R. Leuning’s research while affiliated with CSIRO Marine and Atmospheric Research and other places

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Publications (170)


Author Correction: The FLUXNET2015 dataset and the ONEFlux processing pipeline for eddy covariance data
  • Article
  • Full-text available

February 2021

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624 Reads

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83 Citations

Scientific Data

Gilberto Pastorello

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p>The following authors were omitted from the original version of this Data Descriptor: Markus Reichstein and Nicolas Vuichard. Both contributed to the code development and N. Vuichard contributed to the processing of the ERA-Interim data downscaling. Furthermore, the contribution of the co-author Frank Tiedemann was re-evaluated relative to the colleague Corinna Rebmann, both working at the same sites, and based on this re-evaluation a substitution in the co-author list is implemented (with Rebmann replacing Tiedemann). Finally, two affiliations were listed incorrectly and are corrected here (entries 190 and 193). The author list and affiliations have been amended to address these omissions in both the HTML and PDF versions.</p

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Fig. 1 Map of 206 tower sites included in this paper from the 212 sites in the February 2020 release of the FLUXNET2015 dataset. The size of the circle indicates the length of the data record. The color of the circles represents the ecosystem type based on the International Geosphere-Biosphere Programme (IGBP) definition. When overlapping, locations are offset slightly to improve readability. Numbers in parentheses indicate the number of sites in each IGBP group. The inset shows the distribution of data record lengths. See also Supplementary Fig. SM4 for continental scale maps of Australia, Europe, and North America.
Fig. 6 Distribution of the yearly (a) net ecosystem exchange (NEE), (b) gross primary production (GPP), and (c) ecosystem respiration (RECO) in FLUXNET2015. Only data with QC flag (NEE_VUT_REF_QC) higher than 0.5 are shown here. The values are reference NEE, GPP, and RECO based on the Variable USTAR Threshold (VUT) and selected reference for model efficiency (REF). GPP and RECO are based on the nighttime partitioning (NT) method. The grey histogram (bin width 100 gC m −2 y −1 ) shows the flux distribution in 1224 of the available site-years; negative GPP and RECO values are kept to preserve distributions, see Data processing methods section for details. Black lines show the distribution curves based on published data 253,254 . The boxplots show the flux distribution (i.e., 25th, 50th, and 75th percentiles) for vegetation types defined and color-coded according to IGBP (International Geosphere-Biosphere Programme) definitions. Circles represent data points beyond the 1.5-times interquartile range (25th to 75th percentile) plus the 75th percentile or minus 25th percentile (whisker). Numbers in parentheses indicate the number of site-years used in each IGBP group. The NO-Blv site from the snow/ice IGBP group is not shown in the boxplots.
The logic of the data processing steps for FLUXNET2015 (details about the different steps and meaning of abbreviations in the text).
To identify and remove data collected under low turbulence conditions, under which advective fluxes could lead to an underestimation of fluxes, filtering based on the USTAR threshold was used. In order to estimate the uncertainty in the USTAR threshold calculation, a bootstrapping approach was implemented, with a selection of values representative of the distribution included in the final data products. From the (up to) 200 thresholds from the combined bootstrapping of the two methods, 40 percentiles are extracted. All the subsequent steps of the pipeline are applied to all 40 versions. For each of the final output products (e.g., NEE, as illustrated here), seven percentiles representative of the distribution are included.
Example of the distribution of USTAR thresholds calculated for each year using the MP³⁰ method in blue and CP⁴¹ method in green for the US-UMB site (dark green where they overlap). All these thresholds were pulled together to extract the CUT final 40 thresholds, while for the VUT thresholds, each year was pulled with the two immediately before and after (e.g., 2005 + 2006 + 2007 to extract the 40 thresholds to be used to filter 2006). Note that the level of agreement between methods and between subsequent years is variable, justifying the approach that propagates this variability into uncertainty in NEE.

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The FLUXNET2015 dataset and the ONEFlux processing pipeline for eddy covariance data

July 2020

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2,499 Reads

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1,129 Citations

Scientific Data

The FLUXNET2015 dataset provides ecosystem-scale data on CO2, water, and energy exchange between the biosphere and the atmosphere, and other meteorological and biological measurements, from 212 sites around the globe (over 1500 site-years, up to and including year 2014). These sites, independently managed and operated, voluntarily contributed their data to create global datasets. Data were quality controlled and processed using uniform methods, to improve consistency and intercomparability across sites. The dataset is already being used in a number of applications, including ecophysiology studies, remote sensing studies, and development of ecosystem and Earth system models. FLUXNET2015 includes derived-data products, such as gap-filled time series, ecosystem respiration and photosynthetic uptake estimates, estimation of uncertainties, and metadata about the measurements, presented for the first time in this paper. In addition, 206 of these sites are for the first time distributed under a Creative Commons (CC-BY 4.0) license. This paper details this enhanced dataset and the processing methods, now made available as open-source codes, making the dataset more accessible, transparent, and reproducible.


Fig. 1 Map of 206 tower sites included in this paper from the 212 sites in the February 2020 release of the FLUXNET2015 dataset. he size of the circle indicates the length of the data record. he color of the circles represents the ecosystem type based on the International Geosphere-Biosphere Programme (IGBP) deinition. When overlapping, locations are ofset slightly to improve readability. Numbers in parentheses indicate the number of sites in each IGBP group. he inset shows the distribution of data record lengths. See also Supplementary Fig. SM4 for continental scale maps of Australia, Europe, and North America.
Fig. 6 Distribution of the yearly (a) net ecosystem exchange (NEE), (b) gross primary production (GPP), and (c) ecosystem respiration (RECO) in FLUXNET2015. Only data with QC flag (NEE_VUT_REF_QC) higher than 0.5 are shown here. The values are reference NEE, GPP, and RECO based on the Variable USTAR Threshold (VUT) and selected reference for model efficiency (REF). GPP and RECO are based on the nighttime partitioning (NT) method. The grey histogram (bin width 100 gC m −2 y −1 ) shows the flux distribution in 1224 of the available site-years; negative GPP and RECO values are kept to preserve distributions, see Data processing methods section for details. Black lines show the distribution curves based on published data 253,254 . The boxplots show the flux distribution (i.e., 25th, 50th, and 75th percentiles) for vegetation types defined and color-coded according to IGBP (International Geosphere-Biosphere Programme) definitions. Circles represent data points beyond the 1.5-times interquartile range (25th to 75th percentile) plus the 75th percentile or minus 25th percentile (whisker). Numbers in parentheses indicate the number of site-years used in each IGBP group. The NO-Blv site from the snow/ice IGBP group is not shown in the boxplots.
The FLUXNET2015 dataset and the ONEFlux processing pipeline for eddy covariance data

July 2020

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932 Reads

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569 Citations

Scientific Data

The FLUXNET2015 dataset provides ecosystem-scale data on CO2, water, and energy exchange between the biosphere and the atmosphere, and other meteorological and biological measurements, from 212 sites around the globe (over 1500 site-years, up to and including year 2014). These sites, independently managed and operated, voluntarily contributed their data to create global datasets. Data were quality controlled and processed using uniform methods, to improve consistency and intercomparability across sites. The dataset is already being used in a number of applications, including ecophysiology studies, remote sensing studies, and development of ecosystem and Earth system models. FLUXNET2015 includes derived-data products, such as gap-filled time series, ecosystem respiration and photosynthetic uptake estimates, estimation of uncertainties, and metadata about the measurements, presented for the first time in this paper. In addition, 206 of these sites are for the first time distributed under a Creative Commons (CC-BY 4.0) license. This paper details this enhanced dataset and the processing methods, now made available as open-source codes, making the dataset more accessible, transparent, and reproducible.



Figure 2. OzFlux sites (white stars) across bioclimatic space with Fluxnet codes (Table 1). Mean annual temperature and mean annual precipitation are shown as the climate space using mean annual (1961?1990) gridded data (0.1 @BULLET resolution) (Bureau-of- Meteorology, 2013). The colours represent the major modified K?ppen climate classes (Stern and Dahni, 2013) as follows: (1) equatorial (pink), tropical (dark blue), sub-tropical (light blue), desert (green), grassland (yellow), and temperate (red).  
Figure 6. The relationships of Australian OzFlux tower data by ecoregion type (Table 1) between gross primary production (GPP) and the major climate drivers (a) mean annual precipitation (MAP) and (b) mean annual temperature (MAT). Also shown is the relationship between GPP and (c) actual evapotranspiration (AET) and (d) radiation-use efficiency (RUE). The global relationships in Garbulsky et al. (2010) are shown in the background to aid comparison. Simple curve fits are shown to aid visualization.  
An introduction to the Australian and New Zealand flux tower network – OzFlux

October 2016

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616 Reads

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225 Citations

OzFlux is the regional Australian and New Zealand flux tower network that aims to provide a continental-scale national research facility to monitor and assess trends, and improve predictions, of Australia’s terrestrial biosphere and climate. This paper describes the evolution, design, and current status of OzFlux as well as provides an overview of data processing.We analyse measurements from all sites within the Australian portion of the OzFlux network and two sites from New Zealand. The response of the Australian biomes to climate was largely consistent with global studies except that Australian systems had a lower ecosystem water-use efficiency. Australian semi-arid/arid ecosystems are important because of their huge extent (70 %) and they have evolved with common moisture limitations. We also found that Australian ecosystems had a similar radiationuse efficiency per unit leaf area compared to global values that indicates a convergence toward a similar biochemical efficiency. The two New Zealand sites represented extremes in productivity for a moist temperate climate zone, with the grazed dairy farm site having the highest GPP of any OzFlux site (2620 gCm􀀀2 yr􀀀1/ and the natural raised peat bog site having a very low GPP (820 gCm􀀀2 yr􀀀1/. The paper discusses the utility of the flux data and the synergies between flux, remote sensing, and modelling. Lastly, the paper looks ahead at the future direction of the network and concludes that there has been a substantial contribution by OzFlux, and considerable opportunities remain to further advance our understanding of ecosystem response to disturbances, including drought, fire, land-use and land-cover change, land management, and climate change, which are relevant both nationally and internationally. It is suggested that a synergistic approach is required to address all of the spatial, ecological, human, and cultural challenges of managing the delicately balanced ecosystems in Australasia.


Figure 1: Major Australian biomes defined using the Interim Biogeographic Regionalisation for Australia v. 7 (IBRA) (Environment, 2012). Flux sites from Table 1 are shown illustrating the wide geographical and biome space but each biome is not equally represented. Only a small fraction of the OzFlux sites (8%) are located in the arid/semi-arid biomes that comprises 74% of the landscape. 960
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An introduction to the Australian and New Zealand flux tower network – OzFlux

April 2016

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1,879 Reads

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21 Citations

Biogeosciences Discussions

OzFlux is the regional Australian and New Zealand flux tower network that aims to provide a continental-scale national research facility to monitor and assess trends, and improve predictions, of Australia’s terrestrial biosphere and climate. This paper describes the evolution, design and current status of OzFlux as well as an overview of data processing. We analyse measurements from the Australian portion of the OzFlux network and found that the response of Australian biomes to climate was largely consistent with global studies but that Australian systems had a lower ecosystem water-use efficiency. Australian semi-arid/arid ecosystems are important because of their huge extent (70 %) and they have evolved with common moisture limitations. We also found that Australian ecosystems had similar radiation use efficiency per unit leaf area compared to global values that indicates a convergence toward a similar biochemical efficiency. The paper discusses the utility of the flux data and the synergies between flux, remote sensing and modelling. Lastly, the paper looks ahead at the future direction of the network and concludes that there has been a substantial contribution by OzFlux and considerable opportunities remain to further advance our understanding of ecosystem response to disturbances including drought, fire, land use and land cover change, land management and climate change that are relevant both nationally and internationally. It is suggested that a synergistic approach is required to address all of the spatial, ecological, human and cultural challenges of managing the delicately balanced ecosystems in Australia.


