Sean M McMahon

• PhD
• Senior Researcher at Smithsonian Institution

Studies of community assembly often explore the role of niche selection in limiting the diversity of functional traits (underdispersion) or increasing the diversity of functional traits (overdispersion) within local communities. While these patterns have primarily been explored with morphological functional traits related to environmental tolerance...

Populations of forest trees exhibit large temporal fluctuations, but little is known about the synchrony of these fluctuations across space, including their sign, magnitude, causes and characteristic scales. These have important implications for metapopulation persistence and theoretical community ecology. Using data from permanent forest plots spa...

Macroclimate drives vegetation distributions, but fine‐scale topographic variation can generate microclimate refugia for plant persistence in unsuitable areas. However, we lack quantitative descriptions of topography‐driven microclimatic variation and how it shapes forest structure, diversity, and composition. We hypothesized that topographic varia...

Understanding the distribution of hundreds of thousands of plant metabolites across the plant kingdom presents a challenge. To address this, we curated publicly available LC-MS/MS data from 19,075 plant extracts and developed the plantMASST reference database encompassing 246 botanical families, 1,469 genera, and 2,793 species. This taxonomically f...

The future trajectory of global forests is closely intertwined with tree demography, and a major fundamental goal in ecology is to understand the key mechanisms governing spatio‐temporal patterns in tree population dynamics. While previous research has made substantial progress in identifying the mechanisms individually, their relative importance a...

Transcriptomics provides a versatile tool for ecological monitoring. Here, through genome-guided profiling of transcripts mapping to 33 042 gene models, expression differences can be discerned among multi-year and seasonal leaf samples collected from American beech trees at two latitudinally separated sites. Despite a bottleneck due to post-Columbi...

Numerous studies have shown reduced performance in plants that are surrounded by neighbours of the same species1,2, a phenomenon known as conspecific negative density dependence (CNDD)³. A long-held ecological hypothesis posits that CNDD is more pronounced in tropical than in temperate forests4,5, which increases community stabilization, species co...

Climate extremes and biotic interactions at the neighbourhood scale affect tropical forest dynamics with long‐term consequences for biodiversity, global carbon cycling and climate change mitigation. However, forest disturbance may change crowding intensity, and thus the relative contribution of climate extremes and neighbourhood interactions on tre...

One mechanism proposed to explain high species diversity in tropical systems is strong negative conspecific density dependence (CDD), which reduces recruitment of juveniles in proximity to conspecific adult plants. Although evidence shows that plant-specific soil pathogens can drive negative CDD, trees also form key mutualisms with mycorrhizal fung...

Emerging satellite radar and lidar platforms are being developed to produce gridded aboveground biomass (AGB) predictions that are poised to expand our understanding of global carbon stocks and changes. However, the spatial resolution of AGB map products from these platforms is often larger than the available field plot data underpinning model cali...

Accurate estimates of forest biomass stocks and fluxes are needed to quantify global carbon budgets and assess the response of forests to climate change. However, most forest inventories consider tree mortality as the only aboveground biomass (AGB) loss without accounting for losses via damage to living trees: branchfall, trunk breakage, wood decay...

Conserving the tree species of the world requires syntheses on which tree species are most vulnerable to pressing threats, such as climate change, invasive pests and pathogens, or selective logging. Here, we review the population and forest dynamics models that, when parameterized with data from population studies, forest inventories, or tree rings...

Amazon forests are being degraded by myriad anthropogenic disturbances, altering ecosystem and climate function. We analyzed the effects of a range of land‐use and climate‐change disturbances on fine‐scale canopy structure using a large database of profiling canopy lidar collected from disturbed and mature Amazon forest plots. At most of the distur...

Aim: Global forests and their structural and functional features are shaped by many mechanisms that impact tree vital rates. Although many studies have tried to quantify how specific mechanisms influence vital rates, their relative importance among forests remains unclear. We aimed to assess the patterns of variation in vital rates among species an...

Transcriptomics, the quantification of gene expression, provides a versatile tool for ecological monitoring. Here, we show that through genome-guided profiling of transcripts mapping to 33,042 loci, gene expression differences can be discerned among multi-year and seasonal leaf samples collected from American beech trees at two latitudinally separa...

Globally, forests provide important ecosystem services, but anthropogenic change may shift the boundaries of forested biomes, because small-scale environmental changes govern biome transitions. This is especially true in semi-arid forests, where minor topographic and microclimatic changes influence forest functioning and transitions to open biomes...

Evidence exists that tree mortality is accelerating in some regions of the tropics1,2, with profound consequences for the future of the tropical carbon sink and the global anthropogenic carbon budget left to limit peak global warming below 2 °C. However, the mechanisms that may be driving such mortality changes and whether particular species are es...

