DOI: 10.5061/dryad.83bk3jb4b
title: Global change alters the abundance and community structure of arbuscular mycorrhizal fungi and influences plant mycorrhizal benefit

description: Arbuscular mycorrhizal (AM) fungi play critical roles in ecosystem
 services and exhibit sensitivity to global change factors (GCFs). However,
 the interactive effects of multiple GCFs on AM fungal communities, and
 whether changes in AM fungal have a feedback effect on plant mycorrhizal
 benefits under global change remain poorly understood.  We
 synthesized 1,646 observations of arbuscular mycorrhizal (AM) fungal
 communities from field experiments to evaluate how manipulated GCFs affect
 their abundance and community structure and to determine the potential
 consequences for outcomes of plant-mycorrhizal fungal relationships. The
 interactive effects among GCFs were mainly additive rather than
 synergistic or antagonistic. AM fungal diversity was not consistently
 sensitive to the individual effects of GCFs; however, a significant shift
 in community structure occurred under individual or concurrent GCFs. When
 multiple factors were imposed simultaneously, their negative effect on AM
 fungal colonization was strengthened, while their effects on community
 structure were diminished. Moreover, plant performance was closely linked
 to changes in abundance and community structure of AM fungi under GCFs.
 Experimental duration and environmental variables emerged as the most
 important predictors of AM fungal responses to GCFs. Reordering or
 replacement of AM fungal species has been identified as the key mechanism
 driving community responses to GCFs. Our study highlights the need to
 monitor AM fungal community structure and associated functional
 consequences for plant communities under ongoing global change.
description: # Global change alters the abundance and community structure of arbuscular
 mycorrhizal fungi and influences plant mycorrhizal benefit This
 data_and_code.zip contains the data and R scripts associated with
 "Global change alters the abundance and community structure of
 arbuscular mycorrhizal fungi and influences plant mycorrhizal
 benefit" by Ren et al. These files include basic data, R scripts. 
 **Description of the data and file structure** The data and code folder
 contains all files and data related to analyses run using the R package.
 The files include: **R scripts:** code.txt--R Script for Data
 Visualization (Figure 2; Figure 4; Figure 5; Figure 6). **The first row of
 both the CSV and Excel files has been annotated to define all
 abbreviations used in the tables. Additionally, the specific figure that
 each table corresponds to has been indicated.** **csv files:**
 colonization.csv--This dataset, along with the accompanying code, allows
 for the reproduction of Figure 2. Primary focus on associations between
 global change factors and their effects on arbuscular mycorrhizal (AM)
 fungal. env.csv and rich.csv --This dataset, along with the accompanying
 code, allows for the reproduction of Figure 6. Primarily displays the
 matrix of correlation coefficients between multiple metrics of AM fungi
 and a series of abiotic factors. paraglomus1.csv--This dataset, along with
 the accompanying code, allows for the reproduction of Figure 5. Primarily
 investigates the relationships between global change factors and
 parameters of arbuscular mycorrhizal fungi. **xlsx files:** original
 dataset.xlsx--Raw Data Extracted for Meta-Analysis. Includes soil chemical
 characteristics (pH, available P g/kg, nitrate-nitrogen g/kg,
 ammonium-nitrogen g/kg, organic carbon g/kg, total N g/kg, total P g/kg),
 environmental mean annual temperature (MAT), latitude and longitude, mean
 annual precipitation (MAP)), AM fungal abundance (including root
 colonization, extraradical hyphae length, and spore density), richness
 (the total number of species or taxa present, based on morphology [spore
 taxonomy] or genetics [OTU numbers]), Shannon diversity index, beta
 diversity (the magnitude of similarity in species composition among
 different sites) and the community structure.  **Code and software** R
 version 4.3.3 was used to run analyses and create all figures. Annotations
 are provided in all scripts to guide data loading, analyses, and figure
 creation. The following packages are required: Matrix; rJava; glmulti;
 metafor; readxl; vegan; rfPermute; psych; reshape2; pheatmap;
 jokergoo/ComplexHeatmap (built from GitHub, script contains code for
 install).