Unravelling changes in the Pinus radiata root and soil microbiomes as a function of aridity
Data files
Apr 02, 2025 version files 98.60 KB
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README.md
1.74 KB
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Supplementary_table_chem_environ_-_updated_March2025.txt
96.86 KB
Apr 07, 2025 version files 6.10 MB
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phyloseq_data_16S.zip
4.95 MB
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phyloseq_data_ITS.zip
1.05 MB
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README.md
2.62 KB
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Supplementary_table_chem_environ_-_updated_March2025.txt
96.86 KB
Abstract
Rising aridity is becoming a major consequence of climate change, impacting terrestrial ecosystems worldwide. Forest biomes are especially at risk due to their long lifespan and immobility, making them vulnerable to shifting environmental conditions. Over time, microbiomes have evolved alongside plants, fostering mutual benefits. However, rapid environmental changes and plant domestication may disrupt the ability of plants to recruit beneficial microbial partners that enhance stress tolerance. This study examines how aridity influences the symbiotic relationship between tree roots and microbes, focusing on the widely planted Pinus radiata. By analyzing samples across a broad geographic range and varying environmental conditions, we explore how aridity, soil properties, and climate factors shape microbial communities in P. radiata roots and surrounding soils. Our findings show that while aridity plays a major role in shaping microbial community assembly, factors like soil pH and organic carbon strongly influence bacterial diversity. Certain bacterial and fungal taxa were found to be conditionally associated with aridity, emphasising their potential role in Pinus radiata resilience under increasing environmental stress. As mesic ecosystems shift toward arid conditions due to climate change, the presence of these aridity-associated taxa varies in bulk soils expected to become drier. This raises concerns that these beneficial microbes may need to be recruited through alternative mechanisms to support tree adaptation.
Dataset DOI: 10.5061/dryad.6q573n688
Description of the data and file structure
The chemical and environmental file contains the GPS location of each sample site and the climate data were extracted at each sample location from the WorldClim 2.1 database. Aridity values were then determined from the Global Aridity Index (AI) and Potential Evapotranspiration Database. Soil from each location was characterised in physicochemical properties using Fourier-transformed, diffuse reflectance, mid-infrared spectroscopy (FT-IR). Predictions were made against the National Soil Survey Center–Kellogg Soil Survey Laboratory.
The phyloseq files were generated through 16S and ITS Illumina Miseq amplicon sequencing, analysed through dada2 standard pipelines and turned into sequence count and taxonomy tables.
Files and variables
File: Supplementary_table_chem_environ_-_updated_March2025.txt
Description: Chemical and environmental data
Variables
- SampleID: An individual sample ID - each one represents a single sampling tree
- Latitude_Longitude: GP coordinates for location of sampling
- Av_P: Available phosphorus (mg/kg)
- Total_S: Total sulfur (w%)
- Organic_C: Organic carbon (wt%)
- pH: pH
- Sand: Sand content (wt%)
- Silt: Silt content (wt%)
- Clay: Clay content (wt%)
- Exch_Ca: Exchangeable calcium (cmol(+)/kg)
- Exch_Mg: Exchangeable magnesium (cmol(+)/kg)
- Exch_Na: Exchangeable sodium (cmol(+)/kg)
- C.N_ratio: Organic to nitrogen ratio
- AridityIndex: Aridity Index
- MeanTemp: BIO1-WorldClim bioclimatic variable 1, Mean annual temperature (°C)
- TempSeason: BIO4 - WorldClim bioclimatic variable 4, temperature seasonality (standard deviation x100) (°C)
- PrecipSeason: BIO15 - WorldClim bioclimatic variable 15, percipitation seasonality (coefficient of variation) (mm)
File: phyloseq_data_16S.zip
Description: 16S data - contains a count table (sequence abundance data separated into each ASV). It also contains a taxonomy table where each ASV has been classified to its highest phylogenetic classification.
File: phyloseq_data_ITS.zip
Description: ITS data - contains a count table (sequence abundance data separated into each ASV). It also contains a taxonomy table where each ASV has been classified to its highest phylogenetic classification.
Access information
Other publicly accessible locations of the data:
- NCBI sequence read archive (SRA) under the BioProject accession PRJNA1217937