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102 results for “logged forest”
Plant biomass dynamics following logging, burning, and thinning in Watersheds 6 and 7, Andrews Experimental Forest, 1979 to 2021
Watersheds 6 (WS06) and 7 (WS07) at the HJ Andrews are part of a three-watershed study initiated in the 1970’s to examine the response of hydrology and forest vegetation to logging. In 1974, Watershed 6 was clearcut logged; Watershed 7 was shelterwood cut, leaving 75-100 overstory trees per hectare (comprising about 40% of the original basal area). A nearby watershed (WS08) serves as an unlogged control. In 1975, all of Watershed 6 and the portion of WS07 below the road were broadcast-burned. In 1976, both watersheds were planted with Douglas-fir seedlings. Natural regeneration of Douglas-fir and western hemlock also established. In 1984, the remnant overstory trees in WS07 were harvested, and in 2001 the young stand in WS07 was thinned to about 550 trees per hectare. The thinning was not planned but provides an interesting twist to the study. The watersheds are located along the northern boundary of the HJA off the 327 and 328 roads, at elevations ranging from 850 to 1,160 m. Initial vegetation measurements were taken in the summer of 2002 in watersheds 6 and 7 for the purpose of characterizing plant succession after thinning in a small, high-elevation watershed. Understory vegetation plots are remeasured at approximately 6 year intervals.
Legacies of Historical Clearcutting, Wind and Salvage Logging in Pisgah State Forest 2016
Disturbance events affect forest composition and structure across a range of spatial and temporal scales, and subsequent forest development may differ after natural, anthropogenic, or compound disturbances. Following large, natural disturbances, salvage logging is a common and often controversial management practice in many regions of the globe. Yet, while the short-term impacts of salvage logging have been studied in many systems, the long-term effects remain unclear. We capitalized on over eighty years of data following an old-growth Tsuga canadensis-Pinus strobus forest in southwestern New Hampshire, USA after the 1938 hurricane, which severely damaged forests across much of New England. To our knowledge, this study provides the longest evaluation of salvage logging impacts, and it highlights developmental trajectories for Tsuga canadensis-Pinus strobus forests under a variety of disturbance histories. Specifically, we examined development from an old-growth condition in 1930 through 2016 across three different disturbance histories: (1) clearcut logging prior to the 1938 hurricane with some subsequent damage by the hurricane (“logged”), (2) severe damage from the 1938 hurricane (“hurricane”), and (3) severe damage from the hurricane followed by salvage logging (“salvaged”). At each site, 2-4 0.05 ha plots were established, and DBH, species, and distance and direction from plot center were recorded for each tree over 10 cm DBH. Stumps and snags were also measured. From the site center, coarse woody material was measured along three 34-m transects using the line-intersect method. Finally, a 1-ha plot was established around the site center, within which all pit-and-mound structures and stumps were recorded as well as boles associated with these structures.
Forest disturbances in Europe mapped at high spatial detail and in near-real-time: Logging in protected Estonian forests
<p><strong>Data description</strong></p> <p>These datasets were generated for the Geostory "Forest disturbances in Europe mapped at high spatial detail and in near-real-time: Logging in protected Estonian forests" in the context of the Open Earth Monitor Cyberinfrastructure project.</p> <p>We used open source high-resolution Sentinel-1 satellite data to develop a wall-to-wall map of forest disturbances in the four-year period between the start of 2020 and end of 2023 in Estonia. First results are presented. The methodology is based on RADD-alerts developed for the pan-tropics (Reiche et al. 2021). Three years (2017-2019) of imagery was used as a historical period, and detections were generated for ~4 years (2020-2023). Winter images from November through March were not included as frozen conditions can introduce false detections. This will be addressed in the next version. Disclaimer: Disturbance maps have not been validated.</p> <p>Two additional layers are provided for visualization: a forest baseline layer (<em>forestcover</em>), masking out non-forest disturbance detections, was derived from Copernicus 10m 2018 forest cover density and GLAD 30m 2019 tree removal datasets, and a protected areas layer (<em>natura</em>), which displays the extent of Natura 2000 coverage in Estonia.</p> <p>'.SLD' files are provided for visualization (note: the <em>disturbance</em> .SLC file must be adjusted to contain appropriate time reference fields).</p> <p><strong>Naming Convention</strong></p> <p>To ensure consistency and ease of use across and within the projects, we follow the standard Open-Earth-Monitor file-naming convention. The convention works with 10 fields that describes important properties of the data. In this way users can search files, prepare data analysis etc, without needing to open files. For instance:</p> <ul> <li>disturbance_radd_c_10m_s_20200101_20200131_eu_epsg.3035_v20240222.tif</li> </ul> <p>with the following fields:</p> <ul> <li>Generic variable name: <strong>disturbance</strong></li> <li>Variable procedure combination i.e. method standard: <strong>radd</strong></li> <li>Position in the probability distribution / variable type: <strong>c</strong></li> <li>Spatial support: <strong>10m</strong></li> <li>Depth reference or depth interval e.g. below ("b"), above ("a") ground or at surface ("s"): <strong>s</strong></li> <li>Time reference begin time (YYYYMMDD): <strong>20200101</strong></li> <li>Time reference end time: <strong>20200131</strong></li> <li>Bounding box (2 letters max): <strong>eu </strong></li> <li>EPSG code: <strong>epsg.3035</strong></li> <li>Version code i.e. creation date: <strong>v20240222</strong></li> </ul> <p><strong>Source Data</strong></p> <p>Disturbance maps:</p> <p>Contains modified Copernicus Sentinel data [2017-2023] and Generated using European Union's EEA-10 Copernicus DEM; https://doi.org/10.5270/ESA-c5d3d65</p> <p>Forest baseline:</p> <p>Generated using European Union's Copernicus Land Monitoring Service information; https://doi.org/10.2909/486f77da-d605-423e-93a9-680760ab6791 and GLAD tree removal; https://doi.org/10.1016/j.rse.2023.113797</p> <p>Natura 2000: </p> <p>Generated using European Environmental Agency's Natura 2000 layers; https://sdi.eea.europa.eu/data/dae737fd-7ee1-4b0a-9eb7-1954eec00c65</p>
Bird and forest communities in a northern Michigan jack pine stand before and after logging, 2013-2018
This package contains data associated with documentation of breeding-season bird communities in a dry, jack pine and mixed red pine-jack pine forest in Marquette Co., MI. In addition to repeated surveys, 2014-2018, of bird presence in a network of 45 study plots, the package includes vegetation data collected on the same plots 2013-2017. At initiation of the study, the stand was >100 years old and had experienced little or no active management. During the study period, stands were thinned to reduce fire risk, and most jack pine were cut; three plots fell in a control area with no logging. Bird communities and vegetation were sampled repeatedly before and after management activities. Subsequent to the study period, a managed burn affected much of the study area.
Plant succession and biomass dynamics following logging and burning in Watersheds 1 and 3, Andrews Experimental Forest, 1962 to Present
Watersheds 1 and 3 in the HJ Andrews Experimental Forest have a long history of hydrologic, geomorphic, and ecological study. Long-term successional studies in the two watersheds are unprecedented in their scope and duration (1962 to present), spanning more than 50 years of post-logging measurements. To date, studies have focused on understory responses to logging and burning, early stand developmental processes (tree growth and mortality), and understory responses to canopy closure. Understory sampling was initiated in 1962, prior to harvest, and includes approximately 190, 2 x 2 m permanent understory plots. Measurements include estimates of ground-surface conditions and abundance (cover and biomass) of herbaceous, shrub, and tree species. After broadcast burning (1963 in WS3, 1966 in WS1) plots were sampled annually through 1972/1973, but less frequently thereafter (every 2-6 years). Studies of early stand development were initiated in 1979/1980, with sample plots collocated with the understory plots. In each of approximately 190, 250 m2 tree plots, all conifer and hardwood stems greater than or equal to 1.4 m tall are tagged, measured for diameter, and assessed for status (live or dead, including the cause of mortality). Both watersheds experienced recent snow-related windthrow (2019, 2020) and parts of WS1 burned in 2020 during the Holiday Farm Fire, adding complexity to the structure and composition of the understory and overstory communities.
Post-logging community structure and biomass accumulation in Watershed 10, Andrews Experimental Forest , 1974 to present
Old-growth and mature Douglas-fir forest were clearcut logged in 1975. Large slash was removed from the site rather than burned. Douglas-fir seedlings were planted in 1976 and 1977, but due to poor survival 4.9 ha were replanted in 1978. Despite planting, most tree stems originated naturally, either as sprouts from cut stumps (hardwoods) or as natural regeneration (conifers and hardwoods). Study plots were established and sampled for cover and frequency of understory vegetation and counts of seedlings and saplings prior to harvest (1973) and resampled annually for cover and biomass of understory vegetation and tree growth from 1976-1981, then in 1983, 1985, and then in 4-6 year intervals. WS10 was intensively studied in the 1970’s and 80’s. The entire watershed was surveyed into a 25 x 25-m grid and then 36 15 by 10 meter plots were established for long-term sampling.
Long-term log decay experiments at the Andrews Experimental Forest, 1985 to 2185
These data are collected from six sites within the H. J. Experimental Forest and are part of a 200-year experiment on the decomposition of logs in a terrestrial environment. The taxa being examined in the experiment are Douglas-fir, western hemlock, western redcedar, and Pacific silver fir. The data start in 1985 and are periodically updated as samples are taken. The last collection of data is planned in 2185. Periodically logs are sampled by measuring their diameters and lengths as well as bark cover and the fraction of their length in contact with the ground. Cross-sections are removed with a chainsaw and dissected with a table saw or other means to determine the density of bark and wood samples. These samples systematically sample each cross-section and can be used to reconstruct the spatial pattern of decomposition. Subsamples are ground and nutrient concentrations are determined to calculate nutrient stores. Twenty one data tables are associated with this study. A general description of the logs (length, diameters, bark cover) is found in td01401 and can be used to estimate how the log has fragmented over time. The areal extent of tissue types (outer bark, inner bark, sapwood, and heartwood) and zones of rotten wood from cross-sections is documented in td01418 and td01419. The position of the pith in each cross-section, a useful indicator of volume loss, is documented in td01420. The density (dry mass/green volume) of samples is documented in td01403 and based on the weights of individual samples (td01404) as well as their dimensions (td01405). The arrangement of samples into transects (top to bottom, left to right) within the cross-sections is documented in td01406. To help explain why some samples may be more dense than others, the area of the sample cross-section covered by knots is documented in td01407 (knots are more decay resistant and of greater density than wood). The radial thickness of inner and outer bark of the undecayed logs is documented in td014
Comparison of terrestrial versus aquatic decomposition rates of logs at the Andrews Experimental Forest, 1985 to 2015
The data collected from this study describe the decomposition of small logs (20-30 cm diameter, 2 m length) in a stream channel to those on an adjacent upland site at the H. J. Andrews Experimental Forest. The stream is a 3rd order above the junction of Lookout Creek and Mack Creek. Three species of trees are being examined: Douglas-fir, western hemlock, and red alder. Data collection started in 1985 and is scheduled to continue to 2050. Periodically a subset of logs is resampled to determine changes in volume, bark cover, density, and nutrient stores. The last set of samples was collected in 2005. Logs ranging in diameter between 20 and 30 cm of a length of 2 m were cut out of live trees of the three species. Logs were placed by hand along a skid road at the terrestrial site. A cable system was used to place log randomly along a stream reach. The location of logs in the stream is noted when they are sampled. The length and diameter as well as bark cover of each sampled log is noted at the time of sampling (td01701). Six cross-sections are removed with a chainsaw. The thickness of the tissue types is noted (inner bark, outer bark, sapwood, and heartwood) and are described in td01702. Samples of each tissue type are taken to determine their moisture content (water mass/dry mass) and density (dry mass/green volume). Density is derived from dry mass and volume as determined via dimensional measurements. Dimensional data, volumes, masses, density, and moisture content are documented in the td01703 table. The volume of logs and tissue types, the total mass, and proportional mass of the tissue types as well as moisture contents is derived from the data in the other data tables and is stored in the td01704 table.
