Data from: Tree-fungal interactions across climatic gradients: What is the potential for tree niche expansion via varying fungal associations?
Data files
Jul 07, 2025 version files 10.88 MB
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CAREER_finalht.csv
94.82 KB
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Career_roots_fungi.csv
3.88 MB
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career_site_climate_bycohort.csv
17.87 KB
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career_species_metadata.csv
4.80 KB
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FFP_5yearclim.csv
122.76 KB
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FFP_siteyear_prism.csv
148.98 KB
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FFP2015_2022_foranalysis.csv
6.57 MB
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README_Allsup_etal_2025.txt
23.12 KB
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README.md
16.54 KB
Abstract
Tree species persist across wide climatic gradients, potentially facilitated by varying species interactions. We investigated how tree species’ associations with fungal communities varied with climatic gradients across their range. We partnered with volunteers to sample tree roots across the eastern United States, with >1000 participants providing samples from 20 states. We characterized fungal communities via amplicon sequencing and tested how fungal guilds and individual taxa varied across climate gradients, as well as how fungal guilds and taxa correlated with seedling performance in a field experiment representing four climate conditions. Relative abundance of non-mycorrhizal endophytes (NME) increased in hotter and drier locations, guild-wide and for individual taxa. Relative abundance of ectomycorrhizal (EM) fungi declined in drier sites, while that of many individual EM fungi increased with colder temperatures. Seedling performance increased with greater relative abundance of arbuscular mycorrhizal (AM) fungi and intermediate abundance of NME in hot, dry conditions, and individual NME taxa had, on average, positive correlations with seedling growth in these conditions. One of the NMEs, Cladosporium, emerged as a candidate taxon for niche expansion in Acer trees due to its increased abundance and positive association with seedling growth in hot, dry conditions in the field. Synthesis: Climatic niche breadth may reflect both intrinsic tree traits and varying relationships with microbes. NME represents an intriguing group whose impact on current and future tree ranges deserves further investigation.
This README_Allsup_etal_2025.txt file was generated on 07-03-2025 by Richard Lankau
GENERAL INFORMATION
Title of Dataset: Data from: Tree-fungal interactions across climatic gradients: what is the potential for tree niche expansion via varying fungal associations?
Description of datasets
These data include
- data on fungal communities in root samples collected by volunteers throughout the eastern United States
- climate metadata for the root sampling sites (two files)
- data on seedling growth in seedling growth from experimental sites in northern Wisconsin and central Illinois
- fungal community composition on tree seedling roots from the two field sites derived from sequencing of the fungal ITS2 gene
- metadata on the climate of microbial inocula sources for experimental seedlings
- metadata on species traits for tree species used in field experiments
File 1 Name: FFP2015_2022_foranalysis.csv
File 1 Description: Fungal communities on volunteer-collected root samples from across the eastern United States with metadata
Variable: Description
SampleID: Unique Sample ID code
AnalysisYear: Year samples sequenced
SampleYear: Year sample collected
SampleNum Sample ID (within Sample Year)
sequence : unique code per sequenced sample
seqID: original sampling code
SiteYear: Location-Year combined code
Site code : Abbreviated location code
location: Geographic source
latitude_exact Latitude of precise sampling location, as recorded by collector
longitude_exact: Longitude of precise sampling location, as recorded by collector
Latitude_site: Latitude of site
Longitude_site: Longitude of site
TreeGenus: Host genus ID (summarized for analysis)
TreeGenus2: Host genus ID (not summarized - don't use for analysis)
TreeSpecies: Host species ID (if known)
sSterilized Was the sample surface sterilized before analysis?
