Differentiating spatial from environmental effects on foliar fungal communities of Populus trichocarpa
Abstract
Abstract Aim Foliar fungi – pathogens, endophytes, epiphytes – form taxonomically diverse communities that affect plant health and productivity. The composition of foliar fungal communities is variable at spatial scales both small (e.g. individual plants) and large (e.g. continents), yet few studies have attempted to tease apart spatial from climatic factors influencing these communities. Moreover, few studies have sampled in more than 1 year to gauge interannual variation in community structure. Location The Pacific Northwest of western North America. Taxon Foliar fungi associated with the deciduous tree Populus trichocarpa . Methods In two consecutive years, we used DNA metabarcoding to characterize foliar fungal communities of Populus trichocarpa across its geographic range, which encompasses a sharp climatic transition as it crosses the Cascade Mountain Range. We used multivariate analyses to (a) test for and differentiate spatial and environmental factors affecting community composition and (b) test for temporal variation in community composition across spatial and environmental gradients. Results In both study years, we found that foliar fungal community composition varied among sites and between regions (east vs. west of the Cascades). We found that climate explained more variation in community composition than geographic distance, although the majority of variation explained by each wasmore »
- Authors:
-
- Department of Botany and Plant Pathology Oregon State University Corvallis Oregon
- Department of Biology Stanford University Stanford California
- Department of Forest, Rangeland and Fire Sciences University of Idaho Moscow Idaho
- Publication Date:
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1526770
- Grant/Contract Number:
- 219086; SC0016097
- Resource Type:
- Publisher's Accepted Manuscript
- Journal Name:
- Journal of biogeography (Print)
- Additional Journal Information:
- Journal Name: Journal of biogeography (Print) Journal Volume: 46 Journal Issue: 9; Journal ID: ISSN 0305-0270
- Publisher:
- Wiley-Blackwell
- Country of Publication:
- United Kingdom
- Language:
- English
Citation Formats
Barge, Edward G., Leopold, Devin R., Peay, Kabir G., Newcombe, George, and Busby, Posy E. Differentiating spatial from environmental effects on foliar fungal communities of Populus trichocarpa. United Kingdom: N. p., 2019.
Web. doi:10.1111/jbi.13641.
Barge, Edward G., Leopold, Devin R., Peay, Kabir G., Newcombe, George, & Busby, Posy E. Differentiating spatial from environmental effects on foliar fungal communities of Populus trichocarpa. United Kingdom. https://doi.org/10.1111/jbi.13641
Barge, Edward G., Leopold, Devin R., Peay, Kabir G., Newcombe, George, and Busby, Posy E. Mon .
"Differentiating spatial from environmental effects on foliar fungal communities of Populus trichocarpa". United Kingdom. https://doi.org/10.1111/jbi.13641.
@article{osti_1526770,
title = {Differentiating spatial from environmental effects on foliar fungal communities of Populus trichocarpa},
author = {Barge, Edward G. and Leopold, Devin R. and Peay, Kabir G. and Newcombe, George and Busby, Posy E.},
abstractNote = {Abstract Aim Foliar fungi – pathogens, endophytes, epiphytes – form taxonomically diverse communities that affect plant health and productivity. The composition of foliar fungal communities is variable at spatial scales both small (e.g. individual plants) and large (e.g. continents), yet few studies have attempted to tease apart spatial from climatic factors influencing these communities. Moreover, few studies have sampled in more than 1 year to gauge interannual variation in community structure. Location The Pacific Northwest of western North America. Taxon Foliar fungi associated with the deciduous tree Populus trichocarpa . Methods In two consecutive years, we used DNA metabarcoding to characterize foliar fungal communities of Populus trichocarpa across its geographic range, which encompasses a sharp climatic transition as it crosses the Cascade Mountain Range. We used multivariate analyses to (a) test for and differentiate spatial and environmental factors affecting community composition and (b) test for temporal variation in community composition across spatial and environmental gradients. Results In both study years, we found that foliar fungal community composition varied among sites and between regions (east vs. west of the Cascades). We found that climate explained more variation in community composition than geographic distance, although the majority of variation explained by each was shared. We also found that interannual variation in community composition depended on environmental context: communities located in the dry, eastern portion of the tree's geographic range varied more between study years than those located in the wet, western portion of the tree's range. Main conclusions Our results suggest that the environment plays a greater role in structuring foliar fungal communities than dispersal limitation.},
doi = {10.1111/jbi.13641},
journal = {Journal of biogeography (Print)},
number = 9,
volume = 46,
place = {United Kingdom},
year = {Mon Jun 17 00:00:00 EDT 2019},
month = {Mon Jun 17 00:00:00 EDT 2019}
}
https://doi.org/10.1111/jbi.13641
Web of Science
Works referenced in this record:
Metacoder: An R package for visualization and manipulation of community taxonomic diversity data
journal, February 2017
- Foster, Zachary S. L.; Sharpton, Thomas J.; Grünwald, Niklaus J.
