Reactive gases and aerosols are produced by terrestrial ecosystems, processed within plant canopies, and can then be emitted into the above-canopy atmosphere. Estimates of the above-canopy fluxes are needed for quantitative earth system studies and assessments of past, present and future air quality and climate. The Model of Emissions of Gases and Aerosols from Nature (MEGAN) is described and used to quantify net terrestrial biosphere emission of isoprene into the atmosphere. MEGAN is designed for both global and regional emission modeling and has global coverage with ~1 km² spatial resolution. Field and laboratory investigations of the processes controlling isoprene emission are described and data available for model development and evaluation are summarized. The factors controlling isoprene emissions include biological, physical and chemical driving variables. MEGAN driving variables are derived from models and satellite and ground observations. Tropical broadleaf trees contribute almost half of the estimated global annual isoprene emission due to their relatively high emission factors and because they are often exposed to conditions that are conducive for isoprene emission. The remaining flux is primarily from shrubs which have a widespread distribution. The annual global isoprene emission estimated with MEGAN ranges from about 500 to 750 Tg isoprene (440 to 660 Tg carbon) depending on the driving variables which include temperature, solar radiation, Leaf Area Index, and plant functional type. The global annual isoprene emission estimated using the standard driving variables is ~600 Tg isoprene. Differences in driving variables result in emission estimates that differ by more than a factor of three for specific times and locations. It is difficult to evaluate isoprene emission estimates using the concentration distributions simulated using chemistry and transport models, due to the substantial uncertainties in other model components, but at least some global models produce reasonable results when using isoprene emission distributions similar to MEGAN estimates. In addition, comparison with isoprene emissions estimated from satellite formaldehyde observations indicates reasonable agreement. The sensitivity of isoprene emissions to earth system changes (e.g., climate and land-use) demonstrates the potential for large future changes in emissions. Using temperature distributions simulated by global climate models for year 2100, MEGAN estimates that isoprene emissions increase by more than a factor of two. This is considerably greater than previous estimates and additional observations are needed to evaluate and improve the methods used to predict future isoprene emissions.

The Model of Emissions of Gases and Aerosols from Nature (MEGANv2.1) together with the Modern-Era Retrospective Analysis for Research and Applications (MERRA) meteorological fields were used to create a global emission data set of biogenic volatile organic compounds (BVOC) available on a monthly basis for the time period of 1980–2010. This data set, developed under the Monitoring Atmospheric Composition and Climate project (MACC), is called MEGAN–MACC. The model estimated mean annual total BVOC emission of 760 Tg (C) yr⁻¹ consisting of isoprene (70%), monoterpenes (11%), methanol (6%), acetone (3%), sesquiterpenes (2.5%) and other BVOC species each contributing less than 2%. Several sensitivity model runs were performed to study the impact of different model input and model settings on isoprene estimates and resulted in differences of up to ±17% of the reference isoprene total. A greater impact was observed for a sensitivity run applying parameterization of soil moisture deficit that led to a 50% reduction of isoprene emissions on a global scale, most significantly in specific regions of Africa, South America and Australia. MEGAN–MACC estimates are comparable to results of previous studies. More detailed comparison with other isoprene inventories indicated significant spatial and temporal differences between the data sets especially for Australia, Southeast Asia and South America. MEGAN–MACC estimates of isoprene, α-pinene and group of monoterpenes showed a reasonable agreement with surface flux measurements at sites located in tropical forests in the Amazon and Malaysia. The model was able to capture the seasonal variation of isoprene emissions in the Amazon forest.

Anthropogenic emissions and land use changes have modified atmospheric aerosol concentrations and size distributions over time. Understanding preindustrial conditions and changes in organic aerosol due to anthropogenic activities is important because these features (1) influence estimates of aerosol radiative forcing and (2) can confound estimates of the historical response of climate to increases in greenhouse gases. Secondary organic aerosol (SOA), formed in the atmosphere by oxidation of organic gases, represents a major fraction of global submicron‐sized atmospheric organic aerosol. Over the past decade, significant advances in understanding SOA properties and formation mechanisms have occurred through measurements, yet current climate models typically do not comprehensively include all important processes. This review summarizes some of the important developments during the past decade in understanding SOA formation. We highlight the importance of some processes that influence the growth of SOA particles to sizes relevant for clouds and radiative forcing, including formation of extremely low volatility organics in the gas phase, acid‐catalyzed multiphase chemistry of isoprene epoxydiols, particle‐phase oligomerization, and physical properties such as volatility and viscosity. Several SOA processes highlighted in this review are complex and interdependent and have nonlinear effects on the properties, formation, and evolution of SOA. Current global models neglect this complexity and nonlinearity and thus are less likely to accurately predict the climate forcing of SOA and project future climate sensitivity to greenhouse gases. Efforts are also needed to rank the most influential processes and nonlinear process‐related interactions, so that these processes can be accurately represented in atmospheric chemistry‐climate models.