UUS Region Arbitrary division of eastern states
County: County of collection site (if known)
SoilType: estimated Soil Order
Elevation Elevation of samthe pling site
PrismTimeSeries: Years over which the following 7 climate variables were summarized
AAverage precip: Average Precipitation (mm) of last 5 years
Mintemp: Average Daily minimum temperature (degree C) of last 5 years
MMean tempAverage Daily mean temperature (degrees C) of the last 5 Max tempaxemp : Average Daily maximum temperature (degree C) of the last 5 mean dewpoint tempnttemp : Average Daily dewtemperaturereature of last 5 years
minVP : Average Annual minimum Vapor Pressure (kPa) Deficit of last 5 years
maxVD : Average Annual maximum Vapor Pressure Deficit ofthe last 5 years
bo1 : Annual Mean Temperature
bio1 : Mean Temperature of Warmest Quarter
bio11 :Mean Temperature of Coldest Quarter
bio12: Annual Precipitation
bio1 : Precipitation of Wettest Month
bio14 :Precipitation of Driest Month
bio1 : Precipitation Seasonality (Coefficient of Variation)
bio1 : Precipitation of Wettest Quarter
bio17 Precipitation of Driest Quarter
bio18 : Precipitation of Warmest Quarter
bio19 : recipitation of Coldest Quarter
bio2: Mean Diurnal Range (Mean of monthly (max temp - min temp))
bio3 : Isothermality (BIO2/BIO7) (* 100)
bio4: Temperature Seasonality (standard deviation *100)
bio5 : Max Temperature of Warmest Monh
bio6 : Min Temperature of Coldest Month
bio : Temperature Annual Range (BIO5-BIO6)
bio : Mean Temperature of Wettest Quarter
bio9 Mean Temperature of Driest Quarter
soilut2 : Index of soil fertility
soilo2 : Estimated Soil organic matter (kg/m3 of fire freqrefrq : Index of wildfire freqdep
ndep : Estimate of total anthropogenic nitrogen deposition at the collection site, averaged over the fivebeforerior to sampling
totseq : Total number of DNA molecules sequetotingtfung : Total number of DNA molecules identified in a fto planttplant : Total number of DNA molecules identifiin to a plant
The remaining columns are individual fungal taxa, raw sequence counts
Missing data Blank:
blank entries signify missing data
File 2 Name: FFP_5yearclim.csv
File 2 Description: Temperature and aridity data for collection sites based five-yearear averagbefore the to sampling date
Variable : Description
Site : Collection sisample yarear : Year root sample was collected
SitYear : Combination of site and year
Year : Mean the five yearspan
annPET_5: Potential Evapotranspiration averaged over five yeannualnnual)
annPT_5 : Annual precipitation averaged over five years
MAT_ : Mean annual temperature, averaged over five years
Tmin_5 : Mnimum yearly temperature, averaged over five years
Tmax5 : Maximum yearly temperaaveragedveraed over five years
A_ann_5 : annual Aridity Index, ratio of annPPT/annPET, averaged over five years
Site2 : Collection site
year2: Year root sample was collected Numerical (2015-2022)
suPET_5 : Potential Evapotranspiration oveSeptemberermber, averaged over five years
sumPPTPrecipitationtoin over May-September, averaged over five year
MST_5 : Mean Summer Temperature (May-September), averaged over five years
sumTmin_5 Minimum summer temperature (May-September), averaged over five years
sumTmax5 : Maximum summer temperature (May-September), averaged over five years
AI_sum5 : summer Aridity Index,the ratio of sumPPT/sumPET, averaged over five years
SitYear : Combination of site and year
Missing data Blank: blank entries signify missing data
File 3 Name: FFP_siteyear_prism.csv
File 3 Description: Temperature and aridity data for collection sites for the year dirbeforeithe or to sampling date
Variable Description
Site : Collection sit
year : Year root sample was collannet
anPET : Potential Evapotranspiration (annual) of sampling apptnnPPT : Annual precipitation of sampling yer
MAT : Mean annual temperature of sampling yea
Tmin : Minimum yearly temperature of sampling yea
Tmax : Maximum yearly temperature of sampling year
A_ann : annual Aridity Index, ratio of annPPT/annPET of sampling year
Sie2 : Collection site
yea2 : Year root sample was collecteSumeetET : Potential Evapotranspiration oveSeptemberermber of sampling supportumPPT : Precipitatoin over May-September of sampling year
MST : Mean Summer Temperature (May-September) of sampling year
sumTmin : Minimum summer temperature (May-September) of sampling year
sumTmax : Maximum summer temperature (May-September) of sampling year
I_sum : summer Aridity Index, ratio of sumPPT/sumPET of sampling year
SiteYear : Combination of site and year
Missing data Blank: blank entries signify missing data
File 4 Name: CAREER_finalht.csv
File 4 Description: Final height and stem diameter data of tree seedlings in field experiments
Variable Descriptin
Site : Location of field site
seedling_ID.1 : Unique ID for each seedling at a site
seedlingID : Unique ID for each seedling including site information
year : Year the seedling was planted
soil : Source of the initial live soil inoculum for the seedling
Sterile : Whether the initial inoculum was sterilized