Nitrogen fixation and respiration potential of conifer logs at Andrews Experimental Forest, 1987 to 2006
These data provide a time series of changes in nitrogen fixation rates, and respiration rates for four common PNW species. The purpose is to understand when these rates reach a maximum.
Dynamics of large wood in streams: Tagged log inventory, Mack Creek, Andrews Experimental Forest, 1985 to 2008
Although many studies have identified the characteristics of wood stored in streams, few have attempted to measure the long-term dynamics of large wood. From 1982-1985, we developed a long-term study of input, storage, decomposition, and redistribution of large wood in Mack Creek. Each year from 1985 to the present, we have surveyed a 1.1 km section of this stream. This annual survey has allowed us to quantify the standing stocks and characteristics of large wood within the stream and floodplain of an old-growth forest and an older (ca. 1963) clear-cut. In addition, these data allow us to measure rates of input, fragmentation and movement.
Dimensions, cover, volumes, mass and nutrient stores of Coarse Woody Debris (bark and wood from logs, snags, and stumps) from forests plots in the western United States and Mexico, 1977 to 2005
These data provide an inventory of the mass and nutrients stored within various forest types by coarse woody debris (CWD). CWD inventoried includes standing dead trees (greater than 10 cm diameter at breast height) and dead and downed wood (greater than 10 cm large end and >1 long). The majority of measurements are from permanent sample plots associated with the Andrews LTER permanent sample plots network. This includes clusters of plots at and near the H. J. Andrews Experimental Forest (OR), Cascade Head Experimental Forest (OR), Mount Rainier National Park (WA), Olympic National Park (WA), and Fraser Experimental Forest (CO). There are also data from plots in the Yucatan in Mexico; however, the live tree data for these plots is not available. The species of CWD inventoried are primarily those found in the Pacific Northwest; the dominants being Douglas-fir, western hemlock, mountain hemlock, western redcedar, Pacific silver fir, noblel fir, lodgepole pine, ponderosa pine, sitka spruce, and Englemann spruce. The majority of measurements were made in the 1975 to 1995 period; however plots are periodically remeasured and the intent to eventually remeasure all the plots except those in Mexico. In each plot measurements of log and snag dimensions (length and diameters), as well as decay class and species were recorded in the stands (td01201 file). These dimension data are combined with data on density and nutrient content for each species and decay class (td01202 file) and plot area and slope (td01203 file) to calculate CWD volume, cover, biomass and nutrient storage (td01204 file). When data on density and nutrient concentrations is not known, a list of substitutions is used (td01206). The adjust tree diameters if measurements are taken at the base of the dead tree, taper regressions are used (td01205).
Hubbard Brook Experimental Forest: Log decomposition sensor data
This data set documents the temporal and spatial variation of soil and deadwood moisture, and nearby microclimate, for the a four-month period from June to October 2018. These data were gathered as part of the Hubbard Brook Ecosystem Study (HBES). The HBES is a collaborative effort at the Hubbard Brook Experimental Forest, which is operated and main tained by the USDA Forest Service, Northern Research Station.
Figure 1 in Anadenanthera colubrina (Fabaceae) logs in the Atlantic Forest biome: first host plant for Thoracibidion lineatocolle (Col.: Cerambycidae) and a new host for Temnopis megacephala (Col.: Cerambycidae)
Figure 1. Temnopis megacephala (A) and Thoracibidion lineatocolle (B) (Coleoptera:Cerambycidae) adults emerged from Anadenanthera colubrina (Fabaceae) logs harvested in the Atlantic Forest biome.
Community-weighted mean traits in old-growth and selectively logged forest
<p><strong>Description: </strong></p> <p>Community-weighted mean traits from tree species that make up more than 80% basal area in plots in selectively logged forest at SAFE and in old-growth forest in Danum Valley and Maliau Basin. Sampled during the BALI project traits campaign</p> <p><strong>Project: </strong>This dataset was collected as part of the following SAFE research project: <a href="https://www.safeproject.net/projects/project_view/55"><strong>Biodiversity and land-use impacts on tropical ecosystem function (BALI): Quantifying functional trait distributions across the disturbance gradient</strong></a></p> <p><strong>Funding: </strong>These data were collected as part of research funded by:</p> <ul> <li>NERC (Standard grant, NE/K016253/1)</li> </ul> <p>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.</p> <p> </p> <p><strong>Permits: </strong>These data were collected under permit from the following authorities:</p> <ul> <li>Sabah Biodiversity Centre (Research licence JKM/MBS.1000-2.2(385))</li> </ul> <p> </p> <p><strong>XML metadata: </strong>GEMINI compliant metadata for this dataset is available <a href="https://www.safeproject.net/datasets/xml_metadata?id=3247602">here</a></p> <p><strong>Files: </strong>This dataset consists of 3 files: Both_CWM_traits.xlsx, CSP_protocol_Chlorophyll_and_Carotenoids.pdf, CSP_protocol_Phenols_Tannins_Analysis.pdf</p> <p><strong>Both_CWM_traits.xlsx</strong></p> <p>This file contains dataset metadata and 1 data tables:</p> <ol> <li> <p><strong>CMW_traits</strong> (described in worksheet CMW_traits)</p> <p>Description: Community-weighted mean traits of tree in plots in SAFE , Danum Valley and Maliau Basin sampled during the BALI project traits campaign</p> <p>Number of fields: 36</p> <p>Number of data rows: 8</p> <p>Fields:</p> <ul> <li><strong>location</strong>: Location (Field type: Categorical)</li> <li><strong>forest_type</strong>: Forest type (Field type: Categorical)</li> <li><strong>forestplots_name</strong>: Plot name coherent with forestplots database (Field type: ID)</li> <li><strong>plot_name_trait_campaign</strong>: Plot name used during the BALI trait campaign (Field type: ID)</li> <li><strong>CWM_total_K_mg.g_log</strong>: CWM foliar potassium concentration in mg per g dry weight, log transformed data (Field type: Numeric)</li> <li><strong>CWM_total_Ca_mg.g_log</strong>: CWM foliar calcium concentration in mg per g dry weight, log transformed data (Field type: Numeric)</li> <li><strong>CWM_total_Mg_mg.g_log</strong>: CWM foliar magnesium concentration in mg per g dry weight, log transformed data (Field type: Numeric)</li> <li><strong>CWM_total_P_mg.g_log</strong>: CWM foliar phosporus concentration in mg per g dry weight, log transformed data (Field type: Numeric)</li> <li><strong>CWM_N_perc</strong>: CWM foliar nitrogen concentration (Field type: Numeric)</li> <li><strong>CWM_15N_per_mil</strong>: CWM foliar 15N isotope concentration (Field type: Numeric)</li> <li><strong>CWM_C_perc</strong>: CWM foliar carbon concentration (Field type: Numeric)</li> <li><strong>CWM_13C_per_mil</strong>: CWM foliar 13C isotope concentration, expressed relative to Vienna Pee Dee Belemnite (VPDB) as δ13C in units of per mil [‰] (Field type: Numeric)</li> <li><strong>CWM_DR</strong>: CWM dark respiration measured on leaf attached to a branch that is cut under water and remains in water (Field type: Numeric)</li> <li><strong>CWM_Asat</strong>: CWM light-saturated net photosynthesis measured on leaf attached to a branch that is cut under water and remains in water. (Field type: Numeric)</li> <li><strong>CWM_Amax</strong>: CWM maximum photosynthetic capacity measured on leaf attached to a branch that is cut under water and remains in water. (Field type: Numeric)</li> <li><strong>CWM_leaf_thickness_mm_log</strong>: CWM thickness of leaf, log transformed data (Field type: Numeric)</li> <li><strong>CWM_dry_weight_mg_log</strong>: CWM leaf oven-dried weight, log transformed data (Field type: Numeric)</li> <li><strong>CWM_LA_mm2_log</strong>: CWM leaf area (LA) calculated from fresh leaves collected from branches, scanned immediately, log transformed data (Field type: Numeric)</li> <li><strong>CWM_SLA_mm2_mg</strong>: CWM specific leaf area (SLA) determined as the one-sided area of a fresh leaf, divided by its oven-dry mass. (Field type: Numeric)</li> <li><strong>CWM_LDMC_mg.g</strong>: CWM leaf dry-matter content (LDMC) is the oven-dry mass (mg) of a leaf, divided by its water-saturated fresh mass (g) mg g–1 (Field type: Numeric)</li> <li><strong>CWM_chla_mg.g</strong>: CWM foliar chlorophyll a content (Field type: Numeric)</li> <li><strong>CWM_chlb_mg.g</strong>: CWM foliar chlorophyll b content (Field type: Numeric)</li> <li><strong>CWM_carot_mg.g</strong>: CWM foliar carotenoids content (Field type: Numeric)</li> <li><strong>CWM_Fp_N_mm_log</strong>: CWM force to punch leaf, dividing the observed force (N) required to puncture the leaf lamina by the circumference of the instrument's rod, log transformed data (Field type: Numeric)</li> <li><strong>CWM_specific_Fp_log</strong>: CWM specific force to punch (Fp divided by lamina thickness), log transformed data (Field type: Numeric)</li> <li><strong>CWM_WD_B</strong>: CWM branch wood density from branch segment with bark (Field type: Numeric)</li> <li><strong>CWM_hemicellulose_perc</strong>: CWM foliar hemicellulose concentration (Field type: Numeric)</li> <li><strong>CWM_cellulose_perc</strong>: CWM foliar cellulose concentration (Field type: Numeric)</li> <li><strong>CWM_lignin_recalcitrants_perc</strong>: CWM foliar lignin and recalcitrants concentration (Field type: Numeric)</li> <li><strong>CWM_total_tannin_mg.g</strong>: CWM foliar tannin concentration (Field type: Numeric)</li> <li><strong>CWM_total_phenol_mg.g</strong>: CWM total foliar phenol concentration (Field type: Numeric)</li> <li><strong>CWM_chla_mg.mm2</strong>: CWM foliar chlorophyll a content expressed on leaf area basis (Field type: Numeric)</li> <li><strong>CWM_chlb_mg.mm2</strong>: CWM foliar chlorophyll b content expressed on leaf area basis (Field type: Numeric)</li> <li><strong>CWM_carot_mg.mm2</strong>: CWM foliar carotenoids content expressed on leaf area basis (Field type: Numeric)</li> <li><strong>CWM_N_mg.mm2</strong>: CWM foliar nitrogen concentration expressed on leaf area basis (Field type: Numeric)</li> <li><strong>CWM_total_P_mg.mm2.l</strong>: CWM foliar phosporus concentration expressed on leaf area basis, log transformed data (Field type: Numeric)</li> </ul> </li> </ol> <p><strong>CSP_protocol_Chlorophyll_and_Carotenoids.pdf</strong></p> <p>Description: Methodology of chlorophyll and carotenoids analysis, Carnegie Spectranomics protocol: https://drive.google.com/file/d/0B58dyv8L3FpMdGw0QWtiZElHQzQ/view</p> <p><strong>CSP_protocol_Phenols_Tannins_Analysis.pdf</strong></p> <p>Description: Methodology of phenols and tannins analysis, Carnegie Spectranomics protocol: https://drive.google.com/file/d/0B58dyv8L3FpMcTBHblQwRHdyRE0/view</p> <p><strong>Date range: </strong>2014-05-01 to 2018-09-01</p> <p><strong>Latitudinal extent: </strong>4.5000 to 5.0700</p> <p><strong>Longitudinal extent: </strong>116.7500 to 117.8200</p>
