Allometries: Tree species growth, biomass and crown data for detailed allometries

Usage Rights

This data is Private.

Brezzi Matteo, Schmid Bernhard, Baruffol Martin

Dataset Abstract

In order to get tree growth curves we estabilshed an allometry campaign during which we carefully measured, subsampled, dried and then re-constructed the biomass of 154 trees belonging to 8 species. The sampling is done to allows estimation of biomasses for different compartments in order to see if the different tree species have different growth pattern. The neighbours are as well measured to look at a possible influence of competition on tree growth and tree biomass compartimentation

Dataset Design

Trees were randomly chosen with the condition to look healthy and to have a particular DBH: because trees evenly located along the size range are needed to produce accurate growth curve estimate.General point:Every biomass or leaf area estimation come from an independent estimation and then has is own Standard Deviation. All the biomasses have been estimated SEPARATELY for each species in order to preserve specific differences (no pooling toward the grand mean). In all the models, the individual trees were considered as a random factor.The estimates and their standard deviation come from the posteriori distribution drawn out of the Markov chain Monte Carlo (three chains here). Each model was set up with 500'000 iterations from which the first 300'000 were discarded. Among the 200'000 valid iterations, one over twenty was kept in order to avoid the correlation between two consecutive estimates. So, each biomass estimate is the MEAN of the results given by the MCMC. The following variable is the SD of this mean (= "_sd").The model fit a value for each segment or each branch considered. The sum of them is done within the model: the final estimate gets a standard deviation that is right in confront with error propagation.The errors we provide are MODEL ERRORS. Thus they come from the variability around the estimates. Small trees for which every branch was measured in the lab have NO model error: the sd = 0.Bayesian estimation allows to include prior knowledge into the model: the priors. Here, we never used any informative priors, which means that our estimates come only from our own data.Branch biomass estimates:

Branches are "branches" in our definition when their diameter is equal or below 3 cm of diameter. Estimates coming from the sampled branches are the total branch biomass, the branch wood biomass and the branch leaf biomass. . For each branch, the total fresh wood weight ant the total fresh leaf weight were measured, subsamples were dried. From the dry mass of the subsamples the total dry mass of the leaves, wood and total branch were gathered.Usually, we have 6 branches / tree which have the real data measured (real branch number can be seen in the "branch_nb" variable). As descriptor variable we have their diameter and their position in the crown.

We use those predictors to predict the biomass of all the branches measured in vivo on the tree.For the branch biomass estimates, the model has this form:biomass estimate[i] ~ dnorm(yhat[i],tau[i])

yhat[i] is obtained by having three models running, one for the DAM, one for the total branch biomass and one for the total segment biomass. Their estimates are summed inside the model. Similarly, the total living biomass is obtain by summing the total segment biomass and the total branch biomass. The total wood biomass is obtained by summing the total segment biomass with the woody part of the branches biomass. ----- data describe among others: variables that describe the tree shape, the place where it was growing and its social situation;

Spatial Extent

According to Google Map, the site is N 29.113494, E 118.008817. The forest is an exploited plantation with about 80% of the trees being Cunninghamia lanceolata. The 20% remaining is naturally present there and comes from the surrounding natural forest. The site is situated at the end of a small valley with relatively strong slope

Temporal Extent

Time needed to sample the 154 trees

Taxonomic Extent

154 trees belonging to 8 different species (n, DBH size range in cm): 2 coniferous: Pinus massoniana (19, 2.9 – 23.2) and Cunninghamia lanceolata (17, 1 – 17.7), 3 deciduous: Liquidambar formosana (15, 2.6 – 37.5), Sassafras tzumu (20, 5.1 – 27.7) and Alniphyllum fortunei (21, 2.4 – 18.7), 3 evergreens: Castanopsis fargesi (25, 2.5 – 27.3), Castanopsis sclerophylla (16, 2.7 – 16.5) and Schima superba (21, 1.2 – 23.1).

Data Analysis

Exponential curves according to species and other covariates; This data are not "raw", to get the biomasses from the raw data one needs to many steps, so here we provide the processed data and the methods required to get them

