5.2 ha; ±95% CI) and mean (147 ± 13 ha) windthrow area, but we did not find significant temporal trends in the size distribution of windthrows with time. Our results document increased damage from convective storms over the past 40 years in the Amazon, filling a gap in temporal records for tropical regions. Our publicly accessible large windthrow database provides a valuable tool for exploring dynamic conditions leading to damaging storms and their ecological impact on Amazon forests.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Windthrow characteristics and their regional association with rainfall, soil, and surface elevation in the Amazon

Abstract Windthrows (trees uprooted and broken by winds) are common across the Amazon. They range in size from single trees to large gaps that lead to changes in forest dynamics, composition, structure, and carbon balance. Yet, the current understanding of the spatial variability of windthrows is limited. By integrating remote sensing data and geospatial analysis, we present the first study to examine the occurrence, area, and direction of windthrows and the control that environmental variables exert on them across the whole Amazon. Windthrows are more frequent and larger in the northwestern Amazon (Peru and Colombia), with the central Amazon (Brazil) being another hot spot of windthrows. The predominant direction of windthrows is westward. Rainfall, surface elevation, and soil characteristics explain the variability (20%–50%) of windthrows but their effects vary regionally. A better understanding of the spatial dynamics of windthrows will improve understanding of the functioning of Amazon forests.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

An ecological niche model to predict the geographic distribution of Haemagogus janthinomys, Dyar, 1921 a yellow fever and Mayaro virus vector, in South America

Yellow fever virus (YFV) has a long history of impacting human health in South America. Mayaro virus (MAYV) is an emerging arbovirus of public health concern in the Neotropics and its full impact is yet unknown. Both YFV and MAYV are primarily maintained via a sylvatic transmission cycle but can be opportunistically transmitted to humans by the bites of infected forest dwelling Haemagogus janthinomys Dyar, 1921. To better understand the potential risk of YFV and MAYV transmission to humans, a more detailed understanding of this vector species’ distribution is critical. This study compiled a comprehensive database of 177 unique Hg . janthinomys collection sites retrieved from the published literature, digitized museum specimens and publicly accessible mosquito surveillance data. Covariate analysis was performed to optimize a selection of environmental (topographic and bioclimatic) variables associated with predicting habitat suitability, and species distributions modelled across South America using a maximum entropy (MaxEnt) approach. Our results indicate that suitable habitat for Hg . janthinomys can be found across forested regions of South America including the Atlantic forests and interior Amazon.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2022

Soil moisture thresholds explain a shift from light-limited to water-limited sap velocity in the Central Amazon during the 2015–16 El Niño drought

Transpiration is often considered to be light- but not water-limited in humid tropical rainforests due to abundant soil water, even during the dry seasons. The record-breaking 2015–16 El Niño drought provided a unique opportunity to examine whether transpiration is constrained by water under severe lack of rainfall. We measured sap velocity, soil water content, and meteorological variables in an old-growth upland forest in the Central Amazon throughout the 2015–16 drought. We found a rapid decline in sap velocity (-38 ± 21%, mean ± SD.) and in its temporal variability (-88%) during the drought compared to the wet season. Such changes were accompanied by a marked decline in soil moisture and an increase in temperature and vapor pressure deficit. Sap velocity was largely limited by net radiation during the wet and normal dry seasons; however, it shifted to be primarily limited by soil moisture during the drought. The threshold in which sap velocity became dominated by soil moisture was at 0.33 m 3 m -3 (around -150 kPa in soil matric potential), below which sap velocity dropped steeply. Our study provides evidence for a soil water threshold on transpiration in a moist tropical forest, suggesting a shift from light limitation to water limitation under future climate characterized by increased temperature and an increased frequency, intensity, duration and extent of extreme drought events.

54 ENVIRONMENTAL SCIENCES↗