Dry deposition of ozone is an important sink of ozone in near‐surface air. When dry deposition occurs through plant stomata, ozone can injure the plant, altering water and carbon cycling and reducing crop yields. Quantifying both stomatal and nonstomatal uptake accurately is relevant for understanding ozone's impact on human health as an air pollutant and on climate as a potent short‐lived greenhouse gas and primary control on the removal of several reactive greenhouse gases and air pollutants. Robust ozone dry deposition estimates require knowledge of the relative importance of individual deposition pathways, but spatiotemporal variability in nonstomatal deposition is poorly understood. Here we integrate understanding of ozone deposition processes by synthesizing research from fields such as atmospheric chemistry, ecology, and meteorology. We critically review methods for measurements and modeling, highlighting the empiricism that underpins modeling and thus the interpretation of observations. Our unprecedented synthesis of knowledge on deposition pathways, particularly soil and leaf cuticles, reveals process understanding not yet included in widely used models. If coordinated with short‐term field intensives, laboratory studies, and mechanistic modeling, measurements from a few long‐term sites would bridge the molecular to ecosystem scales necessary to establish the relative importance of individual deposition pathways and the extent to which they vary in space and time. Our recommended approaches seek to close knowledge gaps that currently limit quantifying the impact of ozone dry deposition on air quality, ecosystems, and climate.

As formaldehyde (HCHO) is a high-yield product in the oxidation of most volatile organic compounds (VOCs) emitted by fires, vegetation, and anthropogenic activities, satellite observations of HCHO are well-suited to inform us on the spatial and temporal variability of the underlying VOC sources. The long record of space-based HCHO column observations from the Ozone Monitoring Instrument (OMI) is used to infer emission flux estimates from pyrogenic and biogenic volatile organic compounds (VOCs) on the global scale over 2005–2013. This is realized through the method of source inverse modeling, which consists in the optimization of emissions in a chemistry-transport model (CTM) in order to minimize the discrepancy between the observed and modeled HCHO columns. The top–down fluxes are derived in the global CTM IMAGESv2 by an iterative minimization algorithm based on the full adjoint of IMAGESv2, starting from a priori emission estimates provided by the newly released GFED4s (Global Fire Emission Database, version 4s) inventory for fires, and by the MEGAN-MOHYCAN inventory for isoprene emissions. The top–down fluxes are compared to two independent inventories for fire (GFAS and FINNv1.5) and isoprene emissions (MEGAN-MACC and GUESS-ES). The inversion indicates a moderate decrease (ca. 20 %) in the average annual global fire and isoprene emissions, from 2028 Tg C in the a priori to 1653 Tg C for burned biomass, and from 343 to 272 Tg for isoprene fluxes. Those estimates are acknowledged to depend on the accuracy of formaldehyde data, as well as on the assumed fire emission factors and the oxidation mechanisms leading to HCHO production. Strongly decreased top–down fire fluxes (30–50 %) are inferred in the peak fire season in Africa and during years with strong a priori fluxes associated with forest fires in Amazonia (in 2005, 2007, and 2010), bushfires in Australia (in 2006 and 2011), and peat burning in Indonesia (in 2006 and 2009), whereas generally increased fluxes are suggested in Indochina and during the 2007 fires in southern Europe. Moreover, changes in fire seasonal patterns are suggested; e.g., the seasonal amplitude is reduced over southeast Asia. In Africa, the inversion indicates increased fluxes due to agricultural fires and decreased maxima when natural fires are dominant. The top–down fire emissions are much better correlated with MODIS fire counts than the a priori inventory in regions with small and agricultural fires, indicating that the OMI-based inversion is well-suited to assess the associated emissions. Regarding biogenic sources, significant reductions in isoprene fluxes are inferred in tropical ecosystems (30–40 %), suggesting overestimated basal emission rates in those areas in the bottom–up inventory, whereas strongly positive isoprene emission updates are derived over semiarid and desert areas, especially in southern Africa and Australia. This finding suggests that the parameterization of the soil moisture stress used in MEGAN greatly exaggerates the flux reduction due to drought in those regions. The isoprene emission trends over 2005–2013 are often enhanced after optimization, with positive top–down trends in Siberia (4.2 % year⁻¹) and eastern Europe (3.9 % year⁻¹), likely reflecting forest expansion and warming temperatures, and negative trends in Amazonia (−2.1 % year⁻¹), south China (−1 % year⁻¹), the United States (−3.7 % year⁻¹), and western Europe (−3.3 % year⁻¹), which are generally corroborated by independent studies, yet their interpretation warrants further investigation.

About 2.4 Pg (1 Pg = 10(15) g) of carbon is emitted annually into the atmosphere as reactive compounds and most of it is eventually oxidized to CO2. Isoprene, alpha-pinene, methanol, carbon monoxide and other compounds emitted by terrestrial vegetation contribute about half of the total flux and are estimated to produce about 1 Pg C as CO2 per year. The global average for vegetated surfaces is about 7 g C m(-2) per year but could exceed 100 g m(-2) per year at some tropical locations. The magnitude of these fluxes on both the landscape and global scales are small relative to the total carbon emission or deposition but are significant relative to the net fluxes. Reactive carbon fluxes are very sensitive to landcover and climate change and may vary significantly due to future perturbations. This paper summarizes what is known about reactive carbon emissions from vegetation including the magnitude of local, landscape, and global scale fluxes and their contribution to atmospheric CO2. Reasons for including this term in carbon flux models are presented as well as the potential importance on various spatial scales. Past, present and future reactive carbon emissions are expected to differ significantly and the implications of this are discussed.