Functional traits of tree species in old-growth and selectively logged forest
<b>Description: </b><p>Traits matrix for tree species in selectively logged forest at SAFE and in old-growth forest in Danum Valley and Maliau Basin. Sampled during the BALI project traits campaign</p><p><b>Project: </b>This dataset was collected as part of the following SAFE research project: <a href="https://www.safeproject.net/projects/project_view/55"><b>Biodiversity and land-use impacts on tropical ecosystem function (BALI): Quantifying functional trait distributions across the disturbance gradient</b></a></p><p><b>Funding: </b>These data were collected as part of research funded by: </p><ul><li>NERC (Standard grant, NE/K016253/1)</li></ul><p>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.</p><p></p><p><b>Permits: </b>These data were collected under permit from the following authorities:</p><ul><li>Sabah Biodiversity Centre (Research licence JKM/MBS.1000-2.2(385))</li></ul><p></p><p><b>XML metadata: </b>GEMINI compliant metadata for this dataset is available <a href="https://www.safeproject.net/datasets/xml_metadata?id=3247631">here</a></p><p><b>Files: </b>This dataset consists of 3 files: Both_tree_functional_traits.xlsx, CSP_protocol_Chlorophyll_and_Carotenoids.pdf, CSP_protocol_Phenols_Tannins_Analysis.pdf</p><p><b>Both_tree_functional_traits.xlsx</b></p><p>This file contains dataset metadata and 1 data tables:</p><ol><li><p><b>Tree_functional_traits</b> (described in worksheet Tree_functional_traits)</p><p>Description: Traits matrix for tree species at SAFE and in Danum Valley, Maliau Basin sampled during the BALI project traits campaign</p><p>Number of fields: 84</p><p>Number of data rows: 717</p><p>Fields: </p><ul><li><b>location</b>: Location (Field type: Categorical)</li><li><b>forest_type</b>: Forest type: OG: old-growth plots, Maliau and Danum; SL: selectively logged plots at SAFE (Field type: Categorical)</li><li><b>forestplots_name</b>: Plot name coherent with forestplots database (Field type: ID)</li><li><b>plot_name_trait_campaign</b>: Plot name used during the BALI trait campaign (Field type: ID)</li><li><b>sample_code</b>: Sample code referencing: plot-'T'(ree) ID-branch type (Field type: ID)</li><li><b>branch_type</b>: Binary classification of branch sampled depending on their position in the tree crown. BS: sun branch; BSH: shade branch (Field type: ID)</li><li><b>sampling_date</b>: Date of sampling (Field type: Date)</li><li><b>tree_id</b>: Reference for tree tag label (Field type: ID)</li><li><b>species</b>: Tree species (Field type: Taxa)</li><li><b>height.m</b>: Height of tree individual (Field type: Numeric trait)</li><li><b>total_K_mg.g</b>: Foliar potassium content in mg per g dry weight (Field type: Numeric trait)</li><li><b>total_Ca_mg.g</b>: Foliar calcium content in mg per g dry weight (Field type: Numeric trait)</li><li><b>total_Mg_mg.g</b>: Foliar magnesium content in mg per g dry weight (Field type: Numeric trait)</li><li><b>total_P_mg.g</b>: Foliar phosporus content in mg per g dry weight (Field type: Numeric trait)</li><li><b>N_perc</b>: Foliar nitrogen concentration (Field type: Numeric trait)</li><li><b>15N_per_mil</b>: Foliar 15N isotope concentration (Field type: Numeric trait)</li><li><b>C_perc</b>: Foliar carbon concentration (Field type: Numeric trait)</li><li><b>13C_per_mil</b>: Foliar 13C isotope concentration, expressed relative to Vienna Pee Dee Belemnite (VPDB) as δ13C in units of per mil [‰] (Field type: Numeric trait)</li><li><b>CN</b>: Foliar carbon nitrogen ratio (Field type: Numeric trait)</li><li><b>DR_mean</b>: Mean dark respiration measured on leaf of a branch that is cut under water and remains in water, calculated from replicated leaves per branch (Field type: Numeric trait)</li><li><b>DR_sd</b>: Standard deviation of dark respiration measured on leaf of a branch that is cut under water and remains in water, calculated from replicated leaves per branch (Field type: Numeric)</li><li><b>DR_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Replicate)</li><li><b>Asat_cons_mean</b>: Mean light-saturated net photosynthesis measured on leaf of a branch that is cut under water and remains in water, calculated from replicated leaves per branch. Data cleaning very conservative: subset of values only with conductance higher 0.04, Ci between 150 - 300, and PS higher than 1, leading to fewer data points. (Field type: Numeric trait)</li><li><b>Asat_cons_sd</b>: Standard deviation of light-saturated net photosynthesis measured on leaf of a branch that is cut under water and remains in water, calculated from replicated leaves per branch (Field type: Numeric)</li><li><b>Asat_cons_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Replicate)</li><li><b>Amax_cons_mean</b>: Mean maximum photosynthetic capacity measured on leaf of a branch that is cut under water and remains in water, calculated from replicated leaves per branch. Data cleaning very conservative: subset of values only with conductance higher 0.04, Ci between 150 - 300, and PS higher than 1, leading to fewer data points. (Field type: Numeric trait)</li><li><b>Amax_cons_sd</b>: Standard deviation of maximum photosynthetic capacity measured on leaf of a branch that is cut under water and remains in water, calculated from replicated leaves per branch (Field type: Numeric)</li><li><b>Amax_cons_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Replicate)</li><li><b>Asat_mean</b>: Mean light-saturated net photosynthesis measured on leaf of a branch that is cut under water and remains in water, calculated from replicated leaves per branch (Field type: Numeric trait)</li><li><b>Asat_sd</b>: Standard deviation of light-saturated net photosynthesis measured on leaf of a branch that is cut under water and remains in water, calculated from replicated leaves per branch (Field type: Numeric)</li><li><b>Asat_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Replicate)</li><li><b>Amax_mean</b>: Mean maximum photosynthetic capacity measured on leaf of a branch that is cut under water and remains in water, calculated from replicated leaves per branch (Field type: Numeric trait)</li><li><b>Amax_sd</b>: Standard deviation of maximum photosynthetic capacity measured on leaf of a branch that is cut under water and remains in water, calculated from replicated leaves per branch (Field type: Numeric)</li><li><b>Amax_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Replicate)</li><li><b>LA_cm2_mean</b>: Mean leaf area (LA) calculated from fresh leaves collected from branches, scanned immediately. (Field type: Numeric trait)</li><li><b>LA_cm2_sd</b>: Standard deviation of leaf area (Field type: Numeric)</li><li><b>LA_cm2_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Replicate)</li><li><b>leaf_thickness_mm_mean</b>: Mean thickness of leaf (Field type: Numeric trait)</li><li><b>fresh_weight_g_mean</b>: Mean leaf fresh weight (Field type: Numeric trait)</li><li><b>dry_weight_g_mean</b>: Mean leaf oven-dried weight (Field type: Numeric trait)</li><li><b>dry_weight_mg_mean</b>: Mean leaf oven-dried weight (Field type: Numeric trait)</li><li><b>LDMC_mg.g_mean</b>: Leaf dry-matter content (LDMC) is the oven-dry mass (mg) of a leaf, divided by its water-saturated fresh mass (g) mg g–1 (Field type: Numeric trait)</li><li><b>leaf_thickness_mm_sd</b>: Standard deviation of leaf thickness (Field type: Numeric)</li><li><b>fresh_weight_g_sd</b>: Standard deviation of fresh leaf weight (Field type: Numeric)</li><li><b>dry_weight_g_sd</b>: Standard deviation of dry leaf weight (Field type: Numeric)</li><li><b>dry_weight_mg_sd</b>: Standard deviation of dry leaf weight (Field type: Numeric)</li><li><b>LDMC_mg.g_sd</b>: Standard deviation of leaf dry matter content (Field type: Numeric)</li><li><b>leaf_thickness_mm_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Replicate)</li><li><b>fresh_weight_g_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Replicate)</li><li><b>dry_weight_g_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Replicate)</li><li><b>dry_weight_mg_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Replicate)</li><li><b>LDMC_mg.g_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Replicate)</li><li><b>branch_height_m</b>: Height from where branch sample was taken (Field type: Numeric trait)</li><li><b>chla_mg.g</b>: Foliar chlorophyll a content (Field type: Numeric trait)</li><li><b>chlb_mg.g</b>: Foliar chlorophyll b content (Field type: Numeric trait)</li><li><b>carot_mg.g</b>: Foliar carotenoids content (Field type: Numeric trait)</li><li><b>Fp_N_mm_mean</b>: Mean force to punch leaf, dividing the observed force (N) required to puncture the leaf lamina by the circumference of the instrument's rod (Field type: Numeric trait)</li><li><b>Fp_N_mm_sd</b>: Standard deviation for force to punch (Field type: Numeric trait)</li><li><b>Fp_N_mm_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Numeric trait)</li><li><b>specific_Fp_mean</b>: Mean specific force to punch (Fp divided by lamina thickness) (Field type: Numeric trait)</li><li><b>specific_Fp_sd</b>: Standard deviation for force to punch (Field type: Numeric trait)</li><li><b>specific_Fp_n</b>: Number of replicates, i.e. leaves per branch used for mean trait (Field type: Numeric trait)</li><li><b>WD_B</b>: Branch wood density from branch segment with bark (Field type: Numeric trait)</li><li><b>WD_NB</b>: Branch wood density from branch segment without bark (bark removed prior measurement) (Field type: Numeric trait)</li><li><b>hemicellulose_perc</b>: Foliar hemicellulose concentration (Field type: Numeric trait)</li><li><b>cellulose_perc</b>: Foliar cellulose concentration (Field type: Numeric trait)</li><li><b>lignin_recalcitrants_perc</b>: Foliar lignin and recalcitrants concentration (Field type: Numeric trait)</li><li><b>Total_tannin_mg.g</b>: Total foliar tannin concentration (Field type: Numeric trait)</li><li><b>Total_phenol_mg.g</b>: Total foliar phenol concentration (Field type: Numeric trait)</li><li><b>SLA_mm2.mg_mean</b>: Specific leaf area (SLA) determined as the one-sided area of a fresh leaf, divided by its oven-dry mass. (Field type: Numeric trait)</li><li><b>total_K_mg.mm2</b>: Foliar potassium content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>total_Ca_mg.mm2</b>: Foliar calcium content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>total_Mg_mg.mm2</b>: Foliar magnesium content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>total_P_mg.mm2</b>: Foliar phosporus content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>chla_mg.mm2</b>: Foliar chlorophyll a content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>chlb_mg.mm2</b>: Foliar chlorophyll b content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>carot_mg.mm2</b>: Foliar carotenoids content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>tannin_mg.mm2</b>: Foliar tannin content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>phenol_mg_mm2</b>: Foliar phenol content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>N_mg.mm2</b>: Foliar nitrogen content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>C_mg.mm2</b>: Foliar carbon content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>hemicellulose_mg.mm2</b>: Foliar hemicellulose content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>cellulose_mg.mm2</b>: Foliar cellulose content expressed on leaf area basis (Field type: Numeric trait)</li><li><b>lignin_recalcitrants_mg.mm2</b>: Foliar lignin and recalcitrants content expressed on leaf area basis (Field type: Numeric trait)</li></ul></li></ol><p><b>CSP_protocol_Chlorophyll_and_Carotenoids.pdf</b></p><p>Description: Methodology of chlorophyll and carotenoids analysis, Carnegie Spectranomics protocol: https://drive.google.com/file/d/0B58dyv8L3FpMdGw0QWtiZElHQzQ/view</p><p><b>CSP_protocol_Phenols_Tannins_Analysis.pdf</b></p><p>Description: Methodology of phenols and tannins analysis, Carnegie Spectranomics protocol: https://drive.google.com/file/d/0B58dyv8L3FpMcTBHblQwRHdyRE0/view</p><p><b>Date range: </b>2014-05-01 to 2018-09-01</p><p><b>Latitudinal extent: </b>4.5000 to 5.0700</p><p><b>Longitudinal extent: </b>116.7500 to 117.8200</p><p><b>Taxonomic coverage: </b><br> All taxon names are validated against the GBIF backbone taxonomy. 