Can the carbon storage function of a degraded mountain wet meadow be restored?
Data files
Jul 18, 2026 version files 9.52 MB
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Aboveground_Biomass_Clipping_2018_2019.csv
1.04 KB
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AVG_Hourly_2017_block1.csv
394.97 KB
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AVG_Hourly_2017_block2.csv
396.89 KB
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AVG_Hourly_2017_block3.csv
396.52 KB
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AVG_Hourly_2017_block4.csv
394.78 KB
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AVG_Hourly_2017_block5.csv
395.46 KB
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AVG_Hourly_2018_block1.csv
400.94 KB
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AVG_Hourly_2018_block2.csv
400.24 KB
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AVG_Hourly_2018_block3.csv
400.44 KB
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AVG_Hourly_2018_block4.csv
400.09 KB
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AVG_Hourly_2018_block5.csv
401.91 KB
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AVG_Hourly_2019_block1.csv
396.01 KB
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AVG_Hourly_2019_block2.csv
397.77 KB
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AVG_Hourly_2019_block3.csv
396.78 KB
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AVG_Hourly_2019_block4.csv
395.22 KB
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AVG_Hourly_2019_block5.csv
397.78 KB
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code.R
15.67 KB
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ER_Model.csv
194.94 KB
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GasPlot_Vegetation_PercentCover.csv
3.37 KB
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GasPlotCoordinates.csv
2.98 KB
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GPP_Model.csv
189.31 KB
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model_hourly.r
5.34 KB
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NEE.csv
147.83 KB
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README.md
19.04 KB
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RootBiomass.csv
5.38 KB
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Soil_Cores.csv
10.86 KB
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SoilTemp.csv
32 KB
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tuol_biomass_Carex_plantings.csv
4.26 KB
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Tuolumne_longterm_hydrograph_supplimental_fig7.csv
1.71 MB
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VWC.csv
43.48 KB
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WaterTableDepth.csv
1.17 MB
Abstract
Sierra Nevada meadows experienced intense livestock grazing in the 19th Century, resulting in a shift from deep-rooted highly productive perennial clonal sedges to short-lived and shallow-rooted plants. The current meadow vegetation contains >20% bare ground and <10% cover of highly-productive clonal sedges and rushes. We hypothesized that the existing vegetation was insufficiently productive to have formed or to maintain the 2000-year-old carbon-rich meadow soils. We established a multiyear experiment (2016-2019) to determine if planting Carex scopulorum seedlings into Tuolumne Meadow, in Yosemite National Park, could reverse the impacts of legacy grazing and restore the soil carbon storage function. Planted C. scopulorum had a high survival rate over four years (75.2%) with slow but significantly-increasing belowground biomass production (1.34 g plant-1 yr -1). Field-measured and gap-fill modeled carbon fluxes indicate an annual average ecosystem respiration (ER) of 0.96 kg C m-2 yr-1 and gross primary productivity (GPP) of 0.59 kg C m-2 yr-1, resulting in a net ecosystem exchange (NEE) loss of 0.37 kg C m-2 yr-1. This represents an annual loss of 1.3% of the 29.4 kg C m-2 of soil organic carbon. The transplanted sedges would need to increase meadow GPP by 63%, or ER decreases by 39%, to achieve a net annual storage of soil carbon to reestablish the processes that formed the organic rich soil. Active planting to increase the currently sparse high-productivity plant species is a good option to boost GPP, but climate change could accelerate ER and increase net ecosystem carbon loss.
https://doi.org/10.5061/dryad.ffbg79d8r
Description of the data and file structure
This research documents the effects of legacy grazing on a mountain wet meadow (Tuolumne Meadows) in Yosemite National Park, California, USA. The data files include field and laboratory measurements and R code to run an ecosystem carbon cycling model to calculate hourly estimates of ecosystem respiration, gross primary production, and net ecosystem exchange. Model data files included model input data to build the model and hourly data to run the model for three years.