- PLOS Computational Biology, Vol. 13, Issue 2
Cutadapt removes adapter sequences from high-throughput sequencing reads
journal, May 2011
- Martin, Marcel
- EMBnet.journal, Vol. 17, Issue 1
Historical Contingency in Community Assembly: Integrating Niches, Species Pools, and Priority Effects
journal, December 2015
- Fukami, Tadashi
- Annual Review of Ecology, Evolution, and Systematics, Vol. 46, Issue 1
Variation in leaf epidermal and stomatal traits of Populus trichocarpa from two transects across the Washington Cascades
journal, May 2001
- Dunlap, J. M.; Stettler, R. F.
- Canadian Journal of Botany, Vol. 79, Issue 5
Habitat invasions by alien plants: a quantitative comparison among Mediterranean, subcontinental and oceanic regions of Europe
journal, April 2008
- Chytrý, Milan; Maskell, Lindsay C.; Pino, Joan
- Journal of Applied Ecology, Vol. 45, Issue 2
Host and geographic structure of endophytic and endolichenic fungi at a continental scale
journal, May 2012
- U'Ren, Jana M.; Lutzoni, François; Miadlikowska, Jolanta
- American Journal of Botany, Vol. 99, Issue 5
Fungal endophytes: diversity and functional roles
journal, February 2009
- Rodriguez, R. J.; White Jr, J. F.; Arnold, A. E.
- New Phytologist, Vol. 182, Issue 2
Endophytic and epiphytic phyllosphere fungi of Camellia japonica : seasonal and leaf age-dependent variations
journal, May 2008
- Osono, Takashi
- Mycologia, Vol. 100, Issue 3
Fungal Endophytes of Grasses: A Defensive Mutualism between Plants and Fungi
journal, February 1988
- Clay, Keith
- Ecology, Vol. 69, Issue 1
Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible
journal, April 2014
- McMurdie, Paul J.; Holmes, Susan
- PLoS Computational Biology, Vol. 10, Issue 4
Historical and current climate drive spatial and temporal patterns in fungal endophyte diversity
journal, April 2016
- Giauque, Hannah; Hawkes, Christine V.
- Fungal Ecology, Vol. 20
Population genomics of Populus trichocarpa identifies signatures of selection and adaptive trait associations
journal, August 2014
- Evans, Luke M.; Slavov, Gancho T.; Rodgers-Melnick, Eli
- Nature Genetics, Vol. 46, Issue 10
Communities of fungal endophytes in tropical forest grasses: highly diverse host- and habitat generalists characterized by strong spatial structure
journal, April 2014
- Higgins, K. Lindsay; Arnold, A. Elizabeth; Coley, Phyllis D.
- Fungal Ecology, Vol. 8
Foliar fungal communities strongly differ between habitat patches in a landscape mosaic
journal, January 2016
- Fort, Thomas; Robin, Cécile; Capdevielle, Xavier
- PeerJ, Vol. 4
Sequence Depth, Not PCR Replication, Improves Ecological Inference from Next Generation DNA Sequencing
journal, February 2014
- Smith, Dylan P.; Peay, Kabir G.
- PLoS ONE, Vol. 9, Issue 2
Locally Downscaled and Spatially Customizable Climate Data for Historical and Future Periods for North America
journal, June 2016
- Wang, Tongli; Hamann, Andreas; Spittlehouse, Dave
- PLOS ONE, Vol. 11, Issue 6
Plant Host Species and Geographic Distance Affect the Structure of Aboveground Fungal Symbiont Communities, and Environmental Filtering Affects Belowground Communities in a Coastal Dune Ecosystem
journal, December 2015
- David, Aaron S.; Seabloom, Eric W.; May, Georgiana
- Microbial Ecology, Vol. 71, Issue 4
The contribution of foliar endophytes to quantitative resistance to Melampsora rust
journal, December 2012
- Raghavendra, Anil K. H.; Newcombe, George
- New Phytologist, Vol. 197, Issue 3
Fitting Linear Mixed-Effects Models Using lme4
journal, January 2015
- Bates, Douglas; Mächler, Martin; Bolker, Ben
- Journal of Statistical Software, Vol. 67, Issue 1
GenBank
journal, November 2015
- Clark, Karen; Karsch-Mizrachi, Ilene; Lipman, David J.