Global vegetation gross primary production estimation using satellite-derived light-use efficiency and canopy conductance

June 2015

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485 Reads

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50 Citations

Remote Sensing of Environment

Climate and physiological controls of vegetation gross primary production (GPP) vary in space and time. In many ecosystems, GPP is primary limited by absorbed photosynthetically-active radiation; in others by canopy conductance. These controls further vary in importance over daily to seasonal time scales. We propose a simple but effective conceptual model that estimates GPP as the lesser of a conductance-limited (Fc) and radiation-limited (Fr) assimilation rate. Fc is estimated from canopy conductance while Fr is estimated using a light use efficiency model. Both can be related to vegetation properties observed by optical remote sensing. The model has only two fitting parameters: maximum light use efficiency, and the minimum achieved ratio of internal to external CO2 concentration. The two parameters were estimated using data from 16 eddy covariance flux towers for six major biomes including both energy- and water-limited ecosystems. Evaluation of model estimates with flux tower-derived GPP compared favourably to that of more complex models, for fluxes averaged; per day (r2 = 0.72, root mean square error, RMSE = 2.48 μmol C m2 s− 1, relative percentage error, RPE = − 11%), over 8-day periods (r2 = 0.78 RMSE = 2.09 μmol C m2 s− 1,RPE = − 10%), over months (r2 = 0.79, RMSE = 1.93 μmol C m2 s− 1, RPE = − 9%) and over years (r2 = 0.54, RMSE = 1.62 μmol C m2 s− 1, RPE = − 9%). Using the model we estimated global GPP of 107 Pg C y− 1 for 2000-2011. This value is within the range reported by other GPP models and the spatial and inter-annual patterns compared favourably. The main advantages of the proposed model are its simplicity, avoiding the use of uncertain biome- or land-cover class mapping, and inclusion of explicit coupling between GPP and plant transpiration.


Table 4. Trace gas concentrations from samples taken at Ginninderra, supplement to: Zoe, Loh; Leuning, Ray; Zegelin, Steve; Etheridge, David; Bai, Jia-Chi; Naylor, Travis; Griffith, David (2009): Testing Lagrangian atmospheric dispersion modelling to monitor CO2 and CH4 leakage from geosequestration. Atmospheric Environment, 43(16), 2602-2611

January 2015

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12 Reads

We assess the performance of an inverse Lagrangian dispersion technique for its suitability to quantify leakages from geological storage of CO2. We find the technique is accurate ((QbLS/Q)=0.99, sigma=0.29) when strict meteorological filtering is applied to ensure that Monin-Obukhov Similarity Theory is valid for the periods analysed and when downwind enrichments in tracer gas concentration are 1% or more above background concentration. Because of their respective baseline atmospheric concentrations, this enrichment criterion is less onerous for CH4 than for CO2. Therefore for geologically sequestered gas reservoirs with a significant CH4 component, monitoring CH4 as a surrogate for CO2 leakage could be as much as 10 times more sensitive than monitoring CO2 alone. Additional recommendations for designing a robust atmospheric monitoring strategy for geosequestration include: continuous concentration data; exact inter-calibration of up- and downwind concentration measurements; use of an array of point concentration sensors to maximise the use of spatial information about the leakage plume; and precise isotope ratio measurement to confirm the source of any concentration elevations detected.


Figure 1: The Otway CCS site. CRC2 is the Controlled Release location (from http://www.co2crc.com.au/otway/site.html, used with permission).
Figure 3: Temporal variation of the measured 1 min averaged (a) CO2 concentration difference between the AM and VC sites, (b) CH4 concentration difference between the AM and VC sites, (c) wind direction, and (d) wind speed (m s−1), on 3 September 2011.
Table 3 . Comparison of the Actual Emission Rate (q) and Horizontal Location (x s , y s ) of the Controlled Release Source With Those Predicted by the Inverse Model When the Source is Assumed a Priori to be at the Surface (z s = z 0 ) (N m = 35 for CH 4 and 23 for CO 2 )
Figure 4: Variation of the observed signal-to-noise ratio (ΔC/σ) as a function of the observed wind direction for (a) CH4 and (b) CO2 (Nm = 98), shown by circles. The dotted lines represent ΔC/σ = ± 1.
Figure 4 shows the variation of the observed signal-to-noise ratio (ΔC/σ) as a function of the observed wind direction for CO 2 and CH 4 using the hourly averaged data when the Controlled Release source was emitting (sample size = 98), where ΔC = C AM À C VC , C AM is the measured concentration at Atmospheric Module, C VC is the concentration measured at Visitor Centre, and σ = 1.3 ppm for CO 2 and σ = 50 ppb for CH 4 (as determined previously). (Note that ^ C ¼ ΔC j j). The dotted lines represent ΔC/σ = ± 1. Values of |ΔC|/σ much higher than unity are observed when the winds are between NE and NW and Visitor Centre is downwind of the source. When
Locating and quantifying greenhouse gas emissions at a geological CO2 storage site using atmospheric modeling and measurements