Data columns available in the raw data part of this dataset

tree_code
unique tree code
Data group: Tree identifier for harvested trees
Keywords: tree, object
Values
105
103
101
104
107
* Baruffol, M. also contributed to this column.
species_acronym
species_acronym
Data group: Helper
Values
alf
lif
cas
caf
cul
species
species name
Data group: Scientific plant species name
Keywords: species, taxon, allometries
Values
Castanopsis fargesii
Liquidambar formosana
Cunninghamia lanceolata
Alniphyllum fortunei
Castanopsis sclerophylla
slope
the slope where the tree was; Instrumentation: compass Recta type armée Suisse DP6G (derived from datagroup)
Unit: Degree
Data group: Inclination
Keywords: inclination, slope
Values
12
10
14
13
16
* Baruffol, M. also contributed to this column.
exposition
exposition of the slope from North; Instrumentation: compass Recta type armée Suisse DP6G (derived from datagroup)
Unit: Degree
Data group: Aspect
Keywords: exposition, aspect
Values
0
10
190
197
20
* Baruffol, M. also contributed to this column.
geoform
description of the ground form; Instrumentation: none; Source: Christian Wirth, personal comunication
Unit: none
Data group: Curvature
Keywords: curvature
Values
concave
slope
convex
* Baruffol, M. also contributed to this column.
dbh
diameter at brest high of the tree; Instrumentation: caliper; Source: Snowdon, P. et al. (2002). Protocol for Sampling Tree and Stand Biomass. Office (pp. 1–76). Canberra, Australia
Unit: Centimeters
Data group: Diameter at breast height
Keywords: dbh, size
Values
1
10.3
10.1
10.2
10.4
heigh
vertical height of the standing tree; Instrumentation: Haglöf Vertex IV Hypsometer; Source: Snowdon, P. et al. (2002). Protocol for Sampling Tree and Stand Biomass. Office (pp. 1–76). Canberra, Australia
Unit: Meters
Data group: Plant height
Keywords: height, size
Values
10.7
10.4
10.6
10.5
10.3
* Baruffol, M. also contributed to this column.
crw_strt
vertical height of the crown start (measured on the standing tree); Instrumentation: Haglöf Vertex IV Hypsometer; Source: Snowdon, P. et al. (2002). Protocol for Sampling Tree and Stand Biomass. Office (pp. 1–76). Canberra, Australia
Unit: Meters
Data group: Crown architecture
Keywords: crown
Values
0.1
1
0.4
0.9
0.8
* Baruffol, M. also contributed to this column.
bas_d1
basal diameter of the tree (at 10 cm above the ground); Instrumentation: caliper; Source: Snowdon, P. et al. (2002). Protocol for Sampling Tree and Stand Biomass. Office (pp. 1–76). Canberra, Australia
Unit: Centimeters
Data group: Basal diameter
Keywords: basal diameter
Values
10.7
10.9
10
11
10.3
* Baruffol, M. also contributed to this column.
bas_d2
second basal diameter of the tree, measured perpenduculary of the first one (at 10 cm above the ground); Instrumentation: caliper; Source: Snowdon, P. et al. (2002). Protocol for Sampling Tree and Stand Biomass. Office (pp. 1–76). Canberra, Australia
Unit: Centimeters
Data group: Basal diameter
Keywords: basal diameter
Values
10.7
10.1
10.9
11
10.4
* Baruffol, M. also contributed to this column.
social_sta
social status of the tree; Instrumentation: none; Source: Christian Wirth, personal comunication
Unit: none
Data group: Tree social status
Keywords: social status
Values
5
3
4
2
* Baruffol, M. also contributed to this column.
crw_n
crown projection toward the North (measured on the standing tree); Instrumentation: ruler; Source: Snowdon, P. et al. (2002). Protocol for Sampling Tree and Stand Biomass. Office (pp. 1–76). Canberra, Australia
Unit: Meters
Data group: Crown architecture
Keywords: crown
Values
0.4
0
-0.3
0.3
0.2
* Baruffol, M. also contributed to this column.
crw_s
crown projection toward the South (measured on the standing tree); Instrumentation: ruler; Source: Snowdon, P. et al. (2002). Protocol for Sampling Tree and Stand Biomass. Office (pp. 1–76). Canberra, Australia
Unit: Meters
Data group: Crown architecture
Keywords: crown
Values
-0.5
0.2
0.4
0.5
0.6
* Baruffol, M. also contributed to this column.
crw_e
crown projection toward the East (measured on the standing tree); Instrumentation: ruler; Source: Snowdon, P. et al. (2002). Protocol for Sampling Tree and Stand Biomass. Office (pp. 1–76). Canberra, Australia
Unit: Meters
Data group: Crown architecture
Keywords: crown
Values
0.1
-0.1
0.2
0.15
0.05
* Baruffol, M. also contributed to this column.
crw_w
crown projection toward the West (measured on the standing tree); Instrumentation: ruler; Source: Snowdon, P. et al. (2002). Protocol for Sampling Tree and Stand Biomass. Office (pp. 1–76). Canberra, Australia
Unit: Meters
Data group: Crown architecture
Keywords: crown
Values
0.4
0
0.8
0.6
0.7
* Baruffol, M. also contributed to this column.
tot_bio_big
total dry standing biomass including the dead attached material
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: response variable, biomass
Values
1.00702335333333
0.183229019666667
0.513031193333333
1.02266464333333
0.365365278333333
* Baruffol, M. also contributed to this column.
tot_bio_big_sd
total dry standing biomass including the dead attached material standard deviation of the estimate (see sampling description)
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass
Values
0.0365129535044636
0.0548726710659948
0.0381755880348408
0.0561967243493172
0.0233461183333973
* Baruffol, M. also contributed to this column.
tot_bio
total dry biomass excluding the dead attached material
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass
Values
0.183229019666667
0.98988923
0.365365278333333
0.513031193333333
100.941464333333
* Baruffol, M. also contributed to this column.