- Nucleic Acids Research, Vol. 44, Issue D1
Genetic variation and productivity of Populus trichocarpa and its hybrids. IX. Phenology and Melampsora rust incidence of native black cottonwood clones from four river valleys in Washington
journal, October 1996
- Dunlap, J. M.; Stettler, R. F.
- Forest Ecology and Management, Vol. 87, Issue 1-3
Floristic Plant Geography of Eastern Washington and Northern Idaho
journal, March 1975
- Daubenmire, R.
- Journal of Biogeography, Vol. 2, Issue 1
Community composition of endophytic fungi in Acer truncatum and their role in decomposition
journal, January 2011
- Sun, Xiang; Guo, Liang-Dong; Hyde, K. D.
- Fungal Diversity, Vol. 47, Issue 1
Fungal endophytes limit pathogen damage in a tropical tree
journal, December 2003
- Arnold, A. E.; Mejia, L. C.; Kyllo, D.
- Proceedings of the National Academy of Sciences, Vol. 100, Issue 26
Diversity and host Range of Foliar Fungal Endophytes: are Tropical Leaves Biodiversity Hotspots?
journal, March 2007
- Arnold, A. Elizabeth; Lutzoni, F.
- Ecology, Vol. 88, Issue 3
Search and clustering orders of magnitude faster than BLAST
journal, August 2010
- Edgar, Robert C.
- Bioinformatics, Vol. 26, Issue 19, p. 2460-2461
Phylogeography of Douglas-fir based on mitochondrial and chloroplast DNA sequences: testing hypotheses from the fossil record
journal, May 2010
- Gugger, Paul F.; Sugita, Shinya; Cavender-Bares, Jeannine
- Molecular Ecology, Vol. 19, Issue 9
Fungal endophytes: modifiers of plant disease
journal, December 2015
- Busby, Posy E.; Ridout, Mary; Newcombe, George
- Plant Molecular Biology, Vol. 90, Issue 6
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
journal, April 2013
- McMurdie, Paul J.; Holmes, Susan
- PLoS ONE, Vol. 8, Issue 4
Seasonally dynamic fungal communities in the Quercus macrocarpa phyllosphere differ between urban and nonurban environments
journal, February 2010
- Jumpponen, A.; Jones, K. L.
- New Phytologist, Vol. 186, Issue 2
Interannual variation and host affiliations of endophytic fungi associated with ferns at La Selva, Costa Rica
journal, January 2014
- Del Olmo-Ruiz, Mariana; Arnold, A. Elizabeth
- Mycologia, Vol. 106, Issue 1
Canopy cover and leaf age affect colonization by tropical fungal endophytes: Ecological pattern and process in Theobroma cacao (Malvaceae)
journal, May 2003
- Arnold, A. Elizabeth; Herre, Edward Allen
- Mycologia, Vol. 95, Issue 3
Meta-analysis of deep-sequenced fungal communities indicates limited taxon sharing between studies and the presence of biogeographic patterns
journal, October 2013
- Meiser, Anjuli; Bálint, Miklós; Schmitt, Imke
- New Phytologist, Vol. 201, Issue 2
Common foliar fungi of Populus trichocarpa modify Melampsora rust disease severity
journal, November 2015
- Busby, Posy E.; Peay, Kabir G.; Newcombe, George
- New Phytologist, Vol. 209, Issue 4
Here come the commensals
journal, September 2016
- May, Georgiana
- American Journal of Botany, Vol. 103, Issue 10
Host Genotype Shapes the Foliar Fungal Microbiome of Balsam Poplar (Populus balsamifera)
journal, January 2013
- Bálint, Miklós; Tiffin, Peter; Hallström, Björn
- PLoS ONE, Vol. 8, Issue 1
Understanding the diversity of foliar endophytic fungi: progress, challenges, and frontiers
journal, May 2007
- Arnold, A. Elizabeth
- Fungal Biology Reviews, