Inversely Estimating the Vertical Profile of the Soil CO2 Production Rate in a Deciduous Broadleaf Forest Using a Particle Filtering Method
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{"title"=>"Inversely estimating the vertical profile of the soil CO2 production rate in a deciduous broadleaf forest using a particle filtering method", "type"=>"journal", "authors"=>[{"first_name"=>"Gen", "last_name"=>"Sakurai", "scopus_author_id"=>"53364173600"}, {"first_name"=>"Seiichiro", "last_name"=>"Yonemura", "scopus_author_id"=>"7007169142"}, {"first_name"=>"Ayaka W.", "last_name"=>"Kishimoto-Mo", "scopus_author_id"=>"55520414100"}, {"first_name"=>"Shohei", "last_name"=>"Murayama", "scopus_author_id"=>"7201616573"}, {"first_name"=>"Toshiyuki", "last_name"=>"Ohtsuka", "scopus_author_id"=>"35732285600"}, {"first_name"=>"Masayuki", "last_name"=>"Yokozawa", "scopus_author_id"=>"56158633200"}], "year"=>2015, "source"=>"PLoS ONE", "identifiers"=>{"issn"=>"19326203", "scopus"=>"2-s2.0-84925672888", "pui"=>"603270715", "doi"=>"10.1371/journal.pone.0119001", "sgr"=>"84925672888", "pmid"=>"25793387"}, "id"=>"ea873874-52ea-3c60-935d-0e81a0fa398f", "abstract"=>"Carbon dioxide (CO2) efflux from the soil surface, which is a major source of CO2 from terrestrial ecosystems, represents the total CO2 production at all soil depths. Although many studies have estimated the vertical profile of the CO2 production rate, one of the difficulties in estimating the vertical profile is measuring diffusion coefficients of CO2 at all soil depths in a nondestructive manner. In this study, we estimated the temporal variation in the vertical profile of the CO2 production rate using a data assimilation method, the particle filtering method, in which the diffusion coefficients of CO2 were simultaneously estimated. The CO2 concentrations at several soil depths and CO2 efflux from the soil surface (only during the snow-free period) were measured at two points in a broadleaf forest in Japan, and the data were assimilated into a simple model including a diffusion equation. We found that there were large variations in the pattern of the vertical profile of the CO2 production rate between experiment sites: the peak CO2 production rate was at soil depths around 10 cm during the snow-free period at one site, but the peak was at the soil surface at the other site. Using this method to estimate the CO2 production rate during snow-cover periods allowed us to estimate CO2 efflux during that period as well. We estimated that the CO2 efflux during the snow-cover period (about half the year) accounted for around 13% of the annual CO2 efflux at this site. Although the method proposed in this study does not ensure the validity of the estimated diffusion coefficients and CO2 production rates, the method enables us to more closely approach the \"actual\" values by decreasing the variance of the posterior distribution of the values.", "link"=>"http://www.mendeley.com/research/inversely-estimating-vertical-profile-soil-co2-production-rate-deciduous-broadleaf-forest-using-part", "reader_count"=>15, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>1, "Student > Doctoral Student"=>3, "Researcher"=>3, "Student > Ph. D. Student"=>2, "Other"=>1, "Student > Master"=>2, "Student > Bachelor"=>2, "Professor"=>1}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>1, "Student > Doctoral Student"=>3, "Researcher"=>3, "Student > Ph. D. Student"=>2, "Other"=>1, "Student > Master"=>2, "Student > Bachelor"=>2, "Professor"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>1, "Engineering"=>1, "Environmental Science"=>4, "Agricultural and Biological Sciences"=>8, "Earth and Planetary Sciences"=>1}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>1}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>8}, "Unspecified"=>{"Unspecified"=>1}, "Environmental Science"=>{"Environmental Science"=>4}}, "reader_count_by_country"=>{"Hungary"=>1}, "group_count"=>2}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1963994", "https://ndownloader.figshare.com/files/1963995", "https://ndownloader.figshare.com/files/1963996"], "description"=>"<div><p>Carbon dioxide (CO<sub>2</sub>) efflux from the soil surface, which is a major source of CO<sub>2</sub> from terrestrial ecosystems, represents the total CO<sub>2</sub> production at all soil depths. Although many studies have estimated the vertical profile of the CO<sub>2</sub> production rate, one of the difficulties in estimating the vertical profile is measuring diffusion coefficients of CO<sub>2</sub> at all soil depths in a nondestructive manner. In this study, we estimated the temporal variation in the vertical profile of the CO<sub>2</sub> production rate using a data assimilation method, the particle filtering method, in which the diffusion coefficients of CO<sub>2</sub> were simultaneously