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.</p><div>Plantae<br> - Tracheophyta<br> -  - Liliopsida<br> -  -  - Poales<br> -  -  -  - Poaceae<br> -  -  -  -  - <i>Dinochloa</i><br> -  -  -  -  -  - <i>Dinochloa trichogona</i><br> -  -  -  -  - <i>Imperata</i><br> -  -  -  -  -  - <i>Imperata cylindrica</i><br> -  -  -  -  - <i>Paspalum</i><br> -  -  -  -  -  - <i>Paspalum virgatum</i><br> -  -  - Zingiberales<br> -  -  -  - Marantaceae<br> -  -  -  -  - <i>Phrynium</i><br> -  -  -  -  -  - <i>Phrynium pubinerve</i><br> -  -  -  - Zingiberaceae<br> -  -  -  -  - <i>Etlingera</i><br> -  - Magnoliopsida<br> -  -  - Asterales<br> -  -  -  - Asteraceae<br> -  -  -  -  - <i>Mikania</i><br> -  -  -  -  -  - <i>Mikania micrantha</i><br> -  -  - Celastrales<br> -  -  -  - Celastraceae<br> -  -  -  -  - <i>Lophopetalum</i><br> -  -  -  -  -  - <i>Lophopetalum beccarianum</i><br> -  -  -  -  -  - <i>Lophopetalum glabrum</i><br> -  -  -  -  -  - <i>Lophopetalum javanicum</i><br> -  -  - Cornales<br> -  -  -  - Cornaceae<br> -  -  -  -  - <i>Alangium</i><br> -  -  -  -  -  - <i>Alangium javanicum</i><br> -  -  -  - Nyssaceae<br> -  -  -  -  - <i>Mastixia</i><br> -  -  -  -  -  - <i>Mastixia trichotoma</i><br> -  -  - Ericales<br> -  -  -  - Ebenaceae<br> -  -  -  -  - <i>Diospyros</i><br> -  -  -  -  -  - <i>Diospyros andamanica</i><br> -  -  -  -  -  - <i>Diospyros curranii</i><br> -  -  -  -  -  - <i>Diospyros daemona</i><br> -  -  -  -  -  - <i>Diospyros dictyoneura</i><br> -  -  -  -  -  - <i>Diospyros macrophylla</i><br> -  -  -  -  -  - <i>Diospyros muricata</i><br> -  -  -  -  -  - <i>Diospyros pilosanthera</i><br> -  -  -  -  -  - <i>Diospyros toposia</i><br> -  -  -  -  -  - <i>Diospyros tuberculata</i><br> -  -  -  - Lecythidaceae<br> -  -  -  -  - <i>Barringtonia</i><br> -  -  -  -  -  - <i>Barringtonia lanceolata</i><br> -  -  -  -  -  - <i>Barringtonia macrostachya</i><br> -  -  -  -  -  - <i>Barringtonia sarcostachys</i><br> -  -  -  -  - <i>Planchonia</i><br> -  -  -  -  -  - <i>Planchonia brevistipitata</i><br> -  -  -  - Pentaphylacaceae<br> -  -  -  -  - <i>Adinandra</i><br> -  -  -  -  -  - <i>Adinandra dumosa</i><br> -  -  -  - Primulaceae<br> -  -  -  -  - <i>Ardisia</i><br> -  -  -  -  -  - <i>Ardisia macrophylla</i><br> -  -  -  -  - <i>Maesa</i><br> -  -  -  -  -  - <i>Maesa macrothyrsa</i><br> -  -  -  - Sapotaceae<br> -  -  -  -  - <i>Madhuca</i><br> -  -  -  -  -  - <i>Madhuca dubardii</i><br> -  -  -  -  -  - <i>Madhuca korthalsii</i><br> -  -  -  -  - <i>Palaquium</i><br> -  -  -  -  -  - <i>Palaquium dasyphyllum</i><br> -  -  -  -  -  - <i>Palaquium obovatum</i><br> -  -  -  -  -  - <i>Palaquium sericeum</i><br> -  -  -  -  - <i>Payena</i><br> -  -  -  -  -  - <i>Payena acuminata</i><br> -  -  -  - Symplocaceae<br> -  -  -  -  - <i>Symplocos</i><br> -  -  -  -  -  - <i>Symplocos fasciculata</i><br> -  -  -  - Theaceae<br> -  -  -  -  - <i>Pyrenaria</i><br> -  -  -  -  -  - <i>Pyrenaria tawauensis</i><br> -  -  - Fabales<br> -  -  -  - Fabaceae<br> -  -  -  -  - <i>Archidendron</i><br> -  -  -  -  -  - <i>Archidendron clypearia</i><br> -  -  -  -  - <i>Crudia</i><br> -  -  -  -  -  - <i>Crudia reticulata</i><br> -  -  -  -  -  - <i>Crudia tenuipes</i><br> -  -  -  -  - <i>Cynometra</i><br> -  -  -  -  -  - <i>Cynometra mirabilis</i><br> -  -  -  -  - <i>Dialium</i><br> -  -  -  -  -  - <i>Dialium indum</i><br> -  -  -  -  -  - <i>Dialium kunstleri</i><br> -  -  -  -  - <i>Fordia</i><br> -  -  -  -  -  - <i>Fordia brachybotrys</i><br> -  -  -  -  -  - <i>Fordia splendidissima</i><br> -  -  -  -  - <i>Sindora</i><br> -  -  -  -  - <i>Spatholobus</i><br> -  -  -  -  -  - <i>Spatholobus macropterus</i><br> -  -  -  - Polygalaceae<br> -  -  -  -  - <i>Xanthophyllum</i><br> -  -  -  -  -  - <i>Xanthophyllum flavescens</i><br> -  -  - Fagales<br> -  -  -  - Fagaceae<br> -  -  -  -  - <i>Castanopsis</i><br> -  -  -  -  -  - <i>Castanopsis hypophoenicea</i><br> -  -  -  -  - <i>Lithocarpus</i><br> -  -  -  -  -  - <i>Lithocarpus blumeanus</i><br> -  -  -  -  -  - <i>Lithocarpus conocarpus</i><br> -  -  -  -  -  - <i>Lithocarpus echinifer</i><br> -  -  -  -  -  - <i>Lithocarpus gracilis</i><br> -  -  -  -  -  - <i>Lithocarpus leptogyne</i><br> -  -  -  -  -  - <i>Lithocarpus sundaicus</i><br> -  -  -  -  - <i>Quercus</i><br> -  -  -  -  -  - <i>Quercus argentata</i><br> -  -  -  -  -  - <i>Quercus lowii</i><br> -  -  -  -  -  - <i>Quercus merrillii</i><br> -  -  -  -  - <i>Trigonobalanus</i><br> -  -  -  -  -  - <i>Trigonobalanus verticillata</i><br> -  -  - Gentianales<br> -  -  -  - Apocynaceae<br> -  -  -  -  - <i>Alstonia</i><br> -  -  -  -  -  - <i>Alstonia angustiloba</i><br> -  -  -  - Rubiaceae<br> -  -  -  -  - <i>Ludekia</i><br> -  -  -  -  -  - <i>Ludekia borneensis</i><br> -  -  -  -  - <i>Nauclea</i><br> -  -  -  -  -  - <i>Nauclea officinalis</i><br> -  -  -  -  -  - <i>Nauclea subdita</i><br> -  -  -  -  - <i>Neolamarckia</i><br> -  -  -  -  -  - <i>Neolamarckia cadamba</i><br> -  -  -  -  - <i>Neonauclea</i><br> -  -  -  -  -  - <i>Neonauclea gigantea</i><br> -  -  -  -  - <i>Psydrax</i><br> -  -  -  -  -  - <i>Psydrax dicoccos</i><br> -  -  -  -  - <i>Uncaria</i><br> -  -  -  -  -  - <i>Uncaria cordata</i><br> -  -  -  -  - <i>Urophyllum</i><br> -  -  -  -  -  - <i>Urophyllum polyneurum</i><br> -  -  - Lamiales<br> -  -  -  - Lamiaceae<br> -  -  -  -  - <i>Callicarpa</i><br> -  -  -  -  -  - <i>Callicarpa pentandra</i><br> -  -  -  - Oleaceae<br> -  -  -  -  - <i>Chionanthus</i><br> -  -  -  -  -  - <i>Chionanthus macrocarpus</i><br> -  -  -  -  -  - <i>Chionanthus pluriflorus</i><br> -  -  - Laurales<br> -  -  -  - Lauraceae<br> -  -  -  -  - <i>Actinodaphne</i><br> -  -  -  -  - <i>Beilschmiedia</i><br> -  -  -  -  -  - <i>Beilschmiedia micrantha</i><br> -  -  -  -  - <i>Caryodaphnopsis</i><br> -  -  -  -  -  - <i>Caryodaphnopsis tonkinensis</i><br> -  -  -  -  - <i>Cryptocarya</i><br> -  -  -  -  -  - <i>Cryptocarya nigra</i><br> -  -  -  -  -  - <i>Cryptocarya nitens</i><br> -  -  -  -  - <i>Dehaasia</i><br> -  -  -  -  -  - <i>Dehaasia caesia</i><br> -  -  -  -  -  - <i>Dehaasia incrassata</i><br> -  -  -  -  - <i>Eusideroxylon</i><br> -  -  -  -  -  - <i>Eusideroxylon zwageri</i><br> -  -  -  -  - <i>Lindera</i><br> -  -  -  -  -  - <i>Lindera lucida</i><br> -  -  -  -  - <i>Litsea</i><br> -  -  -  -  -  - <i>Litsea accedens</i><br> -  -  -  -  -  - <i>Litsea angulata</i><br> -  -  -  -  -  - <i>Litsea caulocarpa</i><br> -  -  -  -  -  - <i>Litsea cordata</i><br> -  -  -  -  -  - <i>Litsea garciae</i><br> -  -  -  -  -  - <i>Litsea grandis</i><br> -  -  -  -  -  - <i>Litsea rubiginosa</i><br> -  -  -  -  - <i>Nothaphoebe</i><br> -  -  -  -  -  - <i>Nothaphoebe umbelliflora</i><br> -  -  -  -  - <i>Phoebe</i><br> -  -  -  -  -  - <i>Phoebe grandis</i><br> -  -  - Magnoliales<br> -  -  -  - Annonaceae<br> -  -  -  -  - <i>Cyathocalyx</i><br> -  -  -  -  - <i>Maasia</i><br> -  -  -  -  -  - <i>Maasia sumatrana</i><br> -  -  -  -  - <i>Miliusa</i><br> -  -  -  -  -  - <i>Miliusa macropoda</i><br> -  -  -  -  - <i>Monoon</i><br> -  -  -  -  - <i>Neo-uvaria</i><br> -  -  -  -  -  - <i>Neo-uvaria acuminatissima</i><br> -  -  -  -  - <i>Orophea</i><br> -  -  -  -  -  - <i>Orophea myriantha</i><br> -  -  -  -  - <i>Phaeanthus</i><br> -  -  -  -  -  - <i>Phaeanthus splendens</i><br> -  -  -  -  - <i>Polyalthia</i><br> -  -  -  -  -  - <i>Polyalthia obliqua</i><br> -  -  -  -  - <i>Pseuduvaria</i><br> -  -  -  -  -  - <i>Pseuduvaria borneensis</i><br> -  -  -  -  - <i>Sageraea</i><br> -  -  -  -  -  - <i>Sageraea elliptica</i><br> -  -  -  -  - <i>Stelechocarpus</i><br> -  -  -  -  -  - <i>Stelechocarpus cauliflorus</i><br> -  -  -  -  - <i>Xylopia</i><br> -  -  -  -  -  - <i>Xylopia ferruginea</i><br> -  -  -  -  -  - <i>Xylopia stenopetala</i><br> -  -  -  - Magnoliaceae<br> -  -  -  -  - <i>Magnolia</i><br> -  -  -  -  -  - <i>Magnolia borneensis</i><br> -  -  -  -  -  - <i>Magnolia liliifera</i><br> -  -  -  -  -  - <i>Magnolia tsiampacca</i><br> -  -  -  - Myristicaceae<br> -  -  -  -  - <i>Horsfieldia</i><br> -  -  -  -  -  - <i>Horsfieldia crassifolia</i><br> -  -  -  -  - <i>Knema</i><br> -  -  -  -  -  - <i>Knema glauca</i><br> -  -  -  -  -  - <i>Knema latifolia</i><br> -  -  -  -  -  - <i>Knema laurina</i><br> -  -  -  -  -  - <i>Knema oblongata</i><br> -  -  -  -  - <i>Myristica</i><br> -  -  -  -  -  - <i>Myristica smythiesii</i><br> -  -  - Malpighiales<br> -  -  -  - Achariaceae<br> -  -  -  -  - <i>Hydnocarpus</i><br> -  -  -  -  -  - <i>Hydnocarpus woodii</i><br> -  -  -  -  - <i>Ryparosa</i><br> -  -  -  -  -  - <i>Ryparosa acuminata</i><br> -  -  -  - Calophyllaceae<br> -  -  -  -  - <i>Calophyllum</i><br> -  -  -  -  -  - <i>Calophyllum soulattri</i><br> -  -  -  -  -  - <i>Calophyllum woodii</i><br> -  -  -  -  - <i>Mesua</i><br> -  -  -  -  -  - <i>Mesua borneensis</i><br> -  -  -  -  -  - <i>Mesua macrantha</i><br> -  -  -  -  -  - <i>Mesua oblongifolia</i><br> -  -  -  - Centroplacaceae<br> -  -  -  -  - <i>Bhesa</i><br> -  -  -  -  -  - <i>Bhesa indica</i><br> -  -  -  - Chrysobalanaceae<br> -  -  -  -  - <i>Atuna</i><br> -  -  -  -  -  - <i>Atuna racemosa</i><br> -  -  -  -  - <i>Licania</i><br> -  -  -  -  -  - <i>Licania splendens</i><br> -  -  -  - Clusiaceae<br> -  -  -  -  - <i>Garcinia</i><br> -  -  -  -  -  - <i>Garcinia benthamiana</i><br> -  -  -  -  -  - <i>Garcinia forbesii</i><br> -  -  -  -  -  - <i>Garcinia nervosa</i><br> -  -  -  -  -  - <i>Garcinia parvifolia</i><br> -  -  -  - Euphorbiaceae<br> -  -  -  -  - <i>Blumeodendron</i><br> -  -  -  -  -  - <i>Blumeodendron kurzii</i><br> -  -  -  -  -  - <i>Blumeodendron tokbrai</i><br> -  -  -  -  - <i>Hancea</i><br> -  -  -  -  -  - <i>Hancea