As the climate changes, warmer spring temperatures are causing earlier leaf-out1–3 and commencement of CO2 uptake1,3 in temperate deciduous forests, resulting in a tendency towards increased growing season length3 and annual CO2 uptake1,3–7. However, less is known about how spring temperatures affect tree stem growth8,9, which sequesters carbon in...

Lianas, climbing woody plants, influence the structure and function of tropical forests. Climbing traits have evolved multiple times, including ancestral groups such as gymnosperms and pteridophytes, but the genetic basis of the liana strategy is largely unknown. Here, we use a comparative transcriptomic approach for 47 tropical plant species, incl...

Tree size shapes forest carbon dynamics and determines how trees interact with their environment, including a changing climate. Here, we conduct the first global analysis of among‐site differences in how aboveground biomass stocks and fluxes are distributed with tree size. We analyzed repeat tree censuses from 25 large‐scale (4–52 ha) forest plots...

The growth and survival of individual trees determine the physical structure of a forest with important consequences for forest function. However, given the diversity of tree species and forest biomes, quantifying the multitude of demographic strategies within and across forests and the way that they translate into forest structure and function rem...

Maples (the genus Acer) represent important and beloved forest, urban, and ornamental trees distributed throughout the Northern hemisphere. They exist in a diverse array of native ranges and distributions, across spectrums of tolerance or decline, and have varying levels of susceptibility to biotic and abiotic stress. Among Acer species, several st...

The relative importance of tree mortality risk factors remains unknown, especially in diverse tropical forests where species may vary widely in their responses to particular conditions. We present a new framework for quantifying the importance of mortality risk factors and apply it to compare 19 risks on 31 203 trees (1977 species) in 14 one‐year p...

As the climate changes, warmer spring temperatures are causing earlier leaf-out1–6 and commencement of net carbon dioxide (CO2) sequestration2,4 in temperate deciduous forests, resulting in a tendency towards increased growing season length1,4,5,7–9 and annual CO2 uptake2,4,10–14. However, less is known about how spring temperatures affect tree ste...

A better understanding of how climate affects growth in tree species is essential for improved predictions of forest dynamics under climate change. Long-term climate averages (mean climate) drives spatial variations in species’ baseline growth rates, whereas deviations from these averages over time (anomalies) can create growth variation around the...

Allometric equations for calculation of tree above‐ground biomass ( AGB ) form the basis for estimates of forest carbon storage and exchange with the atmosphere. While standard models exist to calculate forest biomass across the tropics, we lack a standardized tool for computing AGB across boreal and temperate regions that comprise the global extra...

Tree rings provide an invaluable long‐term record for understanding how climate and other drivers shape tree growth and forest productivity. However, conventional tree‐ring analysis methods were not designed to simultaneously test effects of climate, tree size, and other drivers on individual growth. This has limited the potential to test ecologica...

Lianas, climbing woody plants, influence the structure and function of tropical forests. Climbing traits have evolved multiple times, including ancestral groups such as gymnosperms and pteridophytes, but the genetic basis of the liana strategy is largely unknown. Here, we use a comparative transcriptomic approach for 47 tropical plant species, incl...

Deep‐water access is arguably the most effective, but under‐studied, mechanism that plants employ to survive during drought. Vulnerability to embolism and hydraulic safety margins can predict mortality risk at given levels of dehydration, but deep‐water access may delay plant dehydration. Here, we tested the role of deep‐water access in enabling su...

Plant transpiration links physiological responses of vegetation to water supply and demand with hydrological, energy, and carbon budgets at the land–atmosphere interface. However, despite being the main land evaporative flux at the global scale, transpiration and its response to environmental drivers are currently not well constrained by observatio...

A better understanding of how climate affects growth in tree species is essential for improved predictions of forest dynamics under climate change. Long-term climate averages (mean climate) and short-term deviations from these averages (anomalies) both influence tree growth, but the rarity of long-term data integrating climatic gradients with tree...

Plant diversity varies immensely over large-scale gradients in temperature, precipitation, and seasonality at global and regional scales. This relationship may be driven in part by climatic variation in the relative importance of abiotic and biotic interactions to the diversity and composition of plant communities. In particular, biotic interaction...

Arbuscular mycorrhizal (AM) and ectomycorrhizal (EcM) associations are critical for host-tree performance. However, how mycorrhizal associations correlate with the latitudinal tree beta-diversity remains untested. Using a global dataset of 45 forest plots representing 2,804,270 trees across 3840 species, we test how AM and EcM trees contribute to t...

Experimental and observational studies on seedling dynamics posit mechanisms that can influence forest diversity, structure and function. However, high mortality and slow growth of seedlings make it difficult to evaluate the importance of this life‐history filter to total tree life history. Quantifying the duration and transition of the seedling ph...

