DOI: 10.5281/zenodo.13985420
title: Sabah Biodiversity Experiment Compiled Datasets 2002 to 2024

description: Description

SummaryThis dataset contains the data collected from a number of experiments that were conducted within the Sabah Biodiversity Experiment (SBE) project site located within the Malua Forest Reserve in Sabah, Malaysia between 2002 to 2024. The data collected are measurements taken from 16 species of Dipterocarpaceae seedlings that were planted within the project site. These measurements largely comprise of the diameters at base and breast height of the main stems (in centimeters), the height of the main stem (in centimeters), densiometer readings to determine canopy openness, and the level of herbivory experienced by seedlings.Data AccessThis data is only accessible via a data request to Michael O'Brien (mikey.j.obrien@gmail.com) and Andy Hector (andrew.hector@biology.ox.ac.uk). The data collectors are expected to be included as authors on any articles that use this dataset.Version 4.01. This version has gone through the SAFE data validation software developed by both Dr David Orme and Dr Jacob Cook from the Imperial College London.

2. We have updated the dataset to include row numbers.

3. We have changed "NA_NA" to "NA" under the "genus_species" column. We find this to be more intuitive for users. 

4. We have included the data collected from the 3rd census for this version.

5. We have addressed 1,033 missing tag numbers and 116 misidentified seedlings.

6. We have also made 35 new changes to tag numbers and scientific names of species based on suggestions from SEARPP research scientists.

Notes for users1. Each unique combination of plot number, line number, planting point, and old/new status ("O.N") is a unique seedling.

2. There are about 600 seedlings with no scientific name within the dataset. All of these are seedlings that are planted right before the 2nd census, but did not survive until their measurement during the 2nd census. Therefore, these are left as unknown species.

3. The "data_origin" column refers to the studies conducted within the SBE project site which can be easily used by users for subsetting the dataframe for a specific study. These include the tree census or full measurement studies (1st,2nd and 3rd census/sample measurements; refer to Hector et al. 2011), intensive plot measurements (10 sample measurements; refer to Philipson et al. 2014), and climber cutting sample measurements (14 sample measurements; refer to O'Brien et al. 2019).

4. We also want to mention that there are 475 seedlings with no survey dates in the 2nd census.

5. All diameters measured are to the nearest millimeters (mm). We apologize for the wrong units (i.e., cm) written in the dataset.References1. Hector A, Philipson CD, Saner P, Chamagne J, Dzulkifli D et al. (2011). The Sabah Biodiversity Experiment: a long-term test of the role of tree diversity in restoring tropical forest structure and functioning. Philosophical Transactions of the Royal Society B 366, 3303-3315.

2. Philipson CD, Dent DH, O'Brien MJ, Chamagne J, Dzulkifli D et al. (2014). A trait-based trade-off between growth and mortality: evidence from 15 tropical tree species using size-specific relative growth rates. Ecology and Evolution 4, 3675-3688.

3. O'Brien MJ, Philipson CD, Reynolds G, Dzulkifli D, Snaddon JL et al. (2019). Positive effects of liana cutting on seedlings are reduced during El Niño-induced drought. Journal of Applied Ecology 4, 891-901.ContactFor more information, please contact Dr Michael O'Brien (mikey.j.obrien@gmail.com)

Funding

These data were collected as part of research funded by:



Natural Environment Research Council (NERC) (Standard grant )

Swiss National Science Foundation (SNSS) (Standard grant , 31003A-125461/1 , http://www.projectdb.snf.ch/WebForms/Frameset.aspx )

The Darwin Initiative (Standard grant , DEFRA Darwin Initiative grant 16011 , http://darwin.defra.gov.uk/project/16011/?p=100&ob=dt&od=n )

University of Zurich (Standard grant )


 

This dataset is released under the CC-BY 4.0 licence, requiring that you cite the dataset in any outputs, but has the additional condition that you acknowledge the contribution of these funders in any outputs.

Permits

These data were collected under permit from the following authorities:



Sabah Biodiversity Centre (SaBC) ( Research licence JKM/MBS.1000-2/2 JLD. 18 (184))


 

Files

This dataset consists of 3 files: SBE_compiled_data_2002-2024.xlsx, MaluaPlantingDesign.docx, MeasurementProtocol.docx

SBE_compiled_data_2002-2024.xlsx

This file contains dataset metadata and 1 data tables:

Sabah Biodiversity Experiment Compiled Datasets



Worksheet: SBE_compiled_data

Description: This dataset contains the data collected from a number of experiments that were conducted within the Sabah Biodiversity Experiment (SBE) project site located within the Malua Forest Reserve in Sabah, Malaysia between 2002 to 2020. The data collected are measurements taken from 16 species of Dipterocarpaceae seedlings that were planted within the project site. These measurements largely comprise of the diameters at base and breast height of the main stems (in millimeters), the height of the main stem (in centimeters), densiometer readings to determine canopy openness, and the level of herbivory experienced by seedlings.