penangensis</i><br> -  -  -  -  - <i>Macaranga</i><br> -  -  -  -  -  - <i>Macaranga conifera</i><br> -  -  -  -  -  - <i>Macaranga gigantea</i><br> -  -  -  -  -  - <i>Macaranga hypoleuca</i><br> -  -  -  -  -  - <i>Macaranga pearsonii</i><br> -  -  -  -  -  - <i>Macaranga winkleri</i><br> -  -  -  -  - <i>Mallotus</i><br> -  -  -  -  -  - <i>Mallotus leucodermis</i><br> -  -  -  -  -  - <i>Mallotus miquelianus</i><br> -  -  -  -  -  - <i>Mallotus mollissimus</i><br> -  -  -  -  -  - <i>Mallotus wrayi</i><br> -  -  -  -  - <i>Neoscortechinia</i><br> -  -  -  -  -  - <i>Neoscortechinia kingii</i><br> -  -  -  -  -  - <i>Neoscortechinia philippinensis</i><br> -  -  -  -  - <i>Ptychopyxis</i><br> -  -  -  -  -  - <i>Ptychopyxis arborea</i><br> -  -  -  -  - <i>Spathiostemon</i><br> -  -  -  - Hypericaceae<br> -  -  -  -  - <i>Cratoxylum</i><br> -  -  -  - Irvingiaceae<br> -  -  -  -  - <i>Irvingia</i><br> -  -  -  -  -  - <i>Irvingia malayana</i><br> -  -  -  - Phyllanthaceae<br> -  -  -  -  - <i>Antidesma</i><br> -  -  -  -  - <i>Aporosa</i><br> -  -  -  -  -  - <i>Aporosa confusa</i><br> -  -  -  -  -  - <i>Aporosa falcifera</i><br> -  -  -  -  - <i>Baccaurea</i><br> -  -  -  -  -  - <i>Baccaurea lanceolata</i><br> -  -  -  -  -  - <i>Baccaurea macrocarpa</i><br> -  -  -  -  -  - <i>Baccaurea pubera</i><br> -  -  -  -  -  - <i>Baccaurea tetrandra</i><br> -  -  -  -  - <i>Cleistanthus</i><br> -  -  -  -  -  - <i>Cleistanthus hirsutulus</i><br> -  -  -  -  -  - <i>Cleistanthus hylandii</i><br> -  -  -  -  -  - <i>Cleistanthus oblongifolius</i><br> -  -  -  -  -  - <i>Cleistanthus paxii</i><br> -  -  -  -  -  - <i>Cleistanthus pubens</i><br> -  -  -  -  - <i>Glochidion</i><br> -  -  -  -  -  - <i>Glochidion borneensis</i><br> -  -  -  -  - <i>Phyllanthus</i><br> -  -  -  -  -  - <i>Phyllanthus lutescens</i><br> -  -  -  -  -  - <i>Phyllanthus ruber</i><br> -  -  -  - Putranjivaceae<br> -  -  -  -  - <i>Drypetes</i><br> -  -  -  -  -  - <i>Drypetes longifolia</i><br> -  -  -  - Salicaceae<br> -  -  -  -  - <i>Flacourtia</i><br> -  -  -  -  -  - <i>Flacourtia rukam</i><br> -  -  -  -  - <i>Homalium</i><br> -  -  -  -  -  - <i>Homalium foetidum</i><br> -  -  - Malvales<br> -  -  -  - Dipterocarpaceae<br> -  -  -  -  - <i>Dipterocarpus</i><br> -  -  -  -  -  - <i>Dipterocarpus caudiferus</i><br> -  -  -  -  - <i>Dryobalanops</i><br> -  -  -  -  -  - <i>Dryobalanops lanceolata</i><br> -  -  -  -  - <i>Hopea</i><br> -  -  -  -  -  - <i>Hopea plagata</i><br> -  -  -  -  -  - <i>Hopea sangal</i><br> -  -  -  -  - <i>Parashorea</i><br> -  -  -  -  -  - <i>Parashorea malaanonan</i><br> -  -  -  -  -  - <i>Parashorea smythiesii</i><br> -  -  -  -  -  - <i>Parashorea warburgii</i><br> -  -  -  -  - <i>Shorea</i><br> -  -  -  -  -  - <i>Shorea almon</i><br> -  -  -  -  -  - <i>Shorea angustifolia</i><br> -  -  -  -  -  - <i>Shorea argentifolia</i><br> -  -  -  -  -  - <i>Shorea beccariana</i><br> -  -  -  -  -  - <i>Shorea faguetiana</i><br> -  -  -  -  -  - <i>Shorea falciferoides</i><br> -  -  -  -  -  - <i>Shorea fallax</i><br> -  -  -  -  -  - <i>Shorea gibbosa</i><br> -  -  -  -  -  - <i>Shorea guiso</i><br> -  -  -  -  -  - <i>Shorea johorensis</i><br> -  -  -  -  -  - <i>Shorea laevis</i><br> -  -  -  -  -  - <i>Shorea leprosula</i><br> -  -  -  -  -  - <i>Shorea leptoderma</i><br> -  -  -  -  -  - <i>Shorea macrophylla</i><br> -  -  -  -  -  - <i>Shorea macroptera</i><br> -  -  -  -  -  - <i>Shorea ovalis</i><br> -  -  -  -  -  - <i>Shorea ovata</i><br> -  -  -  -  -  - <i>Shorea parvifolia</i><br> -  -  -  -  -  - <i>Shorea parvistipulata</i><br> -  -  -  -  -  - <i>Shorea pauciflora</i><br> -  -  -  -  -  - <i>Shorea pinanga</i><br> -  -  -  -  -  - <i>Shorea superba</i><br> -  -  -  -  -  - <i>Shorea symingtonii</i><br> -  -  -  -  -  - <i>Shorea xanthophylla</i><br> -  -  -  -  - <i>Vatica</i><br> -  -  -  -  -  - <i>Vatica dulitensis</i><br> -  -  -  -  -  - <i>Vatica odorata</i><br> -  -  -  - Malvaceae<br> -  -  -  -  - <i>Boschia</i><br> -  -  -  -  -  - <i>Boschia grandiflora</i><br> -  -  -  -  - <i>Durio</i><br> -  -  -  -  -  - <i>Durio graveolens</i><br> -  -  -  -  - <i>Heritiera</i><br> -  -  -  -  -  - <i>Heritiera elata</i><br> -  -  -  -  - <i>Microcos</i><br> -  -  -  -  -  - <i>Microcos crassifolia</i><br> -  -  -  -  - <i>Pentace</i><br> -  -  -  -  -  - <i>Pentace borneensis</i><br> -  -  -  -  - <i>Pterygota</i><br> -  -  -  -  -  - <i>Pterygota alata</i><br> -  -  -  -  - <i>Scaphium</i><br> -  -  -  -  -  - <i>Scaphium macropodum</i><br> -  -  -  -  - <i>Sterculia</i><br> -  -  -  -  -  - <i>Sterculia rubiginosa</i><br> -  -  -  -  -  - <i>Sterculia stipulata</i><br> -  -  -  - Thymelaeaceae<br> -  -  -  -  - <i>Aquilaria</i><br> -  -  -  -  -  - <i>Aquilaria beccariana</i><br> -  -  - Myrtales<br> -  -  -  - Combretaceae<br> -  -  -  -  - <i>Terminalia</i><br> -  -  -  -  -  - <i>Terminalia citrina</i><br> -  -  -  -  -  - <i>Terminalia foetidissima</i><br> -  -  -  - Lythraceae<br> -  -  -  -  - <i>Duabanga</i><br> -  -  -  -  -  - <i>Duabanga moluccana</i><br> -  -  -  - Melastomataceae<br> -  -  -  -  - <i>Clidemia</i><br> -  -  -  -  -  - <i>Clidemia hirta</i><br> -  -  -  -  - <i>Melastoma</i><br> -  -  -  -  -  - <i>Melastoma malabathricum</i><br> -  -  -  -  - <i>Memecylon</i><br> -  -  -  -  -  - <i>Memecylon oleifolium</i><br> -  -  -  - Myrtaceae<br> -  -  -  -  - <i>Syzygium</i><br> -  -  -  -  -  - <i>Syzygium caudatilimbum</i><br> -  -  -  -  -  - <i>Syzygium chloranthum</i><br> -  -  -  -  -  - <i>Syzygium elopurae</i><br> -  -  -  -  -  - <i>Syzygium grande</i><br> -  -  -  -  -  - <i>Syzygium griffithii</i><br> -  -  -  -  -  - <i>Syzygium kunstleri</i><br> -  -  -  -  -  - <i>Syzygium lineatum</i><br> -  -  -  -  -  - <i>Syzygium pancheri</i><br> -  -  -  -  -  - <i>Syzygium panzeri</i><br> -  -  -  -  -  - <i>Syzygium pustulatum</i><br> -  -  -  -  -  - <i>Syzygium racemosum</i><br> -  -  -  -  -  - <i>Syzygium rheophyticum</i><br> -  -  -  -  - <i>Tristaniopsis</i><br> -  -  -  -  -  - <i>Tristaniopsis whiteana</i><br> -  -  - Oxalidales<br> -  -  -  - Elaeocarpaceae<br> -  -  -  -  - <i>Elaeocarpus</i><br> -  -  -  -  -  - <i>Elaeocarpus floribundus</i><br> -  -  -  -  -  - <i>Elaeocarpus pedunculatus</i><br> -  -  -  -  -  - <i>Elaeocarpus stipularis</i><br> -  -  -  -  - <i>Sloanea</i><br> -  -  -  -  -  - <i>Sloanea javanica</i><br> -  -  - Rosales<br> -  -  -  - Cannabaceae<br> -  -  -  -  - <i>Gironniera</i><br> -  -  -  -  -  - <i>Gironniera nervosa</i><br> -  -  -  -  - <i>Trema</i><br> -  -  -  -  -  - <i>Trema orientalis</i><br> -  -  -  - Moraceae<br> -  -  -  -  - <i>Antiaris</i><br> -  -  -  -  -  - <i>Antiaris toxicaria</i><br> -  -  -  -  - <i>Artocarpus</i><br> -  -  -  -  -  - <i>Artocarpus anisophyllus</i><br> -  -  -  -  -  - <i>Artocarpus glaucus</i><br> -  -  -  -  -  - <i>Artocarpus integer</i><br> -  -  -  -  -  - <i>Artocarpus odoratissimus</i><br> -  -  -  -  -  - <i>Artocarpus tamaran</i><br> -  -  -  -  - <i>Ficus</i><br> -  -  -  -  -  - <i>Ficus hispida</i><br> -  -  -  -  -  - <i>Ficus septica</i><br> -  -  -  -  -  - <i>Ficus uncinata</i><br> -  -  -  -  -  - <i>Ficus variegata</i><br> -  -  -  - Rosaceae<br> -  -  -  -  - <i>Prunus</i><br> -  -  -  -  -  - <i>Prunus javanica</i><br> -  -  -  -  - <i>Pygeum</i><br> -  -  -  -  -  - <i>Pygeum beccarii</i><br> -  -  -  - Urticaceae<br> -  -  -  -  - <i>Dendrocnide</i><br> -  -  -  -  -  - <i>Dendrocnide elliptica</i><br> -  -  - Santalales<br> -  -  -  - Coulaceae<br> -  -  -  -  - <i>Ochanostachys</i><br> -  -  -  -  -  - <i>Ochanostachys amentacea</i><br> -  -  -  - Strombosiaceae<br> -  -  -  -  - <i>Scorodocarpus</i><br> -  -  -  -  -  - <i>Scorodocarpus borneensis</i><br> -  -  - Sapindales<br> -  -  -  - Anacardiaceae<br> -  -  -  -  - <i>Gluta</i><br> -  -  -  -  -  - <i>Gluta aptera</i><br> -  -  -  -  -  - <i>Gluta wallichii</i><br> -  -  -  -  - <i>Mangifera</i><br> -  -  -  -  -  - <i>Mangifera odorata</i><br> -  -  -  -  - <i>Melanochyla</i><br> -  -  -  -  -  - <i>Melanochyla bullata</i><br> -  -  -  -  -  - <i>Melanochyla tomentosa</i><br> -  -  -  -  - <i>Parishia</i><br> -  -  -  -  -  - <i>Parishia insignis</i><br> -  -  -  - Burseraceae<br> -  -  -  -  - <i>Canarium</i><br> -  -  -  -  -  - <i>Canarium decumanum</i><br> -  -  -  -  -  - <i>Canarium denticulatum</i><br> -  -  -  -  -  - <i>Canarium odontophyllum</i><br> -  -  -  -  -  - <i>Canarium pilosum</i><br> -  -  -  -  - <i>Dacryodes</i><br> -  -  -  -  -  - <i>Dacryodes rostrata</i><br> -  -  -  -  -  - <i>Dacryodes rugosa</i><br> -  -  -  -  - <i>Santiria</i><br> -  -  -  -  -  - <i>Santiria laevigata</i><br> -  -  -  - Meliaceae<br> -  -  -  -  - <i>Aglaia</i><br> -  -  -  -  -  - <i>Aglaia crassinervia</i><br> -  -  -  -  -  - <i>Aglaia leptantha</i><br> -  -  -  -  -  - <i>Aglaia macrocarpa</i><br> -  -  -  -  -  - <i>Aglaia odoratissima</i><br> -  -  -  -  -  - <i>Aglaia oligophylla</i><br> -  -  -  -  -  - <i>Aglaia silvestris</i><br> -  -  -  -  -  - <i>Aglaia tomentosa</i><br> -  -  -  -  - <i>Aphanamixis</i><br> -  -  -  -  -  - <i>Aphanamixis polystachya</i><br> -  -  -  -  - <i>Chisocheton</i><br> -  -  -  -  -  - <i>Chisocheton ceramicus</i><br> -  -  -  -  -  - <i>Chisocheton macranthus</i><br> -  -  -  -  -  - <i>Chisocheton patens</i><br> -  -  -  -  - <i>Dysoxylum</i><br> -  -  -  -  -  - <i>Dysoxylum cyrtobotryum</i><br> -  -  -  -  -  - <i>Dysoxylum densiflorum</i><br> -  -  -  -  - <i>Lansium</i><br> -  -  -  -  -  - <i>Lansium domesticum</i><br> -  -  -  -  - <i>Reinwardtiodendron</i><br> -  -  -  -  -  - <i>Reinwardtiodendron humile</i><br> -  -  -  -  - <i>Walsura</i><br> -  -  -  -  -  - <i>Walsura pinnata</i><br> -  -  -  - Rutaceae<br> -  -  -  -  - <i>Melicope</i><br> -  -  -  -  -  - <i>Melicope confusa</i><br> -  -  -  - Sapindaceae<br> -  -  -  -  - <i>Dimocarpus</i><br> -  -  -  -  -  - <i>Dimocarpus longan</i><br> -  -  -  -  - <i>Nephelium</i><br> -  -  -  -  -  - <i>Nephelium cuspidatum</i><br> -  -  -  -  - <i>Paranephelium</i><br> -  -  -  -  -  - <i>Paranephelium macrophyllum</i><br> -  -  -  -  -  - <i>Paranephelium xestophyllum</i><br> -  -  -  -  - <i>Pometia</i><br> -  -  -  -  -  - <i>Pometia pinnata</i><br> -  -  -  -  - <i>Tristiropsis</i><br> -  -  -  -  -  - <i>Tristiropsis acutangula</i><br> -  -  - Solanales<br> -  -  -  - Convolvulaceae<br> -  -  -  -  - <i>Decalobanthus</i><br> -  -  -  -  -  - <i>Decalobanthus borneensis</i><br> -  -  -  -  - <i>Jacquemontia</i><br> -  -  -  -  -  - <i>Jacquemontia tomentella</i><br> -  - Polypodiopsida<br> -  -  - Gleicheniales<br> -  -  -  - Gleicheniaceae<br> -  -  -  -  - <i>Dicranopteris</i><br> -  -  -  -  -  - <i>Dicranopteris pubigera</i><br> -  -  - Polypodiales<br> -  -  -  - Lomariopsidaceae<br> -  -  -  -  - <i>Nephrolepis</i><br> -  -  -  -  -  - <i>Nephrolepis biserrata</i><br></div><p></p>
Interactions between enrichment planted seedlings and mature trees in selectively logged lowland dipterocarp forest - dataset