tot_bio_sd
total dry biomass excluding the dead attached material standard deviation of the estimate (see sampling description)
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass
Values
0.0435399993116495
0.0548726710659948
0.0527099073814094
0.036764732970587
0.0233461183333973
* Baruffol, M. also contributed to this column.
tot_wood_bio
total dry wood biomass
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass, wood, dry weight
Values
0.392902148333333
0.933126776666667
0.244039089016667
0.835006626666667
0.131414159833333
* Baruffol, M. also contributed to this column.
tot_wood_bio_sd
total dry wood biomass estimates standard deviation (see sampling details)
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass, dry weight
Values
0.043074155425042
0.0146875639726168
0.0370585212769948
0.0382163692981812
0.0401769113665396
* Baruffol, M. also contributed to this column.
tlbiomass
total leaf dry biomass of the small branches
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass, leaf, dry weight
Values
0.0213221541079407
0.0488727315133333
0.0625853693033333
0.0247012378983333
0.0790891907558767
* Baruffol, M. also contributed to this column.
tlbiomass_sd
total leaf dry biomass of the small branches standard deviation of the estimate (see sampling description), indipendent estimates of the tree biomass or of the tree component biomass and their associated error
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass, leaf
Values
0.00948064263379279
0
0.0207986236502255
0.0141229249980643
0.0171096660056617
* Baruffol, M. also contributed to this column.
tlfarea
total leaf fresh area, indipendent estimates of the tree biomass or of the tree component biomass and their associated error
Unit: CentimetersSquared
Data group: Leaf area
Keywords: leaf
Values
1040183.77
113791.455
101954.043333333
106295.3635
105339.231666667
* Baruffol, M. also contributed to this column.
tlfarea_sd
total leaf fresh area standard deviation of the estimate (see sampling description), indipendent estimates of the tree biomass or of the tree component biomass and their associated error
Unit: CentimetersSquared
Data group: Leaf area
Keywords: leaf
Values
10139.1876292698
10056.9839574142
0
10024.2631107316
102552.884454243
* Baruffol, M. also contributed to this column.
tdambio
total dry biomass of the dead attached material, indipendent estimates of the tree biomass or of the tree component biomass and their associated error
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass
Values
0.002139311
0.0017140617
0.0018272328
0
0.00190497996666667
* Baruffol, M. also contributed to this column.
tdambio_sd
total dry biomass of the dead attached material standard deviation of the estimate (see sampling description), indipendent estimates of the tree biomass or of the tree component biomass and their associated error
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass
Values
0.000195800381588775
0
0.000291719474569235
0.00013547046553382
0.00013009448584222
* Baruffol, M. also contributed to this column.
sl_kg
total dry weight of the slice sampled in order to estimate the segment wood; data to quantifiy the amount of the tree really sampled in order to estimate the precision of the biomass estimate
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass
Values
0.02097
0.02116
0.00856
0
0.00349
* Baruffol, M. also contributed to this column.
slice_nb
number of slice sampled; Instrumentation: none; data to quantifiy the amount of the tree really sampled in order to estimate the precision of the biomass estimate
Unit: dimentionless
Data group: Sample size
Values
13
11
10
0
12
* Baruffol, M. also contributed to this column.
p.seg.samp
percentage of the total segment biomass for which we have a real biomass measure; Instrumentation: none; data to quantifiy the amount of the tree really sampled in order to estimate the precision of the biomass estimate
Unit: dimentionless
Data group: Helper
Values
0.674124248139835
0.731975089051266
0.9590675863808
0.827611823934838
1.0494343391189
* Baruffol, M. also contributed to this column.
field_bra_tot_weig
total fresh mass of the small branches weighted in the field; Instrumentation: field electronical dynamometer; data to quantifiy the amount of the tree really sampled in order to estimate the precision of the biomass estimate
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass, branch
Values
0.53
0.62
0.35
0.385
0.69
* Baruffol, M. also contributed to this column.
br_kg
total fresh weight of the branches sampled (brought back to the lab); data to quantifiy the amount of the tree really sampled in order to estimate the precision of the biomass estimate
Unit: Kilograms
Data group: Above and below ground biomass measurement
Keywords: biomass, branch
Values
0.32038
0.28111
0.22789
0.38696
0.34703
* Baruffol, M. also contributed to this column.
branch_nb
number of branches sampled; Instrumentation: none; data to quantifiy the amount of the tree really sampled in order to estimate the precision of the biomass estimate
Unit: dimentionless
Data group: Sample size
Values
5
4
3
1
2
* Baruffol, M. also contributed to this column.
p.branch.samp
percentage of the total small branch biomass for which we have a real detailed biomass measure.; Instrumentation: none; data to quantifiy the amount of the tree really sampled in order to estimate the precision of the biomass estimate
Unit: dimentionless
Data group: Helper
Values
11.9072774717309
100
10.0240708812261
10.7740208408193
11.9609736842105
* Baruffol, M. also contributed to this column.