The effects of climate change on tropical forests will depend on how diverse tropical tree species respond to drought. Current distributions of evergreen and deciduous tree species across local and regional moisture gradients reflect their ability to tolerate drought stress, and might be explained by functional traits. We measured leaf water potent...

Resource allocation within trees is a zero-sum game. Unavoidable trade-offs dictate that allocation to growth-promoting functions curtails other functions, generating a gradient of investment in growth versus survival along which tree species align, known as the interspecific growth–mortality trade-off. This paradigm is widely accepted but not well...

ForestGEO is a network of scientists and long-term forest dynamics plots (FDPs) spanning the Earth's major forest types. ForestGEO's mission is to advance understanding of the diversity and dynamics of forests and to strengthen global capacity for forest science research. ForestGEO is unique among forest plot networks in its large-scale plot dimens...

Atmospheric carbon dioxide concentration ([CO2]) is increasing, which increases leaf‐scale photosynthesis and intrinsic water‐use efficiency. These direct responses have the potential to increase plant growth, vegetation biomass, and soil organic matter; transferring carbon from the atmosphere into terrestrial ecosystems (a carbon sink). A substant...

Among the local processes that determine species diversity in ecological communities, fluctuation‐dependent mechanisms that are mediated by temporal variability in the abundances of species populations have received significant attention. Higher temporal variability in the abundances of species populations can increase the strength of temporal nich...

Knowing where species occur is fundamental to many ecological and environmental applications. Species distribution models (SDMs) are typically based on correlations between species occurrence data and environmental predictors, with ecological processes captured only implicitly. However, there is a growing interest in approaches that explicitly mode...

Plant phenology – the timing of cyclic or recurrent biological events in plants – offers insight into the ecology, evolution, and seasonality of plant‐mediated ecosystem processes. Traditionally studied phenologies are readily apparent, such as flowering events, germination timing, and season‐initiating budbreak. However, a broad range of phenologi...

Symbiotic nitrogen (N)‐fixing trees can provide large quantities of new N to ecosystems, but only if they are sufficiently abundant. The overall abundance and latitudinal abundance distributions of N‐fixing trees are well characterised in the Americas, but less well outside the Americas. Here, we characterised the abundance of N‐fixing trees in a n...

Seasonal dynamics in the vertical distribution of leaf area index (LAI) may impact the seasonality of forest productivity in Amazonian forests. However, until recently, fine‐scale observations critical to revealing ecological mechanisms underlying these changes have been lacking. To investigate fine‐scale variation in leaf area with seasonality and...

Tree mortality rates determine forest health, community dynamics, and terrestrial carbon stocks. Climate change is predicted to increase global forest mortality, and some studies have observed recent changes in mortality rates. Assessing shifts in mortality and identifying their causes is challenged by the low mortality rates of trees and the limit...

Plant enemies that attack chemically similar host species are thought to mediate competitive exclusion of chemically similar plants and select for chemical divergence among closely related species. This hypothesis predicts that plant defenses should diverge rapidly, minimizing phylogenetic signal. To evaluate this prediction, we quantified metabolo...

Survival rates of large trees determine forest biomass dynamics. Survival rates of small trees have been linked to mechanisms that maintain biodiversity across tropical forests. How species survival rates change with size offers insight into the links between biodiversity and ecosystem function across tropical forests. We tested patterns of size-de...

The prediction of vegetation responses to climate requires a knowledge of how climate‐sensitive plant traits mediate not only the responses of individual plants, but also shifts in the species and functional compositions of whole communities. The emission of isoprene gas – a trait shared by one‐third of tree species – is known to protect leaf bioch...

Hülsmann and Hartig suggest that ecological mechanisms other than specialized natural enemies or intraspecific competition contribute to our estimates of conspecific negative density dependence (CNDD). To address their concern, we show that our results are not the result of a methodological artifact and present a null-model analysis that demonstrat...

Chisholm and Fung claim that our method of estimating conspecific negative density dependence (CNDD) in recruitment is systematically biased, and present an alternative method that shows no latitudinal pattern in CNDD. We demonstrate that their approach produces strongly biased estimates of CNDD, explaining why they do not detect a latitudinal patt...

Aim To examine the contribution of large‐diameter trees to biomass, stand structure, and species richness across forest biomes. Location Global. Time period Early 21st century. Major taxa studied Woody plants. Methods We examined the contribution of large trees to forest density, richness and biomass using a global network of 48 large (from 2 t...

As population-level patterns of interest in forests emerge from individual vital rates, modelling forest dynamics requires making the link between the scales at which data are collected (individual stems) and the scales at which questions are asked (e.g. populations and communities). Structured population models (e.g. integral projection models (IP...

