Plant-mycorrhizal associations may explain the latitudinal gradient of plant community assembly
Data files
Feb 06, 2024 version files 24.60 MB
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analyses_and_figures.R
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canopy_data.csv
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Climate_mod.csv
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floor_data.csv
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FungalRoot.csv
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Habitat_mod.csv
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README.md
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Species_list_w_family.csv
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variation_partitioning.R
Abstract
Biogeographical variation in community assembly processes forms the basis of the latitudinal gradient of biodiversity by driving b-diversity. Classical studies on community assembly predict environmental filtering affecting b-diversity more strongly at higher latitudes, where productivity is lower and abiotic stress is stronger. Contrary to this prediction, recent evidence indicates that plant community composition at higher latitudes exhibits more spatially clustered distributions independently of background environments, suggesting the importance of spatial processes, such as priority effects. In this study, we propose a hypothesis that resolves this paradox by considering plant-soil feedback and biogeographic variations in the dominant mycorrhizal type: we predict that the increasing prevalence of ectomycorrhizal (EcM) trees with latitude contributes to the spatially clustered distribution of plants, as EcM trees tend to exhibit positive plant-soil feedback. We analyzed a large-scale standardized dataset of Japanese forests covering a latitudinal gradient of >10º and found that (i) the proportion of EcM trees was higher at higher latitudes, and (ii) EcM tree-rich communities exhibited more spatially clustered distributions likely due to positive plant-soil feedback. Consequently, (iii) tree species composition at higher latitudes was better explained by spatial variables suggesting the importance of priority effects. Consistent with the predictions of the plant-soil feedback theory, these patterns were more pronounced in understory than in canopy communities. Taken together, our results lend support to our hypothesis that biogeographic variation in tree community assembly patterns is defined by mycorrhizal types and plant-soil feedback, thereby resolving a paradox in the latitudinal gradient of plant community assembly. Our work highlights that plant mycorrhizal type underlies the determinants of b-diversity which is a critical component of the latitudinal gradient of diversity.
README: Title of Dataset
This is the dataset associated with the article "Plant-mycorrhizal associations may explain the latitudinal gradient of plant community assembly" by Shinohara et al. All the data used in this study are publicly available; the links to the source dataset can be found below.
Description of the data and file structure
Here are the data files archived in this repository:
- floor_data.csv: Vegetation survey data.\ The included variables are: Class (the height classes of species. 1: canopy, 2: subcanop, 3: shrub, 4: herb), Coverage (the coverage class of species, following the Braun-Blanquet scale); Sp_ID (the species identity which can be referred to "Species_list_w_family.csv"); plotID (the plot identity which can be referred to "Habitat_mod.csv" and "Climate_mod.csv"); Second_mesh (the second mesh ID); Lat (latitude); Lon (longitude); Area (the area of survey plots); sp_site (the species-by-plot identity, which was generated for the analytical purpose).
- canopy_data.csv: Vegetation survey data. The included variables are: Class (the height classes of species. 1: canopy, 2: subcanop, 3: shrub, 4: herb), Coverage (the coverage class of species, following the Braun-Blanquet scale); Sp_ID (the species identity which can be referred to "Species_list_w_family.csv"); plotID (the plot identity which can be referred to "Habitat_mod.csv" and "Climate_mod.csv"); Second_mesh (the second mesh ID); Lat (latitude); Lon (longitude); Area (the area of survey plots); sp_site (the species-by-plot identity, which was generated for the analytical purpose).
- Species_list_w_family.csv: Species list and IDs used in the floor_data.csv and canopy_data.csv.\ The included variables are: Original (the species name in Japanese in the original dataset); Sp_ID (the species identity); scientificNameLong (the scientific name of the species); family (the family of the species); ft1, ft2, ft3, ft4 (the functional types of the species).
- Habitat_mod.csv: Proportions of several land-use types within a 100m buffer around each survey plot\ The included variables are: plotId (the plot identity); y (latitude); x (longitude); ELEV_mea (the mean elevation in each plot [m]); ELEV_min (the minimum elevation [m]); ELEV_std (the standard deviation of elevation [m]); SLOPE (the mean slope [º]); Forest, Grassland, Agricultr, Other (the proportion of forest, grassland, agriculture, and other types of habitats [%]), Habitat (the most frequenct habitat type).
- Climate_mod.csv: Climatic and topographic variables of each survey plot. The included variables are: plotId, x, y (same as the "Habitat_mod.csv"); Annu_Precip (the mean annual precipitation in each plot [0.1 mm]); Annu_Temp (the mean annual mean temprature [0.1 ºC]); Temp_sd (the standard deviation of annual mean temperature [0.1 ºC]); Precip_sd (the standard deviation of annual precipitation [0.1 mm]).
- FungalRoot.csv: A list of mycorrhical types of each genera of trees.
Sharing/Access information
All the data used in this study are publicly available and can be accessed from:
www.biodic.go.jp (vegetation data)
https://www.eorc.jaxa.jp/ALOS/jp/dataset/lulc_j.htm (land-use data)
www.mlit.go.jp/en/index.html (abiotic environmental data).
Code/Software
Here are two R-codes to reproduce our analyses and figures (variation_partitioning_submission.R, figures_submission.R )
Methods
All the original data, that we have processed to use in this study, was collected from www.biodic.go.jp (vegetation data), https://www.eorc.jaxa.jp/ALOS/jp/dataset/lulc_j.htm (land-use data), and www.mlit.go.jp/en/index.html (abiotic environmental data).