estimated. The CO<sub>2</sub> concentrations at several soil depths and CO<sub>2</sub> efflux from the soil surface (only during the snow-free period) were measured at two points in a broadleaf forest in Japan, and the data were assimilated into a simple model including a diffusion equation. We found that there were large variations in the pattern of the vertical profile of the CO<sub>2</sub> production rate between experiment sites: the peak CO<sub>2</sub> production rate was at soil depths around 10 cm during the snow-free period at one site, but the peak was at the soil surface at the other site. Using this method to estimate the CO<sub>2</sub> production rate during snow-cover periods allowed us to estimate CO<sub>2</sub> efflux during that period as well. We estimated that the CO<sub>2</sub> efflux during the snow-cover period (about half the year) accounted for around 13% of the annual CO<sub>2</sub> efflux at this site. Although the method proposed in this study does not ensure the validity of the estimated diffusion coefficients and CO<sub>2</sub> production rates, the method enables us to more closely approach the “actual” values by decreasing the variance of the posterior distribution of the values.</p></div>", "links"=>[], "tags"=>["CO 2 production rate", "Soil CO 2 Production Rate", "soil surface", "data assimilation method", "Deciduous Broadleaf Forest", "soil depths", "CO 2", "diffusion coefficients", "CO 2 production rates", "CO 2 production", "CO 2 concentrations", "peak CO 2 production rate", "Particle Filtering Method Carbon dioxide", "estimate CO 2 efflux", "CO 2 efflux"], "article_id"=>1345281, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Gen Sakurai", "Seiichiro Yonemura", "Ayaka W. Kishimoto-Mo", "Shohei Murayama", "Toshiyuki Ohtsuka", "Masayuki Yokozawa"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0119001.s001", "https://dx.doi.org/10.1371/journal.pone.0119001.s002", "https://dx.doi.org/10.1371/journal.pone.0119001.s003"], "stats"=>{"downloads"=>3, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Inversely_Estimating_the_Vertical_Profile_of_the_Soil_CO_2_Production_Rate_in_a_Deciduous_Broadleaf_Forest_Using_a_Particle_Filtering_Method/1345281", "title"=>"Inversely Estimating the Vertical Profile of the Soil CO<sub>2</sub> Production Rate in a Deciduous Broadleaf Forest Using a Particle Filtering Method", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2015-03-20 03:22:55"}
  • {"files"=>["https://ndownloader.figshare.com/files/1963981"], "description"=>"<p>The red lines and black lines show observed and estimated CO<sub>2</sub> concentrations, respectively, at 0, 5, 10, 20, and 50 cm soil depths from 2005 to 2007 at point A. The estimated values were the average of 10,000 particles for each time step.</p>", "links"=>[], "tags"=>["CO 2 production rate", "Soil CO 2 Production Rate", "soil surface", "data assimilation method", "Deciduous Broadleaf Forest", "soil depths", "CO 2", "diffusion coefficients", "CO 2 production rates", "CO 2 production", "CO 2 concentrations", "peak CO 2 production rate", "Particle Filtering Method Carbon dioxide", "estimate CO 2 efflux", "CO 2 efflux"], "article_id"=>1345268, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Gen Sakurai", "Seiichiro Yonemura", "Ayaka W. Kishimoto-Mo", "Shohei Murayama", "Toshiyuki Ohtsuka", "Masayuki Yokozawa"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0119001.g001", "stats"=>{"downloads"=>2, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Observed_and_estimated_CO_2_concentration_at_5_depths_at_point_A_/1345268", "title"=>"Observed and estimated CO<sub>2</sub> concentration at 5 depths at point A.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-03-20 03:22:55"}
  • {"files"=>["https://ndownloader.figshare.com/files/1963983"], "description"=>"<p>The top, middle, and bottom plots show observed air temperature at 10 m above the soil surface (°C; top), observed snow depth (cm; middle), and estimated CO<sub>2</sub> production rates (mol m<sup>−3</sup> day<sup>−1</sup>; bottom) at point A, respectively. The CO<sub>2</sub> production rates (described by a natural logarithmic expression) are illustrated by the color gradient. Blue shaded areas indicate the period when CO<sub>2</sub> efflux from the soil surface was measured.</p>", "links"=>[], "tags"=>["CO 2 production rate", "Soil CO 2 Production Rate", "soil surface", "data assimilation method", "Deciduous Broadleaf Forest", "soil depths", "CO 2", "diffusion coefficients", "CO 2 production rates", "CO 2 production", "CO 2 concentrations", "peak CO 2 production rate", "Particle Filtering Method Carbon dioxide", "estimate CO 2 efflux", "CO 2 efflux"], "article_id"=>1345270, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Gen Sakurai", "Seiichiro Yonemura", "Ayaka W. Kishimoto-Mo", "Shohei Murayama", "Toshiyuki Ohtsuka", "Masayuki Yokozawa"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0119001.g002", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Observed_air_temperature_snow_depth_and_estimated_CO_2_production_rates_at_point_A_/1345270", "title"=>"Observed air temperature, snow depth, and estimated CO<sub>2</sub> production rates at point A.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-03-20 03:22:55"}