September 2014

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256 Reads

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36 Citations

The CO2CRC Otway Project is Australia's first demonstration of the geological storage of carbon dioxide (CO2), where about 65,000 metric tons of fluid consisting of 92% CO2 and 8% methane (CH4) by mass have been injected underground. As part of the project objective of developing methodologies to detect, locate and quantify potential leakage of the stored fluid into the atmosphere, we formulate an inverse atmospheric model based on a Bayesian probabilistic framework coupled to a state-of-the-art backward Lagrangian particle dispersion model. A Markov chain Monte Carlo method is used for efficiently sampling the posterior probability distribution of the source parameters. Controlled experiments used to test the model involved releases of the injected fluid from one of the nearby wells and were staggered over one month. Atmospheric measurements of CO2 and CH4 concentrations were taken at two stations installed in an upwind-downwind configuration. Modeling both the emission rate and the source location using the concentration measurements from only two stations is difficult, but the fact that the emission rate was constant, which is not an unrealistic scenario for potential geological leakage, allows us to compute both parameters. The modeled source parameters compare reasonably well with the actual values, with the CH4 tracer constraining the source better than CO2, largely as a result of its six times higher signal-to-noise ratio. The results lend confidence in the ability of atmospheric techniques to quantify potential leakage from CO2 storage as well as other source types.



Citations (80)


... FLUXNET2015 is currently the most widely used flux tower dataset (Pastorello et al., 2020). However, substantial preprocessing is frequently required to ensure the reliability of meteorological forcing and flux assessment data for LSMs. ...

Reference:

A flux tower site attribute dataset intended for land surface modeling
Author Correction: The FLUXNET2015 dataset and the ONEFlux processing pipeline for eddy covariance data

Scientific Data

... Such validation is critical for establishing initial confidence in the indices' reliability. The expansion of the global eddy-covariance flux tower network (FLUXNET) has provided time series GPP data from hundreds of sites spanning diverse climate and biome types [ 29 ]. Consequently, DHIs can now be computed from in situ GPP time series, enabling their use either as ground truth for validating satellite-derived DHIs or as an independent test of the productivity-biodiversity relationship [ 30 , 31 ]. ...

The FLUXNET2015 dataset and the ONEFlux processing pipeline for eddy covariance data

Scientific Data

... An initial evaluation of ECOSTRESS ET data highlighted consistent accuracy metrics across different times of the day and strong agreement with ground observations across different land cover and climates . This first-stage assessment used data from eddy covariance towers worldwide, many of which were not yet part of established networks like FLUXNET or AmeriFlux (Pastorello et al., 2020). Although the compilation of this data set in ECOSTRESS Collection 1 showcased the collaborative spirit in advancing ET research, it also faced challenges due to a lack of harmonized in situ data collection and post-processing standards, which limited detailed analysis (Chu et al., 2023). ...

The FLUXNET2015 dataset and the ONEFlux processing pipeline for eddy covariance data

Scientific Data

... One of the most obvious ways to circumvent this is to add chemical tracers to the injected gas that are not otherwise found in the subsurface to verify its presence and safe storage. Tracers have also played a role in assurance monitoring of the atmosphere (Etheridge et al., 2005), soil gas (Watson et al., 2006Watson et al., , 2009) and ground water (Hennig et al., 2008; de Caritat et al., 2009). Aside from the observed gross enrichment in CO 2 concentration in the injection horizon, the carbon isotopic signature of injected CO 2 could be a key monitoring parameter if different from indigenous CO 2 isototopic signatures. ...