<div> <h2>Description</h2> <p>Old-growth forests in Southeast Asia are dominated by trees of the Dipterocarpaceae family which are targeted by selective logging. Their traits (supra-annual mast fruiting, limited dispersal, and recalcitrant seeds that form no seed bank) mean they can have poor natural regeneration rates in some selectively logged forests. Enrichment planting is commonly used to overcome recruitment limitation and increase restoration success. However, it is still unclear what factors influence the success rate of planted seedlings, including the characteristics of the surrounding tree matrix and local neighbourhood. <br>Here, we examine the growth and survival of 721 enrichment line-planted seedlings within 24 plots of the selectively logged forest of the Sabah Biodiversity Experiment, in Malaysian Borneo, in relation to their species identity and local neighbourhoods. We mapped the spatial location, size, and identity of nearly 5,000 surrounding matrix trees (≥ 10 cm diameter at breast height ) within a 10 m radius of focal planted seedlings in 2012 and 2015. We analysed levels of tree density-dependence (in terms of canopy openness and total basal area of surrounding matrix trees), asymmetric competition with naturally occurring trees (the proportion of total basal area within a 10 m radius belonging to the largest tree), and confamilial density-dependence (the proportion of total basal area within a 10 m radius belonging to dipterocarps) for each seedling. The following research questions were addressed: how do changes in (a) light availability, (b) local competition, (c) asymmetric competition, and (d) confamilial density-dependence affect the (1) growth and (2) survival of enrichment planted dipterocarp seedlings? To answer these questions, we mapped the tree size, identity (dipterocarp or non-dipterocarp), and spatial location of surrounding matrix trees with DBH ≥ 10 cm within a 10 m radius of each planted seedling. Column descriptions:<br>tree.id: The ID of the tree in question. This takes the format [plot].[line].[number] with cohort (Old [O] or new [N]) at the end.<br>IDPlots: The plot number the tree in question is located in.<br>Line_number: The specific line within a plot that the tree in question is located in.<br>sp.plot: Column specifying both the species and the plot number of the tree in question, separated by a period.<br>sp.cohort: Column specifying both the species and the cohort of the tree in question, separated by a comma.<br>richness: If the plot the tree is located in is a plot enrichment-planted with one (mono) or 16 species (sixteen).<br>X_m: Relative x coordinate - the first position of Field-Map had x,y,z-coordinates (0,0,0).<br>Y_m: Relative y coordinate.<br>Z_m: Relative z coordinate.<br>genus: The genus-level identity of the seedling.<br>species: The species-level identity of the seedling<br>survival: If the seedling was alive by 2015 (1 = alive, 0 = dead).<br>planting.date: The date of planting of the seedling.<br>survey_2002: the date of the survey for the 2002 census<br>survey_2011: the date of the survey for the 2011 census.<br>survey_2012: the date of the survey for the 2012 census.<br>survey_2015: the date of the survey for the 2015 census.<br>cohort: if this seedling was part of the initial planted cohort planted in 2002 (cohort 1) or the second cohort (cohort 2) which was planted later to replace those that had died.<br>age_2002: the age (in days) of seedlings at the time of their survey in 2002<br>age_2011: the age (in days) of seedlings at the time of their survey in 2011<br>age_2012: the age (in days) of seedlings at the time of their survey in 2012<br>age_2015: the age (in days) of seedlings at the time of their survey in 2015<br>diam_2002: Basal diameter of seedling in 2002, measured in mm.<br>diam_2011: Basal diameter of seedling in 2011, measured in mm.<br>diam_2012: Basal diameter of seedling in 2012, measured in mm.<br>diam_2015: Basal diameter of seedling in 2015, measured in mm.<br>DBH_2002: DBH of seedling in 2002, measured in mm.<br>DBH_2011: DBH of seedling in 2011, measured in mm.<br>DBH_2012: DBH of seedling in 2012, measured in mm.<br>DBH_2015: DBH of seedling in 2015, measured in mm.<br>rgr_2002: the relative growth rate of seedling, calculated as (ln(diameter in 2015)-ln(diameter in 2002) / (age in days in 2015 - age in days in 2002).<br>rgr_2011: the relative growth rate of seedling, calculated as (ln(diameter in 2015)-ln(diameter in 2011) / (age in days in 2015 - age in days in 2011).<br>rgr_2012: the relative growth rate of seedling, calculated as (ln(diameter in 2015)-ln(diameter in 2012) / (age in days in 2015 - age in days in 2012).<br>openness: The average canopy openness score across 4 cardinal directions, taken during the second census.<br>ba_total_5: the total basal area of surrounding trees within 5 m of the focal seedling <br>ba_total_10: the total basal area of surrounding trees between 5 and 10 m of the focal seedling <br>ba_total: the total basal area of surrounding trees within 10 m of the focal seedling <br>ba_mean_5: the mean basal area of surrounding trees within 5 m of the focal seedling <br>ba_mean_10: the mean basal area of surrounding trees between 5 and 10 m of the focal seedling <br>ba_mean: the mean basal area of surrounding trees within 10 m of the focal seedling <br>dbh_max_5: The basal area of the largest tree within 5 m of the focal seedling <br>dbh_max_10: The basal area of the largest tree between 5 and 10 m of the focal seedling <br>dbh_max: The basal area of the largest tree within 10 m of the focal seedling <br>no_trees_5: The number of trees within 5 m of the focal seedling<br>no_trees_10: The number of trees between 5 and 10 m of the focal seedling<br>no_trees: The number of trees between 5 and 10 m of the focal seedling<br>ba_total_5_nondip: the total basal area of surrounding trees within 5 m of the focal seedling, considering only surrounding non-dipterocarps<br>ba_total_10_nondip: the total basal area of surrounding trees between 5 and 10 m of the focal seedling , considering only surrounding non-dipterocarps<br>ba_total_nondip: the total basal area of surrounding trees within 10 m of the focal seedling , considering only surrounding non-dipterocarps<br>ba_mean_5_nondip: the mean basal area of surrounding trees within 5 m of the focal seedling, considering only surrounding non-dipterocarps<br>ba_mean_10_nondip: the mean basal area of surrounding trees between 5 and 10 m of the focal seedling, considering only surrounding non-dipterocarps<br>ba_mean_nondip: the mean basal area of surrounding trees within 10 m of the focal seedling, considering only surrounding non-dipterocarps<br>dbh_max_5_nondip: The basal area of the largest tree within 5 m of the focal seedling, considering only surrounding non-dipterocarps<br>dbh_max_10_nondip: The basal area of the largest tree between 5 and 10 m of the focal seedling, considering only surrounding non-dipterocarps<br>dbh_max_nondip: The basal area of the largest tree within 10 m of the focal seedling, considering only surrounding non-dipterocarps<br>no_trees_5_nondip: The number of trees within 5 m of the focal seedling, considering only surrounding non-dipterocarps<br>no_trees_10_nondip: The number of trees between 5 and 10 m of the focal seedling, considering only surrounding non-dipterocarps<br>no_trees_nondip: The number of trees within 10 m of the focal seedling, considering only surrounding non-dipterocarps<br>ba_total_5_dip: the total basal area of surrounding trees within 5 m of the focal seedling, considering only surrounding dipterocarps<br>ba_total_10_dip: the total basal area of surrounding trees between 5 and 10 m of the focal seedling, considering only surrounding dipterocarps<br>ba_total_dip: the total basal area of surrounding trees within 10 m of the focal seedling , considering only surrounding dipterocarps<br>ba_mean_5_dip: the mean basal area of surrounding trees within 5 m of the focal seedling, considering only surrounding dipterocarps<br>ba_mean_10_dip: the mean basal area of surrounding trees between 5 and 10 m of the focal seedling, considering only surrounding dipterocarps<br>ba_mean_dip: the mean basal area of surrounding trees within 10 m of the focal seedling, considering only surrounding dipterocarps<br>dbh_max_5_dip: The basal area of the largest tree within 5 m of the focal seedling, considering only surrounding dipterocarps<br>dbh_max_10_dip: The basal area of the largest tree between 5 and 10 m of the focal seedling, considering only surrounding dipterocarps<br>dbh_max_dip: The basal area of the largest tree within 10 m of the focal seedling, considering only surrounding dipterocarps<br>no_trees_5_dip: The number of trees within 5 m of the focal seedling, considering only surrounding dipterocarps<br>no_trees_10_dip: The number of trees between 5 and 10 m of the focal seedling, considering only surrounding dipterocarps<br>no_trees_dip: The number of trees within 10 m of the focal seedling, considering only surrounding dipterocarps<br>openness_log: the openness column now expressed on a natural log scale.<br>ba_total_log: The ba_total column expressed on a natural log scale.<br>ba_total_log_scaled: The ba_total_log column scaled using the scale() function (center = TRUE, scale = FALSE).<br>prop_dip: The proportion of basal area of surrounding trees that belong to dipterocarps<br>ba_max: The basal area of the largest tree, calculated as pi * ((dbh_max / 10) ^ 2) / 40000.<br>prop_ba_max: the proportion of the basal area that belongs to the largest single tree</p> <h2>Contact Person</h2> <p>Ryan Veryard (ryan@veryard.co.uk)</p> <h2>Funding</h2> <p>These data were collected as part of research funded by:</p> <ul> <li>National Environmental Research Council (Standard grant , NE/S007474/1 , <a href="https://www.environmental-research.ox.ac.uk/">https://www.environmental-research.ox.ac.uk/</a> )</li> <li>Agencia Estatal de Investigación de España (Standard grant , RYC2021-032049-I , <a href="https://www.aei.gob.es/">https://www.aei.gob.es/</a> )</li> <li>Ministry of Education, Youth and Sports of the Czech Republic (Standard grant , INTER-TRANSFER LTT17017 , <a href="https://msmt.gov.cz/">https://msmt.gov.cz/</a> )</li> </ul> <p> </p> <p>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.</p> <h2>Files</h2> <p>This dataset consists of 1 file: fieldmap_dataset.xlsx</p> <h3>fieldmap_dataset.xlsx</h3> <p>This file contains dataset metadata and 1 data tables:</p> <h3>Interactions between enrichment planted seedlings and mature trees in selectively logged lowland dipterocarp forest - dataset</h3> <ul> <li>Worksheet: Fieldmap_data</li> <li>Description: Dataset for the published paper "Interactions between enrichment planted seedlings and mature trees in selectively logged lowland dipterocarp forest"</li> <li>Number of fields: 74</li> <li>Number of data rows: 721</li> <ul> <li>tree.id: The ID of the tree in question. This takes the format [plot].[line].