Interspecific variation in the secondary metabolites of plants constrains host specificity of insect herbivores and microbial pathogens. The intensity and specificity of these plant-pest interactions is widely believed to increase towards the Equator, leading to the prediction that secondary metabolites should differ more among co-occurring plant s...

Tree mortality rates appear to be increasing in moist tropical forests (MTFs) with significant carbon cycle consequences. Here, we review the state of knowledge regarding MTF tree mortality, create a conceptual framework with testable hypotheses regarding the drivers, mechanisms and interactions that may underlie increasing MTF mortality rates, and...

Drought‐induced tree mortality is expected to increase globally due to climate change, with profound implications for forest composition, function and global climate feedbacks. How drought is experienced by different species is thought to depend fundamentally on where they access water vertically below‐ground, but this remains untracked so far due...

Maintaining tree diversity Negative interaction among plant species is known as conspecific negative density dependence (CNDD). This ecological pattern is thought to maintain higher species diversity in the tropics. LaManna et al. tested this hypothesis by comparing how tree species diversity changes with the intensity of local biotic interactions...

Stem diameter is one of the most commonly measured attributes of trees, forming the foundation of forest censuses and monitoring. Changes in tree stem circumference include both irreversible woody stem growth and reversible circumference changes related to water status, yet these fine-scale dynamics are rarely leveraged to understand forest ecophys...

List of all trees equipped with ADBs. (DOCX)

Relationship between Tband and Tair. (DOCX)

Thermal expansion experiment. (DOCX)

TreeHugger failures. (DOCX)

Conceptual models that describe temperate forest dynamics differ substantially between Europe and America. In Europe, the concept of the forest cycle describes a sequentially shifting fine-scale mosaic of patches in different phases of forest development. In North America, the descriptive concept is largely based on severe coarse-scale disturbances...

Fagus sylvatica (European beech) populations in Central Europe are currently expanding their dominance in many forest types. In this study we focused on the spatio-temporal dynamics of beech recruitment as a mechanism for successful expansion. Specifically we investigated: (1) the developmental trend of the tree community composition and spatial pa...

Understanding and forecasting species' geographic distributions in the face of global change is a central priority in biodiversity science. The existing view is that one must choose between correlative models for many species versus process-based models for few species. We suggest that opportunities exist to produce process-based range models for m...

Supplementary Material to the Paper: Kral_et_al_2016_Fine-scale patch mosaics in American forests

Background: Changes in species diversity across temperate and tropical ecosystems are among the most striking patterns of global biodiversity. Yet the processes that underlie these patterns remain debated. One leading hypothesis is that geographic variation in niche-assembly mechanisms results in higher diversity in the tropics. Theory predicts tha...

Population ecology, the discipline that studies the dynamics of species’ populations and how they interact with the environment, has been one of the most prolific fields of ecology and evolution. Demographic research is central to quantifying population‐level processes and their underlying mechanisms and has provided critical contributions to a div...

Large‐scale mortality events in forests are increasing in frequency and intensity and can lead to both intermediate‐ and long‐term changes in these systems. Specialist pests and pathogens are unique disturbances, as they commonly target individual species that are relatively prevalent in the community. Understanding the consequences of pathogen‐cau...

Background/Question/Methods: A key goal in ecology is to disentangle how multiple processes at different scales influence patterns of biodiversity. Variation in biodiversity can arise from local-scale niche-based processes such as competition and environmental filtering as well as from regional-scale processes such as dispersal and speciation. Howe...

Temporal fluctuations in vital rates such as survival, growth or reproduction alter long‐term population dynamics and can change the dynamics from invasion and population persistence to extinction. Projections of population dynamics made in the absence of such fluctuations may consequently be misleading. However, data for estimation of yearly fluct...

Many morphological, physiological and ecological traits of trees scale with diameter, shaping the structure and function of forest ecosystems. Understanding the mechanistic basis for such scaling relationships is key to understanding forests globally and their role in Earth's changing climate system. Here, we evaluate theoretical predictions for th...

Computation has become a critical component of research in biology. A risk has emerged that computational and programming challenges may limit research scope, depth, and quality. We review various solutions to common computational efficiency problems in ecological and evolutionary research. Our review pulls together material that is currently scatt...

Global change is impacting forests worldwide, threatening biodiversity and ecosystem services including climate regulation. Understanding how forests respond is critical to forest conservation and climate protection. This review describes an international network of 59 long-term forest dynamics research sites (CTFS-ForestGEO) useful for characteriz...

Model of error transmission from continuous fields to land-cover change detection•Method infers per-pixel uncertainty in detecting forest-cover change.•Continuous scale generalizes change detection across definitions of “forest”.•Method applicable to other land-cover types (urban change from impervious surface)