Assurance monitoring in the CO2CRC Otway Project to demonstrate geological storage of CO2: Review of the environmental monitoring systems and results prior to the injection of CO2
  • Citing Article
  • January 2008

The APPEA Journal

... There are few publications focusing on measurement in biological matrices from organisms such as humans. Here, we summarize the methods that may be of potential interest to the medical laboratory, and have not focused on methods that cannot be applied to clinical chemistry, such as chamber methods for measuring gas flow [20], air flow measurement methods [21][22][23] and optical methods [24,25], which are better suited for environmental applications. Methods of potential interest to laboratory medicine are chromatography and infrared spectroscopy. ...

Spatial variability of nitrous oxide emissions from an Australian irrigated dairy pasture.
  • Citing Article
  • January 2008

Plant and Soil

... Because the Marshall et al. study did not find using understory-overstory coupling (Thomas et al., 2013) removed the EC-biometric mismatch, more evaluation of using understory and overstory coupling to screen fluxes should be done. Alternative methods (Van Gorsel et al., 2007, 2008 should also be evaluated at more sites. For the biometric measurement community, using larger chambers for both soil and vegetation fluxes, having more continuous measurements, and combining continuous measurements with periodic broader samples may produce more certain R ECO fluxes. ...

Nocturnal carbon efflux: reconciliation of eddy covariance and chamber measurements using an alternative to the u * -threshold filtering technique

Tellus B

... Initial validation at three OzFlux eddy-covariance flux tower sites (Beringer et al., 2016) revealed that SATDA derived from Himawari T s and spatially-interpolated T a showed high agreement with: (i) SATDA computed using in-situ T s and T a ; and (ii) anomalies of the sensible heat fraction (HF) as a physical indicator of available energy partitioning, defined as the ratio between H and the sum of H and λE (i.e., HF = H/ (H+λE)) ( Fig. S18; Tables S7, S8). These validation results supported both the: (i) reliability of spatial data inputs; and (ii) physical foundation of SATDA, providing confidence to extend SATDA across space for regional drought monitoring (Section 3.2). ...

An introduction to the Australian and New Zealand flux tower network – OzFlux

... The spatial representation of carbon fluxes is currently very limited and requires further comprehensive and cooperative research ( Baldocchi, 2008;Yu et al., 2014b). Most recent studies have focused not only on the actualities of carbon exchange between forest ecosystems and the atmosphere, but also on the response of carbon fluxes to biophysical controls ( Baldocchi et al., 2017;Beringer et al., 2016;Frank et al., 2015;Grace et al., 2014;IPCC, 2013;Reichstein et al., 2013;Yu et al., 2016). Many results showed that the decreased precipitation and increased temperature under climate change scenarios will decrease these ecosystems' carbon sinks ( Chen et al., 2013;Ciais et al., 2005;Knapp et al., 2002;Weltzin et al., 2003;Wu et al., 2011), although a high degree of spatio-temporal heterogeneity exists, with marked influences from the topography, soil, vegetation and environmental factors in forest ecosystems ( Baldocchi, 2008;Luyssaert et al., 2010;Luyssaert et al., 2008;Tagesson et al., 2016;Yu et al., 2014a;Yu et al., 2008). ...

An introduction to the Australian and New Zealand flux tower network – OzFlux

Biogeosciences Discussions

... Other precursors include e.g. limonene in Australian Eucalyptus forests (Suni et al., 2007) and isoprene (Guenther et al., 2006). The phase state of SOA depends on temperature and relative humidity (RH) (Zobrist et al., 2008 ) and has recently received more attention, since it determines the impact of SOA on cloud formation and therefore climate (Renbaum-Wolff et al., 2013 ). ...

Effect of Vegetation on Aerosol Formation in South-east Australia
  • Citing Chapter
  • January 2007

... Methods such as relaxed eddy accumulation , scalar fl uxes, inverse Lagrangian fl uxes, or surface renewal have begun to appear in the literature. Th ese are summarized in recent reviews by Denmead et al. (2005), McInnes and Heilman (2005), Meyers and Baldocchi (2005), and Paw U et al. (2005). Zhang et al. (2006 combined continuous stable isotope measurements with micrometeorological measures to partition net CO 2 exchange into photosynthesis and respiration components. ...

Inverse Lagrangian Analysis of Heat, Vapor, and Gas Exchange in Plant Canopies
  • Citing Chapter
  • January 2005