Number of fields: 26

Number of data rows: 285000



pl: Plot number (type: replicate)

li: Line number within each plot (type: replicate)

po: Planting point on each line (type: replicate)

location: Location names used to validate against the SEARRP spatial gazetteer (type: location)

plantingdate: Date of planting (type: date)

surveydate: Date of survey (type: date)

genus: Genus of the seedling being measured (type: categorical)

species: Species of the seedling being measured (type: categorical)

genus_species: The genus and species of seedlings combined (type: taxa)

SpeciesMix: Type of species mixture (type: categorical)

survival: Did the seedling survive when measurements were being taken? (type: categorical)

O.N: Was the seedling planted before the 1st or 2nd census? (O = Seedlings planted before 1st Census, N = Seedlings planted before 2nd census and after 1st census) (type: categorical)

data_origin: The experiment or study that the measurement originated from (type: categorical)

sample: The ith sample being measured for a given study (type: replicate)

insectdamage: Level of leaf damage inflicted by herbivorous insects (type: categorical)

mammaldamage: Level of leaf damage inflicted by herbivorous mammals (type: categorical)

treefalldamage: Type of shoot damage inflicted by falling trees or branches (type: categorical)

heightapex: Measure to the tip of leader shoot (to nearest cm) (type: numeric trait)

diam1: Measure diameter of stem base at 5cm from the ground (in mm) (type: numeric trait)

diam2: Same as Diam 1 but at right-angle to first measurement (in mm) (type: numeric trait)

dbh1: Measure diameter of stem at 130cm from the ground (in mm) (type: numeric trait)

dbh2: As with DBH 1 but at right-angle to first measurement (in mm) (type: numeric trait)

DN: Hemispherical densiometer measurements taken facing North (type: numeric)

DE: Hemispherical densiometer measurement taken facing East (type: numeric)

DS: Hemispherical densiometer measurement taken facing South (type: numeric)

DW: Hemispherical densiometer measurement taken facing West (type: numeric)



MaluaPlantingDesign.docx

File containing the information on planting designs within the SBE project site

MeasurementProtocol.docx

File containing information on the SBE methodological and measurement protocols

Extents



Date range: 2002-01-27 to 2024-05-28

Latitudinal extent: 5.07° to 5.1°

Longitudinal extent: 117.64° to 117.67°


Taxonomic coverage

This dataset contains data associated with taxa and these have been validated against appropriate taxonomic authority databases.

GBIF taxa details

The following taxa were validated against the GBIF backbone dataset (version 2023-08-28). If a dataset uses a synonym, the accepted usage is shown followed by the dataset usage in brackets. Taxa that cannot be validated, including new species and other unknown taxa, morphospecies, functional groups and taxonomic levels not used in the GBIF backbone are shown in square brackets.

 - Plantae -  - Tracheophyta -  -  - Magnoliopsida -  -  -  - Malvales -  -  -  -  - Dipterocarpaceae -  -  -  -  -  - Dipterocarpus -  -  -  -  -  -  - Dipterocarpus conformis -  -  -  -  -  - Dryobalanops -  -  -  -  -  -  - Dryobalanops lanceolata -  -  -  -  -  - Hopea -  -  -  -  -  -  - Hopea ferruginea -  -  -  -  -  -  - Hopea sangal -  -  -  -  -  - Parashorea -  -  -  -  -  -  - Parashorea malaanonan -  -  -  -  -  -  - Parashorea warburgii (as synonym: Parashorea tomentella) -  -  -  -  -  - Shorea -  -  -  -  -  -  - Shorea argentifolia -  -  -  -  -  -  - Shorea beccariana -  -  -  -  -  -  - Shorea faguetiana -  -  -  -  -  -  - Shorea gibbosa -  -  -  -  -  -  - Shorea johorensis -  -  -  -  -  -  - Shorea leprosula -  -  -  -  -  -  - Shorea macrophylla -  -  -  -  -  -  - Shorea macroptera -  -  -  -  -  -  - Shorea ovalis -  -  -  -  -  -  - Shorea parvifolia