Fung : Whether the field plot was fungicide treated before planting
deerfence : Whether the plot had a deer fence added (in year 3)
deerfence_y1 : Whether the plant had a deer fence added when the seedling was planted
block : Spatial block at the field site
pair : ID for the paired ambient-rainfall reduced plots
trt : Ambient (C) or rainfall reduced (R) treatment
pos : Position within the individual plot
tree : Alternative unique seedling ID, only used at one site
genus : Genus of the tree seedling
species : Species of the tree seedling
speciesID : Species code
pop : Population source for the seedling, only for A.negundo and Q. rubra
final_sd : Final Stem Diameter (mm) of seedlings in their third growing season
final_ht : Final Height (cm) of seedlings in their third growing season
final_lvnum : Final number of live leaves of seedlings in their third growing season
In_GL : Initial number of green leaves of seedling at planting
In_Height : Initial height of seedling at planting
In_Height2 : Initial height of seedling at planting, with missing data replaced with species average
growth_ht : Growth rate (final - initial height)/initial height
growth_ht2 : Growth rate (final - initial height2)/initial height2
Missing data codes: blank entries signify missing data
File 5 Name: Career_roots_fungi.csv
File 5 Description: Fungal community composition on tree seedling roots from field experiments
Variable Description
Year : Year the seedling was planted
SequencingID : Unique name give to each PCR amplicon library
SampleID : Unique ID for each seedling including site information
cohort : Year the seedling was planted
site : Location of field site
species : Species of the tree seedling
species_match : Whether dominant plant species in sequencing data matches intended species of the sample
species_alt : if species match = N, the dominant species in sequencing data
tree# : Alternative unique seedling ID, only used at one site
seedlingcode : Alternative unique seedling ID, only used at one site
seedling_ID : Unique ID for each seedling including site information
Soil : Source of the initial live soil inoculum for the seedling
Site_cohort : combination of site and planting cohort
pair : ID for the paired ambient-rainfall reduced plots
trt : Ambient (C) or rainfall reduced (R) treatment C or R
pos : Position within the individual plot
AM_k__Fungi.p__Glomeromycota.....__ Fungal taxon (guild, taxonomic string) sequence count
Missing data codes: blank entries signify missing data
File 6 Name: career_site_climate_bycohort.csv
File 6 Description: Data on seedling growth in greenhouse experiments using soils from Illinois site
Variable Description
cohortyear : Year the seedling was planted
Site : Location of experimental site
State : State of the field location
Site_cohort : Combination of site and cohort
annPETtho_1 : Potential Evapotranspiration of the microbial source site for the year prior to soil collection (annnual) - Thornwaite approximation
annPEThar_1 : Potential Evapotranspiration of the microbial source site for the year prior to soil collection (annnual) - Hargreaves approximation
annPPT_1 : Annual precipitation of the microbial source site for the year prior to soil collection
MAT_1 : Mean annual temperature of the microbial source site for the year prior to soil collection
Tmin_1 : Mean temperature of the coldest month of the microbial source site for the year prior to soil collection
Tmax_1 : Mean temperature of the warmest month of the microbial source site for the year prior to soil collection
MWT_1 : Mean winter temperature of the microbial source site for the year prior to soil collection
AItho_ann_1 : annual Aridity Index for the microbial source site for the season prior to soil collection
AIhar_ann_1 : annual Aridity Index for the microbial source site for the season prior to soil collection
sumPETtho_1 : Aridity Index for the growing season (May-September) for the microbial source site for the season prior to soil collection
sumPEThar_1 : Aridity Index for the growing season (May-September) for the microbial source site for the season prior to soil collection
sumPPT_1 : Precipitation over May-September for the microbial source site for the season prior to soil collection
MST_1 : Mean summer temperature of the microbial source site for the year prior to soil collection
AItho_sum_1 : Aridity Index for the growing season (May-September) for the microbial source site for the season prior to soil collection, Thornthwaite approximation
AIhar_sum_1 : Aridity Index for the growing season (May-September) for the microbial source site for the season prior to soil collection, Hargreaves approximation
annPETtho_5 : Potential Evapotranspiration averaged over five years (annnual) - Thornwaite approximation
annPEThar_5 : Potential Evapotranspiration averaged over five years (annnual) - Hargreaves approximation
annPPT_5 : Annual precipitation averaged over five years
scaleTmin1 : Minimum yearly temperature, averaged over five years (scaled)
scaleAIsum1 : AI_har_sum_1 (scaled to mean = 0, SD = 1)