Files and variables
File: Aboveground_Biomass_Clipping_2018_2019.csv
Description: Aboveground vegetation dried biomass collected adjacent to each gas flux plot
Variables
| SiteName | Site identifier |
|---|---|
| Plot | Gas flux plot |
| 2018-mass-grams-meter2 | 2018 vegetation biomass (g/m2) |
| 2019-mass-grams-meter2 | 2019 vegetation biomass (g/m2) |
File: GasPlotCoordinates.csv
Description: Latitute, longitute, and elevation of gas flux plots
Variables
| SiteName | Site identifier |
|---|---|
| Block | Experimental block |
| Fence/No fence | Fencing treatment |
| Transplants per m2 | Vegetation planting density (plants/m2) |
| Latitude_(decimal degrees) | Latitude (decimal degrees) |
| Longitude_(decimal degrees) | Longitude (decimal degrees) |
| Elevation_(m) | Elevation (m) |
| Plot code | Gas flux plot |
File: GasPlot_Vegetation_PercentCover.csv
Description: Vegetation percent cover species data for each gas flux plot
Variables
| SiteName | Site identifier |
|---|---|
| Species | Vegetation species |
| Columns B-BI: gas flux plot number | Vegetation cover (%) |
File: RootBiomass.csv
Description: Belowground root biomass sampled adjacent to each gas flux plot
Variables
| SiteName | Site identifier |
|---|---|
| plot | gas flux plot |
| block | Experimental block |
| top_of_core_(cm) | Distance from soil surface to top of core (cm) |
| bottom_of_core_(cm) | Distance from soil surface to bottom of core (cm) |
| Total_root_biomass_(g/m2) | Belowground root biomass (g/m2) |
File: Soil_Cores.csv
Description: Soil cores from each of the experimental blocks
Variables
| SiteName | Site identifier |
|---|---|
| Block | Experimental block |
| Top_of_1cm_horizon_(cm) | Distance from soil surface to top of core section (cm) |
| Bottom_of_1cm_horizon_(cm) | Distance from soil surface to bottom of core section (cm) |
| Bulk_Density_(g/cm3) | Soil bulk density (g/cm3) |
| Organic_matter_(%) | Soil organic matter (%) |
| %_C | Soil organic carbon (%) |
| carbon_Density_(Mg/ha) | Soil carbon density (mg/ha) |
File: SoilTemp.csv
Description: Daily soil temperature for each of the experimental blocks
Variables
| SiteName | Site identifier |
|---|---|
| Date | Date (MM-DD-YYYY HH:mm) |
| soil_temp_min_c | Daily soil temperature (min) degree celsius |
| soil_temp_avg_c | Daily soil temperature (avg) degree celsius |
| soil_temp_max_c | Daily soil temperature (max) degree celsius |
File: tuol_biomass_Carex_plantings.csv
Description: Aboveground and belowground biomass of Carex scopulorum excavated in years 1 (initial), 2, 3, and 4 for Carex planted in 2016 and years 1 (initial) and 2 for Carex planted in 2018.
Variables
| SiteName | Site identifier |
|---|---|
| year_2016_planting_aboveground | Aboveground 2016 Carex plantings sampling year (initial-year-4) |
| year_2016_planting_aboveground_biomass_g | Aboveground biomass (g) 2016 planting |
| year_2016_planting_belowground | Belowground 2016 Carex plantings sampling year (initial-year-4) |
| year_2016_planting_belowground_biomass_g | Belowground biomass (g) 2016 planting |
| year_2018_planting_aboveground | Aboveground 2018 Carex plantings sampling year (initial-year-2) |
| year_2018_planting_aboveground_biomass_g | Aboveground biomass (g) 2018 planting |
| year_2018_planting_belowground | Belowground 2018 Carex plantings sampling year (initial-year-2) |
| year_2018_planting_belowground_biomass_g | Belowground biomass (g) 2018 planting |
File: Tuolumne_longterm_hydrograph_supplimental_fig7.csv
Description: Long-term water table hydrograph from Tuolumne meadow constructed from hourly pressure transducer data logger data with manual measurments to confirm pressure transducer accuracy
Variables
| SiteName | Site identifier |
|---|---|
| data_pressure_transducer | Date of well pressure transducer reading |
| pressure_transducer_waterlevel_cm | Well pressure transducer water level relative to soil surface (cm) |
| date_handread_welldepth | Date of well hand read measurement |
| handread_waterlevel_cm | Well hand read water level relative to soil surface (cm) |
File: VWC.csv
Description: Volumetric water content measurements taken adjacent to each gas flux plot
Variables
| SiteName | Site identifier |
|---|---|
| date | Date (MM-DD-YYYY) |
| day | Day of year |
| year | Year |
| month | Month of year |
| plot | Gas flux plot number |
| block | Experimental block |
| trt | Carex Planting treatment C-control, H-high density (4 plants/m2), L-low density (2 plants/m2) |
| planted | Plots with Carex planting N-no, Y-yes |