[number] with cohort (Old [O] or new [N]) at the end. (type: replicate)</li> <li>IDPlots: The plot number the tree in question is located in. (type: location)</li> <li>Line_number: The specific line within a plot that the tree in question is located in. (type: numeric)</li> <li>richness: If the plot the tree is located in is a plot enrichment-planted with one (mono) or 16 species (sixteen). (type: ordered categorical)</li> <li>X_m: Relative x coordinate - the first position of Field-Map had x,y,z-coordinates (0,0,0). (type: numeric)</li> <li>Y_m: Relative y coordinate. (type: numeric)</li> <li>Z_m: Relative z coordinate. (type: numeric)</li> <li>genus: The genus-level identity of the seedling. (type: categorical)</li> <li>species: The species-level identity of the seedling (type: taxa)</li> <li>survival: If the seedling was alive by 2015 (1 = alive, 0 = dead). (type: numeric trait)</li> <li>planting.date: The date of planting of the seedling. (type: date)</li> <li>survey_2002: the date of the survey for the 2002 census (type: date)</li> <li>survey_2011: the date of the survey for the 2011 census. (type: date)</li> <li>survey_2012: the date of the survey for the 2012 census. (type: date)</li> <li>survey_2015: the date of the survey for the 2015 census. (type: date)</li> <li>cohort: if this seedling was part of the initial planted cohort planted in 2002 (cohort 1) or the second cohort (cohort 2) which was planted later to replace those that had died. (type: ordered categorical)</li> <li>age_2002: the age (in days) of seedlings at the time of their survey in 2002 (type: numeric trait)</li> <li>age_2011: the age (in days) of seedlings at the time of their survey in 2011 (type: numeric trait)</li> <li>age_2012: the age (in days) of seedlings at the time of their survey in 2012 (type: numeric trait)</li> <li>age_2015: the age (in days) of seedlings at the time of their survey in 2015 (type: numeric trait)</li> <li>diam_2002: Basal diameter of seedling in 2002, measured in mm. (type: numeric trait)</li> <li>diam_2011: Basal diameter of seedling in 2011, measured in mm. (type: numeric trait)</li> <li>diam_2012: Basal diameter of seedling in 2012, measured in mm. (type: numeric trait)</li> <li>diam_2015: Basal diameter of seedling in 2015, measured in mm. (type: numeric trait)</li> <li>DBH_2002: DBH of seedling in 2002, measured in mm. (type: numeric trait)</li> <li>DBH_2011: DBH of seedling in 2011, measured in mm. (type: numeric trait)</li> <li>DBH_2012: DBH of seedling in 2012, measured in mm. (type: numeric trait)</li> <li>DBH_2015: DBH of seedling in 2015, measured in mm. (type: numeric trait)</li> <li>rgr_2002: the relative growth rate of seedling, calculated as (ln(diameter in 2015)-ln(diameter in 2002) / (age in days in 2015 - age in days in 2002). (type: numeric trait)</li> <li>rgr_2011: the relative growth rate of seedling, calculated as (ln(diameter in 2015)-ln(diameter in 2011) / (age in days in 2015 - age in days in 2011). (type: numeric trait)</li> <li>rgr_2012: the relative growth rate of seedling, calculated as (ln(diameter in 2015)-ln(diameter in 2012) / (age in days in 2015 - age in days in 2012). (type: numeric trait)</li> <li>openness: The average canopy openness score across 4 cardinal directions, taken during the second census. (type: numeric)</li> <li>ba_total_5: the total basal area of surrounding trees within 5 m of the focal seedling (type: numeric)</li> <li>ba_total_10: the total basal area of surrounding trees between 5 and 10 m of the focal seedling (type: numeric)</li> <li>ba_total: the total basal area of surrounding trees within 10 m of the focal seedling (type: numeric)</li> <li>ba_mean_5: the mean basal area of surrounding trees within 5 m of the focal seedling (type: numeric)</li> <li>ba_mean_10: the mean basal area of surrounding trees between 5 and 10 m of the focal seedling (type: numeric)</li> <li>ba_mean: the mean basal area of surrounding trees within 10 m of the focal seedling (type: numeric)</li> <li>dbh_max_5: The basal area of the largest tree within 5 m of the focal seedling (type: numeric)</li> <li>dbh_max_10: The basal area of the largest tree between 5 and 10 m of the focal seedling (type: numeric)</li> <li>dbh_max: The basal area of the largest tree within 10 m of the focal seedling (type: numeric)</li> <li>no_trees_5: The number of trees within 5 m of the focal seedling (type: numeric)</li> <li>no_trees_10: The number of trees between 5 and 10 m of the focal seedling (type: numeric)</li> <li>no_trees: The number of trees between 5 and 10 m of the focal seedling (type: numeric)</li> <li>ba_total_5_nondip: the total basal area of surrounding trees within 5 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>ba_total_10_nondip: the total basal area of surrounding trees between 5 and 10 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>ba_total_nondip: the total basal area of surrounding trees within 10 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>ba_mean_5_nondip: the mean basal area of surrounding trees within 5 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>ba_mean_10_nondip: the mean basal area of surrounding trees between 5 and 10 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>ba_mean_nondip: the mean basal area of surrounding trees within 10 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>dbh_max_5_nondip: The basal area of the largest tree within 5 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>dbh_max_10_nondip: The basal area of the largest tree between 5 and 10 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>dbh_max_nondip: The basal area of the largest tree within 10 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>no_trees_5_nondip: The number of trees within 5 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>no_trees_10_nondip: The number of trees between 5 and 10 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>no_trees_nondip: The number of trees within 10 m of the focal seedling, considering only surrounding non-dipterocarps (type: numeric)</li> <li>ba_total_5_dip: the total basal area of surrounding trees within 5 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>ba_total_10_dip: the total basal area of surrounding trees between 5 and 10 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>ba_total_dip: the total basal area of surrounding trees within 10 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>ba_mean_5_dip: the mean basal area of surrounding trees within 5 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>ba_mean_10_dip: the mean basal area of surrounding trees between 5 and 10 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>ba_mean_dip: the mean basal area of surrounding trees within 10 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>dbh_max_5_dip: The basal area of the largest tree within 5 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>dbh_max_10_dip: The basal area of the largest tree between 5 and 10 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>dbh_max_dip: The basal area of the largest tree within 10 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>no_trees_5_dip: The number of trees within 5 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>no_trees_10_dip: The number of trees between 5 and 10 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>no_trees_dip: The number of trees within 10 m of the focal seedling, considering only surrounding dipterocarps (type: numeric)</li> <li>openness_log: the openness column now expressed on a natural log scale. (type: numeric)</li> <li>ba_total_log: The ba_total column expressed on a natural log scale. (type: numeric)</li> <li>ba_total_log_scaled: The ba_total_log column scaled using the scale() function (center = TRUE, scale = FALSE). (type: numeric)</li> <li>prop_dip: The proportion of basal area of surrounding trees that belong to dipterocarps (type: numeric)</li> <li>ba_max: The basal area of the largest tree, calculated as pi * ((dbh_max / 10) ^ 2) / 40000. (type: numeric)</li> <li>prop_ba_max: the proportion of the basal area that belongs to the largest single tree (type: numeric)</li> </ul> </ul> <h2>Extents</h2> <ul> <li>Date range: 2002-07-01 to 2015-05-28</li> <li>Latitudinal extent: 5.07° to 5.1°</li> <li>Longitudinal extent: 117.64° to 117.67°</li> </ul> <h2>Taxonomic coverage</h2> <p>This dataset contains data associated with taxa and these have been validated against appropriate taxonomic authority databases.</p> <h3>GBIF taxa details</h3> <p>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.</p> <div> - Plantae<br> -  - Tracheophyta<br> -  -  - Magnoliopsida<br> -  -  -  - Malvales<br> -  -  -  -  - Dipterocarpaceae<br> -  -  -  -  -  - <em>Dipterocarpus</em><br> -  -  -  -  -  -  - <em>Dipterocarpus conformis</em><br> -  -  -  -  -  - <em>Dryobalanops</em><br> -  -  -  -  -  -  - <em>Dryobalanops lanceolata</em><br> -  -  -  -  -  - <em>Hopea</em><br> -  -  -  -  -  -  - <em>Hopea ferruginea</em><br> -  -  -  -  -  -  - <em>Hopea sangal</em><br> -  -  -  -  -  - <em>Parashorea</em><br> -  -  -  -  -  -  - <em>Parashorea malaanonan</em><br> -  -  -  -  -  -  - <em>Parashorea warburgii</em> (as synonym: <em>Parashorea tomentella</em>)<br> -  -  -  -  -  - <em>Shorea</em><br> -  -  -  -  -  -  - <em>Shorea argentifolia</em><br> -  -  -  -  -  -  - <em>Shorea beccariana</em><br> -  -  -  -  -  -  - <em>Shorea faguetiana</em><br> -  -  -  -  -  -  - <em>Shorea gibbosa</em><br> -  -  -  -  -  -  - <em>Shorea johorensis</em><br> -  -  -  -  -  -  - <em>Shorea leprosula</em><br> -  -  -  -  -  -  - <em>Shorea macrophylla</em><br> -  -  -  -  -  -  - <em>Shorea macroptera</em><br> -  -  -  -  -  -  - <em>Shorea ovalis</em><br> -  -  -  -  -  -  - <em>Shorea parvifolia</em></div> </div>
Soil Moisture and vegetation cover patterns after logging and burning an old-growth Douglas-fir forest in the Andrews Experimental Forest, 1960-1983
This soil moisture study was initiated in 1960 to investigate the effects of patch clearcut logging and slash burning (1962-63) in an old-growth Douglas-fir forest in the Oregon Cascade Range. Since soil moisture and vegetation sampling continued regularly until 1980, this is a unique data set that represents nearly two decades of post-treatment information. Plant cover exerts a profound influence on soil moisture levels through its effects on interception, infiltration, evaporation, and transpiration. In the Douglas-fir forests of the Pacific Northwest, clearcut logging and slash burning are common practices that can dramatically alter plant cover and soil moisture. Logging can increase soil moisture by temporarily reducing cover and associated water use, and burning may further augment soil moisture levels by suppressing the survival and regrowth of vegetation. Indeed, part of the rationale for slash burning in the region is to control shrubs and other vegetation that would otherwise compete with conifer seedlings for available moisture, light, and nutrients. Within a few years after burning, however, invading vegetation may deplete soil moisture to levels comparable to forested areas. Such observations point to the value of long-term information to better understand dynamic soil moisture and plant cover responses to forest practices.