  • {"files"=>["https://ndownloader.figshare.com/files/1963987"], "description"=>"<p>The CO<sub>2</sub> production rates (described by a natural logarithmic expression) are illustrated by the color gradient. Blue shaded areas indicate the period when CO<sub>2</sub> efflux from the soil surface was measured.</p>", "links"=>[], "tags"=>["CO 2 production rate", "Soil CO 2 Production Rate", "soil surface", "data assimilation method", "Deciduous Broadleaf Forest", "soil depths", "CO 2", "diffusion coefficients", "CO 2 production rates", "CO 2 production", "CO 2 concentrations", "peak CO 2 production rate", "Particle Filtering Method Carbon dioxide", "estimate CO 2 efflux", "CO 2 efflux"], "article_id"=>1345274, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Gen Sakurai", "Seiichiro Yonemura", "Ayaka W. Kishimoto-Mo", "Shohei Murayama", "Toshiyuki Ohtsuka", "Masayuki Yokozawa"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0119001.g003", "stats"=>{"downloads"=>1, "page_views"=>14, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Estimated_CO_2_production_rates_mol_m_8211_3_day_8211_1_bottom_at_point_B_/1345274", "title"=>"Estimated CO<sub>2</sub> production rates (mol m<sup>–3</sup> day<sup>–1</sup>; bottom) at point B.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-03-20 03:22:55"}
  • {"files"=>["https://ndownloader.figshare.com/files/1963991"], "description"=>"<p>The red and black lines (top) show observed and estimated CO<sub>2</sub> effluxes (mol m<sup>–2</sup> day<sup>–1</sup>) from the soil surface, respectively. The shaded area indicates the 95% confidence interval. The bottom plot shows estimated CO<sub>2</sub> concentration (mol m<sup>–3</sup>; bottom) at point A. The estimated values are the average of 10,000 particles for each time step. The CO<sub>2</sub> concentrations are illustrated by the color gradient.</p>", "links"=>[], "tags"=>["CO 2 production rate", "Soil CO 2 Production Rate", "soil surface", "data assimilation method", "Deciduous Broadleaf Forest", "soil depths", "CO 2", "diffusion coefficients", "CO 2 production rates", "CO 2 production", "CO 2 concentrations", "peak CO 2 production rate", "Particle Filtering Method Carbon dioxide", "estimate CO 2 efflux", "CO 2 efflux"], "article_id"=>1345278, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Gen Sakurai", "Seiichiro Yonemura", "Ayaka W. Kishimoto-Mo", "Shohei Murayama", "Toshiyuki Ohtsuka", "Masayuki Yokozawa"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0119001.g004", "stats"=>{"downloads"=>4, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Observed_and_estimated_CO_2_effluxes_and_estimated_CO_2_concentration_at_point_A_/1345278", "title"=>"Observed and estimated CO<sub>2</sub> effluxes and estimated CO<sub>2</sub> concentration at point A.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-03-20 03:22:55"}
  • {"files"=>["https://ndownloader.figshare.com/files/1963992"], "description"=>"<p>In this figure, the CO<sub>2</sub> effluxes were estimated only using the data about CO<sub>2</sub> concentration in the soil. The shaded area indicates the 95% confidence interval.</p>", "links"=>[], "tags"=>["CO 2 production rate", "Soil CO 2 Production Rate", "soil surface", "data assimilation method", "Deciduous Broadleaf Forest", "soil depths", "CO 2", "diffusion coefficients", "CO 2 production rates", "CO 2 production", "CO 2 concentrations", "peak CO 2 production rate", "Particle Filtering Method Carbon dioxide", "estimate CO 2 efflux", "CO 2 efflux"], "article_id"=>1345279, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Gen Sakurai", "Seiichiro Yonemura", "Ayaka W. Kishimoto-Mo", "Shohei Murayama", "Toshiyuki Ohtsuka", "Masayuki Yokozawa"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0119001.g005", "stats"=>{"downloads"=>6, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Observed_red_and_estimated_black_CO_2_mol_m_8722_2_day_8722_1_from_the_soil_surface_for_point_A_a_and_point_B_b_/1345279", "title"=>"Observed (red) and estimated (black) CO<sub>2</sub> (mol m<sup>−2</sup> day<sup>−1</sup>) from the soil surface for point A (a) and point B (b).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-03-20 03:22:55"}

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Relative Metric

{"start_date"=>"2015-01-01T00:00:00Z", "end_date"=>"2015-12-31T00:00:00Z", "subject_areas"=>[]}
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