MAT_5 : Mean annual temperature, averaged over five years
Tmin_5 : Minimum yearly temperature, averaged over five years
Tmax_5 : Maximum yearly temperature, averaed over five years
AItho_ann_5 : annual Aridity Index, ratio of annPPT/annPET, averaged over five years,Thornthwaite approximation
AIhar_ann_5 : annual Aridity Index, ratio of annPPT/annPET, averaged over five years, Hargreaves approximation
sumPETtho_5 : Potential Evapotranspiration over May-Septermber, averaged over five years, Thornwaite approximation
sumPEThar_5 : Potential Evapotranspiration over May-Septermber, averaged over five years, Hargreave approximation
sumPPT_5 : Precipitation over May-September, averaged over five years
MST_5 : Mean Summer Temperature (May-September), averaged over five years
AItho_sum_5 : summer Aridity Index, ratio of sumPPT/sumPET, averaged over five years, Thornthwaite approximation
AIhar_sum_5 : summer Aridity Index, ratio of sumPPT/sumPET, averaged over five years, Hargreaves approximation
annPETtho_10 : Potential Evapotranspiration averaged over ten years (annnual) - Thornwaite approximation
annPEThar_10 : Potential Evapotranspiration averaged over ten years (annnual) - Hargreaves approximation
annPPT_10 : Annual precipitation averaged over ten years
MAT_10 : Mean annual temperature, averaged over ten years
Tmin_10 : Minimum yearly temperature, averaged over ten years
Tmax_10 : Maximum yearly temperature, averaed over ten years
AItho_ann_10 : annual Aridity Index, ratio of annPPT/annPET, averaged over ten years,Thornthwaite approximation
AIhar_ann_10 : annual Aridity Index, ratio of annPPT/annPET, averaged over ten years, Hargreaves approximation
sumPETtho_10 : Potential Evapotranspiration over May-Septermber, averaged over ten years, Thornwaite approximation
sumPEThar_10 : Potential Evapotranspiration over May-Septermber, averaged over ten years, Hargreave approximation
sumPPT_10 : Precipitation over May-September, averaged over ten years
MST_10 : Mean Summer Temperature (May-September), averaged over ten years
AItho_sum_10 : summer Aridity Index, ratio of sumPPT/sumPET, averaged over ten years, Thornthwaite approximation
AIhar_sum_10 : summer Aridity Index, ratio of sumPPT/sumPET, averaged over ten years, Hargreaves approximation
Missing data codes:
blank entries signify missing data
File 7 Name: career_species_metadata.csv
File 7 Description: Fungal community composition on tree seedling roots from Wisconsin site
Variable Description
species : Species name
myc : Mycorrhizal Type
genus : Genus
sp : Species name
fia : Forest Inventory and Analysis species code
Family : Taxonomic Family
shadetolrank : Shade tolerance index
seedsize : Average Seed size
shadetol2 : Shade tolerance index
droughtol : Drought tolerance index
waterlogtol : Waterlogging tolerance index
coldtol : Cold tolerance index
avglatmin : Average minimun latitude of species range in FIA data
avglat01 : Average 1% of latitude of species range in FIA data
avglat05 : Average 5% of latitude of species range in FIA data
avglat10 : Average 10% of latitude of species range in FIA data
avglat05_IL : Average 5% of latitude of species range in FIA data for longitudinal bands in Illinois
range_center : Latitude of range center
range_center2 : Latitude of range center
mintemp : Minimum temperature of species range
maxtemp : Maximum temperature of species range
minppm : Minimum precipitation of species range
predabundchange : Predicted change in abundance
distlong : distance of field site to species range center in longitude
distlat : distance of field site to species range center in latitude
sp_aridity_tho_ann : Aridity Index of species range (annual, Thorthwait approximation)
sp_aridity_har_ann : Aridity Index of species range (annual, Hargreaves approximation)
sp_aridity_tho_sum : Aridity Index of species range (summer, Thorthwait approximation)
sp_aridity_sum_har : Aridity Index of species range (summer, Thorthwait approximation)
sp_aridity_tho_sum2 : Aridity Index of species range (summer, Thorthwait approximation)
sp_aridity_sum_har2 : Aridity Index of species range (summer, Thorthwait approximation)
sp_ppt : Precipitation of species range center
sp_tmean : Mean temperature of species range center
sp_tmin : Minimum temperature of species range
sp_tmax : Maximum temperature of species range
sp_tmean_sum : Mean summer temperature of species range center
sp_ppt_sum : Summer precipitation of species range center
Missing data codes: blank entries signify missing data
Two datasets are available. The first is a geographic survey of root-associated fungal communities on roots of woody plants collected by volunteers acros the eastern United States, characterized by sequencing of the ITS2 gene region, along with metadata about collection sites determined by geographic position. The second is data on growth and survival of experimentally planted seedlings at two locations (central Illinois and northern Wisconsin), along with characterization of fungal taxa on the roots of surviving seedlings after three years of growth in the field.