| fence | Fencing treatment N-no, Y-yes |
| VWC_(cm3/cm3) | Volumetric water content (cm3/cm3) |
File: WaterTableDepth.csv
Description: Depth to water table in each of the five experimental blocks
Variables
| SiteName | Site identifier |
|---|---|
| date_gmt-07:00 | Date and time |
| block 1 (m) | Block 1 depth of water table relative to soil surface (m) |
| block 2 (m) | Block 2 depth of water table relative to soil surface (m) |
| block 3 (m) | Block 3 depth of water table relative to soil surface (m) |
| block 4 (m) | Block 4 depth of water table relative to soil surface (m) |
| block 5 (m) | Block 5 depth of water table relative to soil surface (m) |
Files:
AVG_Hourly_2017_block1.csv
AVG_Hourly_2017_block2.csv
AVG_Hourly_2017_block3.csv
AVG_Hourly_2017_block4.csv
AVG_Hourly_2017_block5.csv
AVG_Hourly_2018_block1.csv
AVG_Hourly_2018_block2.csv
AVG_Hourly_2018_block3.csv
AVG_Hourly_2018_block4.csv
AVG_Hourly_2018_block5.csv
AVG_Hourly_2019_block1.csv
AVG_Hourly_2019_block2.csv
AVG_Hourly_2019_block3.csv
AVG_Hourly_2019_block4.csv
AVG_Hourly_2019_block5.csv
Description: Hourly gas flux plot data averaged across each of the five experimental blocks for 2017-2019. These data files are used to create the hourly carbon flux calculations from the carbon flux model
Variables
| SiteName | Site identifier |
|---|---|
| id | row identification number |
| date | Day and time of year |
| CI | Chlorophyll index |
| temp | Soil temperature (degree celsius) |
| WT | Depth to water table relative to soil surface (m) |
| par | Photosynthetically Active Radiation (micromoles/m2/s) |
File: ER_Model.csv
Description: Input data for ecosystem respiraion model
Variables
| SiteName | Site identifier |
|---|---|
| Plot | Gas flux plot |
| Date | Date (MM-DD-YYYY) |
| day | Day of year |
| round | The gas sampling round for each year |
| Year | Year |
| month | month |
| hour | hour |
| Block | Experimental block |
| Treatment | Carex Planting treatment C-control, H-high density (4 plants/m2), L-low density (2 plants/m2), R-reference plots, fc-freezer core |
| Planted | Plots with Carex planting N-no, Y-yes, fc-freezer core |
| Fenced | Fencing treatment N-no, Y-yes, fc-freezer core |
| Hour.WT | Depth to water table relative to soil surface (m) |
| Hour.temp | Soil temperature (degree celsius) |
| CI | Chlorophyll index |
| er | Ecosystem respiration flux (gCO2/m2/hour) |
| newdate | Date and time |
| PlotNum | Plot number designation for model input |
| HourlyFile | Identifier to import water table, temperature, and chlorophyll data |
File: NEE.csv
Description: Input data for net ecosystem exchange model
Variables
| SiteName | Site identifier |
|---|---|
| Plot | Gas flux plot |
| Date | Date (MM-DD-YYYY) |
| day | Day of year |
| round | The gas sampling round for each year |
| Year | Year |
| month | month |
| hour | hour |
| Block | Experimental block |
| trt | Carex Planting treatment C-control, H-high density (4 plants/m2), L-low density (2 plants/m2), R-reference plots |
| planted | Plots with Carex planting N-no, Y-yes |
| fence | Fencing treatment N-no, Y-yes |
| newdate | Date and time |
| PlotNum | Plot number designation for model input |
| HourlyFile | Identifier to import water table, temperature, and chlorophyll data |
| NEE | Net ecosystem exchange flux (gCO2/m2/hour) |
File:GPP_Model.csv
Description: Input data for gross primary production model
Variables
| SiteName | Site identifier |
|---|---|
| Plot | Gas flux plot |
| Date | Date (MM-DD-YYYY) |
| day | Day of year |
| round | The gas sampling round for each year |
| Year | Year |
| month | month |
| hour | hour |
| Block | Experimental block |
| trt | Carex Planting treatment C-control, H-high density (4 plants/m2), L-low density (2 plants/m2), R-reference plots |
| planted | Plots with Carex planting N-no, Y-yes |
| fence | Fencing treatment N-no, Y-yes |
| Hour.WT | Depth to water table relative to soil surface (m) |
| Hour.temp | Soil temperature (degree celsius) |
| CI | Chlorophyll index |
| par | Photosynthetically Active Radiation (micromoles/m2/s) |
| GPP | gross primary production flux (gCO2/m2/hour) |
| newdate | Date and time |
| PlotNum | Plot number designation for model input |
| HourlyFile | Identifier to import water table, temperature, and chlorophyll data |
File:model_hourly.r
Description: R program for calculating hourly fluxes of ER, GPP, and NEE
File:code.R
Description: R program for calculating ER and GPP models of observed to predicted
