R code to reproduce analyses of aboveground carbon stocks and associated plant diversity in fragmented and continuous forest sites in Sabah, Malaysian Borneo, 2017
https://doi.org/10.5285/9ff5cdca-b504-4994-8b07-5912ee6aff47
Cite this model code as:
Fleiss, S. (2020). R code to reproduce analyses of aboveground carbon stocks and associated plant diversity in fragmented and continuous forest sites in Sabah, Malaysian Borneo, 2017. NERC Environmental Information Data Centre. https://doi.org/10.5285/9ff5cdca-b504-4994-8b07-5912ee6aff47
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This model code is available under the terms of the Open Government Licence 
The R code "carbon_stock_calculations.R" estimates aboveground carbon stocks for 49 plots in 14 fragmented forest sites and 4 continuous forest sites in Sabah, Malaysian Borneo, using the vegetation dataset 'Vegetation and habitat data for fragmented and continuous forest sites in Sabah, Malaysian Borneo, 2017'. The 14 fragmented sites were all in Roundtable on Sustainable Palm Oil-certified oil palm plantations, and are hereafter termed 'conservation set-asides'. The code also estimates the aboveground carbon stocks of oil palm plantations for comparison.
The R code "analyses_and_figures.R" runs analyses and makes figures of aboveground carbon stocks and associated plant diversity for these sites, as presented in Fleiss et al. (2020)
This R code was created in order to investigate the following: (1) to establish the value of conservation set-asides for increasing oil palm plantation aboveground carbon stocks; (2) to establish whether set-asides with high aboveground carbon stocks can have co-benefits for plant diversity; (3) to compare the carbon stocks and vegetation structure of conservation set-asides with that of continuous forest, including assessing tree regeneration potential by examining variation in seedling density; (4) to examine potential drivers of variation in aboveground carbon stocks of conservation set-asides (topography, degree of fragmentation, and soil parameters); (5) to scale-up the estimates of the aboveground carbon stocks of conservation set-asides, in order to predict average carbon stocks of oil palm plantations with and without set-asides, and for varying coverage of set-asides across the plantation.
The R code "analyses_and_figures.R" runs analyses and makes figures of aboveground carbon stocks and associated plant diversity for these sites, as presented in Fleiss et al. (2020)
This R code was created in order to investigate the following: (1) to establish the value of conservation set-asides for increasing oil palm plantation aboveground carbon stocks; (2) to establish whether set-asides with high aboveground carbon stocks can have co-benefits for plant diversity; (3) to compare the carbon stocks and vegetation structure of conservation set-asides with that of continuous forest, including assessing tree regeneration potential by examining variation in seedling density; (4) to examine potential drivers of variation in aboveground carbon stocks of conservation set-asides (topography, degree of fragmentation, and soil parameters); (5) to scale-up the estimates of the aboveground carbon stocks of conservation set-asides, in order to predict average carbon stocks of oil palm plantations with and without set-asides, and for varying coverage of set-asides across the plantation.
Publication date: 2020-06-15
View numbers valid from 01 June 2023 Download numbers valid from 20 June 2024 (information prior to this was not collected)
Format
Comma-separated values (CSV)
Spatial information
Study area
Temporal information
Temporal extent
2017-07-21 to 2017-10-28
Provenance & quality
The data used in these analyses were collected in July - October 2017. The 14 fragmented sites were all in Roundtable on Sustainable Palm Oil-certified oil palm plantations; and they varied from isolated forest fragments to sites connected to forest reserves outside the oil palm plantation. The four continuous forest sites were located in Danum Valley and Malua Forest Reserves, and include both primary and logged forest sites.
At each site, vegetation was surveyed in 2-3 circular plots spaced 100 m apart along a transect (the smallest fragmented sites had only 2 plots and all other sites had 3). In each plot, living trees and palms, saplings, seedlings, deadwood, and lianas on trees were surveyed in a nested plot design. All living trees, saplings and seedlings were identified to genus, and to species where possible. Field data were collected in collaboration with experienced local botanists. In addition, eight soil parameters were measured from topsoil samples in each plot. Metrics relating to the degree of forest fragmentation in the surrounding landscape were calculated for each plot, using drone (UAV) imagery from an oil palm company. Note that additional measurements (e.g. ground vegetation) are available in the full dataset, which were not included in these analyses (see https://doi.org/10.5285/c67b06b7-c3f6-49a3-baf2-9fc3a72cb98a ).
At each site, vegetation was surveyed in 2-3 circular plots spaced 100 m apart along a transect (the smallest fragmented sites had only 2 plots and all other sites had 3). In each plot, living trees and palms, saplings, seedlings, deadwood, and lianas on trees were surveyed in a nested plot design. All living trees, saplings and seedlings were identified to genus, and to species where possible. Field data were collected in collaboration with experienced local botanists. In addition, eight soil parameters were measured from topsoil samples in each plot. Metrics relating to the degree of forest fragmentation in the surrounding landscape were calculated for each plot, using drone (UAV) imagery from an oil palm company. Note that additional measurements (e.g. ground vegetation) are available in the full dataset, which were not included in these analyses (see https://doi.org/10.5285/c67b06b7-c3f6-49a3-baf2-9fc3a72cb98a ).
Licensing and constraints
This model code is available under the terms of the Open Government Licence
Cite this model code as:
Fleiss, S. (2020). R code to reproduce analyses of aboveground carbon stocks and associated plant diversity in fragmented and continuous forest sites in Sabah, Malaysian Borneo, 2017. NERC Environmental Information Data Centre. https://doi.org/10.5285/9ff5cdca-b504-4994-8b07-5912ee6aff47
Related
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Citations
Fleiss, S., Waddell, E. H., Bala Ola, B., Banin, L. F., Benedick, S., Bin Sailim, A., Chapman, D. S., Jelling, A., King, H., McClean, C. J., Yeong, K. L. & Hill, J. K. (2020). Conservation set-asides improve carbon storage and support associated plant diversity in certified sustainable oil palm plantations. Biological Conservation. https://doi.org/10.1016/j.biocon.2020.108631
Correspondence/contact details
Author
https://orcid.org/0000-0001-6298-236X Other contacts
Rights holder
University of York
Custodian
NERC EDS Environmental Information Data Centre
info@eidc.ac.uk
Publisher
NERC Environmental Information Data Centre
info@eidc.ac.uk
Additional metadata
Keywords
agricultural ecology , Agricultural landscapes , agriculture , Agriculture , biodiversity , Biodiversity , Borneo , Carbon storage , Climate and climate change , climate change mitigation , Conservation set-aside , Ecosystem services , environmental impact of agriculture , Flora , flora (biology) , Forest fragmentation , Land use , Oil palm , Planta , Plant biodiversity , Roundtable on Sustainable Palm Oil , Soil , Sustainable agriculture , tropical forest , Tropical rainforest
Last updated
21 March 2025 13:34