Varying impacts of logging frequency on tree communities and carbon storage across evergreen and deciduous tropical forests in the Andaman Islands, India
<p>The majority of Earth's tropical forests have been selectively logged; some on repeated occasions. Selective logging is known to affect forest structure, composition and function in various ways, but how such effects vary with logging frequency and across forest types remains unclear. In the Andaman Archipelago in India, we examined adult and pole-sized trees in baseline (unlogged since 1990s), once-logged (logged between 2007 and 2014) and twice-logged (logged in early 1990s and between 2007 and 2014) evergreen and deciduous forests, and tested whether higher logging frequency was associated with lower canopy cover, tree density, tree diversity, aboveground carbon stocks and divergence in species composition, including increased relative abundances of deciduous species in these forests. While once-logged evergreen and deciduous forests were similar to their respective baselines for most attributes assessed, and twice-logged evergreen forests had 22–24% lower adult tree density and diversity, twice-logged deciduous forests had 17–50% lower canopy cover, pole density, adult species diversity and above-ground carbon stocks, and 12% higher deciduous fractions compared to the baselines. Collectively our results reveal lasting impacts of repeated selective logging, even at relative low intensity, on tree communities and carbon storage. These impacts can potentially be mitigated by reducing logging frequency and retaining unlogged patches in logged landscapes, but management must also incorporate heterogeneity in responses and recovery across different forest types. In the Andaman Islands, all forests may require more than 15–25 years between logging events, with deciduous forests potentially requiring more stringent extraction limits compared to evergreen forests.</p>
Patterns of liana diversity and host interaction networks in selectively-logged and unlogged forests of Uppangala, Western Ghats, India
<p>Lianas shape tropical forest species composition, structure, and dynamics. Increasing climate fluctuation and anthropogenic disturbances increase liana abundance. Despite the increasing number of liana studies in India, only a few have examined the distribution and association of hosts with lianas, or liana-host interaction networks to determine their functional significance and conservational value. Therefore, our objective was to fill the knowledge gap about the diversity, abundance, and network structure of liana-host interactions in response to logging disturbance in a wet evergreen forest of Uppangala in central Western Ghats, India. We sampled lianas ≥1 cm in diameter at 1.3 m from the base and their host trees in thirty 20m x 20m plots in selectively-logged and unlogged forest management regimes. We evaluated liana-host tree interactions in logged and unlogged forests and retrieved community-level measures (nestedness, connectance, modularity, and network specialization index) and species-level indicators (species specialization index). Diversity and abundance of liana species were considerably greater in the selectively logged forest site. The logged forest site had compartmentalization, anti-nestedness, and network specialization, while unlogged forests were not showing any significant network structure. Most species of lianas and hosts were peripherals, but others were structurally important (connectors, module hubs, and network hubs) in the two forest sites. Forest management regimes had distinct structurally significant species.</p>
Investigating small mammal microhabitat selection in logged and unlogged tropical forests
<b>Description: </b><p>Spool and line tracking data on small mammals</p><p><b>Project: </b>This dataset was collected as part of the following SAFE research project: <a href="https://www.safeproject.net/projects/project_view/87"><b>Investigating small mammal microhabitat selection in logged and unlogged tropical forests</b></a></p><p><b>XML metadata: </b>GEMINI compliant metadata for this dataset is available <a href="https://www.safeproject.net/datasets/xml_metadata?id=60">here</a></p><p><b>Data worksheets: </b>There are 3 data worksheets in this dataset:</p><ol><li><p><b>Tracking data</b> (Worksheet Tracking)</p><p>Dimensions: 1396 rows by 15 columns</p><p>Description: Individual trap segment details for all spool-and-line tracked individuals</p><p>Fields: </p><ul><li><b>block</b>: SAFE Project Block in which trapping grid was located (Field type: Location)</li><li><b>Date</b>: Date individual was spooled (Field type: Date)</li><li><b>Species</b>: Species identity (Field type: Taxa)</li><li><b>Trap</b>: Trap number on the grid where individual was captured (Field type: ID)</li><li><b>Respool</b>: Has this individual been tracked previously? (Field type: Categorical)</li><li><b>track</b>: Track ID for that day (Field type: Replicate)</li><li><b>Pit.tag.no.</b>: PIT tag number of the individual being tracked (Field type: ID)</li><li><b>Sex</b>: Sex oFxthe individual (Field type: Categorical)</li><li><b>Weight</b>: Body mass of the individual (Field type: Numeric)</li><li><b>Distance</b>: Length of straight line portion of track (Field type: Numeric)</li><li><b>Bearing</b>: Compass bearing of track portion (Field type: Numeric)</li><li><b>Dominant.habitat.feature</b>: Habitat taype on the observed route (Field type: Categorical)</li><li><b>feature.control</b>: Habitat type on the control route (Field type: Categorical)</li><li><b>height</b>: Height above ground (Field type: Ordered Categorical)</li></ul><br></li><li><p><b>microhabitat data</b> (Worksheet microhabitat)</p><p>Dimensions: 597 rows by 15 columns</p><p>Description: Microhabitat details recorded along spool tracks</p><p>Fields: </p><ul><li><b>Species</b>: Species identity (Field type: Taxa)</li><li><b>individual</b>: PIT tag number of the individual being tracked (Field type: ID)</li><li><b>Control</b>: Is the record for the observed track of the control track? (Field type: Categorical)</li><li><b>ground</b>: Leaf density <0.5m above ground (Field type: Ordered Categorical)</li><li><b>understorey</b>: Leaf density 0.5m to 3m above ground (Field type: Ordered Categorical)</li><li><b>midstorey</b>: Leaf density 3m to 20m above ground (Field type: Ordered Categorical)</li><li><b>canopy</b>: Leaf density >20m above ground (Field type: Ordered Categorical)</li><li><b>forest.quality</b>: Forest quality (Field type: Ordered Categorical)</li><li><b>Predator</b>: Predation risk (Field type: Ordered Categorical)</li><li><b>Densiometer</b>: Canopy cover (Field type: Numeric)</li><li><b>Relascope</b>: Tree volume (Field type: Numeric)</li><li><b>height</b>: Height above ground (Field type: Ordered Categorical)</li><li><b>rain</b>: Rainfall (Field type: Ordered Categorical)</li><li><b>moon.phase</b>: Lunar phase (Field type: Ordered Categorical)</li></ul><br></li><li><p><b>environmental data</b> (Worksheet trap_covariates)</p><p>Dimensions: 295 rows by 14 columns</p><p>Description: Environmental quality metrics at trap locations</p><p>Fields: </p><ul><li><b>Site</b>: Site locality in camera trap grid (Field type: Location)</li><li><b>trap</b>: Trap identity within block (Field type: ID)</li><li><b>ground</b>: Leaf density <0.5m above ground (Field type: Ordered Categorical)</li><li><b>understorey</b>: Leaf density 0.5m to 3m above ground (Field type: Ordered Categorical)</li><li><b>midstorey</b>: Leaf density 3m to 20m above ground (Field type: Ordered Categorical)</li><li><b>canopy</b>: Leaf density >20m above ground (Field type: Ordered Categorical)</li><li><b>forest quality (O)</b>: Forest quality (Field type: Ordered Categorical)</li><li><b>Predator</b>: Predation risk (Field type: Ordered Categorical)</li><li><b>Densiometer 1</b>: Canopy cover - 1 of 4 measurements (Field type: Numeric)</li><li><b>Densiometer 2</b>: Canopy cover - 1 of 4 measurements (Field type: Numeric)</li><li><b>Densiometer 3</b>: Canopy cover - 1 of 4 measurements (Field type: Numeric)</li><li><b>Densiometer 4</b>: Canopy cover - 1 of 4 measurements (Field type: Numeric)</li><li><b>Relascope</b>: Tree volume (Field type: Numeric)</li></ul><br></li></ol><p><b>Date range: </b>2012-06-01 to 2012-07-21</p><p><b>Latitudinal extent: </b>4.6931 to 4.7166</p><p><b>Longitudinal extent: </b>117.5304 to 117.5975</p><p><b>Taxonomic coverage: </b><br> All taxon names are validated against the GBIF backbone taxonomy. 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.</p><div>Animalia<br> - Chordata<br> -  - Mammalia<br> -  -  - Rodentia<br> -  -  -  - Muridae<br> -  -  -  -  - <i>Chrotomys</i><br> -  -  -  -  -  - <i>Chrotomys whiteheadi</i> (as <i>Maxomys whiteheadi</i>)<br> -  -  -  -  - <i>Leopoldamys</i><br> -  -  -  -  -  - <i>Leopoldamys sabanus</i><br> -  -  -  -  - <i>Maxomys</i><br> -  -  -  -  -  - <i>Maxomys surifer</i><br> -  -  -  -  - <i>Rattus</i><br> -  -  -  -  -  - <i>Rattus rattus</i><br></div><p></p>
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.