DOI: 10.5061/dryad.sxksn03cj
title: Data from: Scaling of shoot and root respiration of woody and herbaceous plants

description: Woody and herbaceous plants are the main components of global terrestrial
 ecosystems, and their growth, adaptation, and survival depend largely on
 metabolism of shoots and roots. Therefore, understanding the size-scaling
 of metabolic rates in woody and herbaceous plants, and in shoots and
 roots, is a fundamental issue in ecology. However, few empirical studies
 have examined metabolic scaling exponents in a wide mass range of plants.
 Using whole-plant chamber systems, we measured respiration rates of entire
 root systems and shoots of 96 woody species (n = 1243) and 33 herbaceous
 species (n = 463) from various terrestrial biomes, with plant masses
 spanning nine orders of magnitude. Scaling exponents for relationships
 between respiration rates and fresh mass were greater in shoots than in
 roots, and both were greater in herbaceous plants than in woody plants.
 Furthermore, scaling of whole-plant respiration, including various
 species, converged separately for woody and herbaceous plants. These
 findings suggest some general physico-chemical constraints on energy use
 by shoots and roots of individual plants in various terrestrial biomes,
 including forests and grasslands. These data will advance understanding of
 terrestrial ecosystem structure and function.
description: # Data from: Scaling of shoot and root respiration of woody and herbaceous
 plants
 [https://doi.org/10.5061/dryad.sxksn03cj](https://doi.org/10.5061/dryad.sxksn03cj) ## Description of the data and file structure ### Files and variables #### File: data.respiration.csv **Description:** Dataset of respiration rates. The data of woody plants were taken from Mori et al. (2010) and Kurosawa et al. (2023) and additional measurement performed for the present study. ##### Variables * Life form: woody or herbaceous * Species: plant species  * Ovle: ovule type, angiosperm or gymnosperm (for woody species) * Phenology: deciduous or evergreen (for woody species) * Cotyledon: monocots or eudicots (for herbaceous species) * Life cycle: annual, biennial, or perennial (for herbaceous species) * Part: plant parts (whole plant, shoot, or root) * Fresh mass: fresh mass (kg) * Respiration:  respiration rates (μmol CO2 s^−1) * Reference:  reference for the data ##### References Mori S *et al.* 2010 Mixed-power scaling of whole-plant respiration from seedlings to giant trees. *Proc. Natl. Acad. Sci. U. S. A.* **107**, 1447–1451. (doi:10.1073/pnas.0902554107) Kurosawa Y. *et al*. 2023 Ontogenetic changes in root and shoot respiration, fresh mass and surface area of Fagus crenata. *Ann. Bot.* **131**, 313–322. (doi:10.1093/aob/mcac143) Kurosawa Y, Mori S, Wang M, Ferrio JP, Yamaji K, Koyama K, Haruma T, Doyama K. 2021 Initial burst of root development with decreasing respiratory carbon cost in Fagus crenata Blume seedlings. *Plant Species Biol.* **36**, 146–156. (doi:10.1111/1442-1984.12305) #### File: specieslist.by.dataset.csv **Description:** Information for analysis of the phylogeny in the datasets from Mori *et al*. (2010), from Kurosawa *et al*. (2023), and the dataset obtained during this work. Variables * Species: plant species * Genus: genus to which the species belongs to * Family: family to whilch the species belongs to * Lifeform:  Whether the species belongs to woody or herbaceous species * n_Kurosawa et al 2023: number of data taken from the datasets from Kurosawa et al. (2023) * n_Mori et al 2010: number of data taken from the datasets from Mori et al. (2010) * n_present study: numer of data taken from the dataset obtained during this work. #### File: specieslist.by.functionaltype.csv **Description:** Information for analysis of the phylogeny in various functional type. ##### Variables * Species: plant species * Genus: genus to which the species belongs * Family: family to which the species belongs * Life form: woody or herbaceous * Ovle: ovule type, angiosperm or gymnosperm (for woody species) * Phenology: deciduous or evergreen (for woody species) * Cotyledon: monocots or eudicots (for herbaceous species) * Life cycle: annual, biennial, or perennial (for herbaceous species) * n_root: number of data for root respiration * n_shoot: number of data for shoot respiration * n_whole: number of data for whole-plant respiration #### File: Results.by.dataset.csv **Description:** Results of MCMCglmm analysis for the scaling respiration rates of woody species by three datasets: the dataset from Mori *et al*. (2010), from Kurosawa *et al*. (2023), and the dataset obtained during this work. ##### Variables * Lifeform: whether the analysis is for woody or herbaceous plants * Dataset: datasets used for analysis * Part: plant parts * N: number of sample plants * slope.post.mean: posterior mean of slope * slope.lower.95CI: lower value of the 95%CI of the slope * slope.upper.95CI: upper value of the 95%CI of the slope * slope.eff.samp: effective sample size * slope.pMCMC: MCMC p-values * intercept.post.mean: posterior mean of intercept * intercept.lower.95CI: lower value of the 95%CI of the intercept * intercept.upper.95CI: upper value of the 95%CI of the intercept * intercept.eff.samp: effective sample size * intercept.pMCMC: MCMC p-values * Rhat: R-hat by Gelman–Rubin statistic #### File: Results.by.functionaltype.csv **Description:** Results of MCMCglmm analysis for the scaling of respiration rates in various functional groupes ##### Variables * Lifeform: whether the analysis is for woody or herbaceous plants * Group: plant functional groupes * Part: plant parts * N: number of sample plants * slope.post.mean: posterior mean of slope * slope.lower.95CI: lower value of the 95%CI of the slope * slope.upper.95CI: upper value of the 95%CI of the slope * slope.eff.samp: effective sample size * slope.pMCMC: MCMC p-values * intercept.post.mean: posterior mean of intercept * intercept.lower.95CI: lower value of the 95%CI of the intercept * intercept.upper.95CI: upper value of the 95%CI of the intercept * intercept.eff.samp: effective sample size * intercept.pMCMC: MCMC p-values * Rhat: R-hat by Gelman–Rubin statistic #### File: script.R **Description:**  All codes to perform MCMCglmm analysis for Bayesian phylogenetic generalized linear mixed models and to reproduce the figures 3–5.