This README file was generated on 2023-12-02 by Xiaorong Lu.

GENERAL INFORMATION

1. This folder contains the data, computer code and document files for the article:

Xiaorong Lu,Marc W.Cadotte,Pandeng Wang,Shan Rao,Xiaoye Shi,Siyuan Ren,Xihua Wang,Shao-peng Li(2023).Multiple dimensions of phylogenetic diversity are needed to explain the complex aboveground-belowground diversity relationships. Oikos.

1. Author Information
   Principal Investigator
   Name: Xiaorong Lu
   Institution: School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, P.R. China
   Email: smilelxr0904@gmail.com

    Corresponding Investigator 
    Name: Shao-peng Li
    Institution: School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, P.R. China
    Email: spli@des.ecnu.edu.cn
   
    Co-investigator 1
    Name: Prof Marc W. Cadotte
    Institution: Department of Biological Sciences, University of Toronto Scarborough, Toronto M1C 1A4, Canada
            Email: marc.cadotte@utoronto.ca
   
    Co-investigator 2
    Name: Pandeng Wang
    Institution: School of Ecology, Shenzhen Campus of Sun Yat-sen University, Shenzhen 518107, China
            Email: wangpd@mail2.sysu.edu.cn
   
    Co-investigator 3
    Name: Shan Rao
    Institution: School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, P.R. China
            Email:shan.rao@foxmail.com
   
    Co-investigator 4
    Name: Xiaoye Shi
    Institution: School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, P.R. China
            Email: xiaoye.shi@foxmail.com
   
    Co-investigator 5
    Name: Siyuan Ren
    Institution:  China Aero Geophysical Survey and Remote Sensing Center for Natural Resources， Beijing 100083, China
            Email: rsy9999ml@163.com
   
    Co-investigator 6
    Name: Xihua Wang
    Institution: School of Ecological and Environmental Sciences, East China Normal University, Shanghai 200241, P.R. China
            Email: xhwang@des.ecnu.edu.cn
   

2. Date of data collection: 2019

3. Geographic location of data collection: Ningbo City, Zhejiang Province, eastern China

4. Funding sources that supported the collection of the data: National Natural Science Foundation of China (NSFC3222051, NSFC31971553), the Shanghai Rising-Star Program (20QA1402900), and the Fundamental Research Funds for the Central Universities.

5. Comments and requests should be addressed to Xiaorong Lu: smilelxr0904@gmail.com. All material is free of use, but I would appreciate being told, and this dataset and the matching paper cited if appropriate.

6. Recommended citation for this dataset: Xiaorong Lu et al. (2023), Data from: Multiple dimensions of phylogenetic diversity are needed to explain the complex aboveground-belowground diversity relationships. Dryad, https://doi.org/10.5061/dryad.cvdncjt9d

DATA & FILE OVERVIEW

1.File List:
"bacteria_OTU table.csv": The OTUs table of bacteria
"fungi_OTU table.csv": The OTUs table of fungi
"plant_community table.csv":The OTUs table of plant
"bacteria_phylogenetic tree.tre": The phylogenetic tree of bacteria
"fungi_phylogenetic tree.tre": The phylogenetic tree of fungi
"plant_phylogenetic tree.tre": The phylogenetic tree of plant
"soil.csv": The soil physicochemical factors

1. Relationship between files, if important: None

2. Additional related data collected that was not included in the current data package: None

3. Are there multiple versions of the dataset? No
   A. If yes, name of file(s) that was updated: NA
   i. Why was the file updated? NA
   ii. When was the file updated? NA

#########################################################################

DATA-SPECIFIC INFORMATION FOR: bacteria_OTU table.csv

1. Number of variables: 28119

2. Number of cases/rows: 80

3. Variable List:
   plots:plot code
   Zotu xxx: Every Zotus of each column (e.g.,Zotu10) represents the operational taxonomic units (OTUs) at the 100% similarity threshold；

4. Missing data codes:
   None

5. Abbreviations used:
   None

6. Other relevant information:
   None
   #########################################################################

DATA-SPECIFIC INFORMATION FOR: fungi_OTU table.csv

1. Number of variables: 8997

2. Number of cases/rows: 80

3. Variable List:
   plots:plot code
   Zotu xxx: Every Zotus of each column (e.g.,Zotu6) represents the operational taxonomic units (OTUs) at the 100% similarity threshold

4. Missing data codes:
   None

5. Abbreviations used:
   None

6. Other relevant information:
   None

#########################################################################

DATA-SPECIFIC INFORMATION FOR: plant_community table.csv

1. Number of variables: 59

2. Number of cases/rows: 16

3. Variable List:
   plots:plot code
   Each column represents the scientific name of plant species

4. Missing data codes:
   None

5. Abbreviations used:
   None

6. Other relevant information:
   None

#########################################################################

DATA-SPECIFIC INFORMATION FOR: bacteria_phylogenetic tree.tre

This is a bacterial molecular phylogenetic tree constructed by FastTree software

1. Missing data codes:
   None

2. Abbreviations used:
   None

3. Other relevant information:
   None

#########################################################################

DATA-SPECIFIC INFORMATION FOR: fungi_phylogenetic tree.tre

This is a fungal molecular phylogenetic tree constructed by FastTree software

1. Missing data codes:
   None

2. Abbreviations used:
   None

3. Other relevant information:
   None
   #########################################################################

DATA-SPECIFIC INFORMATION FOR: plant_phylogenetic tree.tre

This is a plant phylogenetic tree produced form a mega-tree (i.e. GBOTB.extended.tre) using R package V.PhyloMaker

1. Missing data codes:
   None

2. Abbreviations used:
   None

3. Other relevant information:
   None
   #########################################################################

DATA-SPECIFIC INFORMATION FOR: soil.csv

1. Number of variables: 6

2. Number of cases/rows: 16

3. Variable List:
   Plots: plot code of soil sampling\
   TN: Total nitrogen (g/kg)
   TP: Total phosphorus (g/kg)
   AP: Available phosphorus (mg/kg)
   TOC: Soil total organic carbon (g/kg)
   pH: Soil pH

4. Missing data codes:
   None

5. Abbreviations used:
   None

6. Other relevant information:
   None

#######################################
Rcode

The file named "R_code_diversities.R" contains the R source code for all diversity indexes used in the paper (taking plants as an example). It should be processed using the R software.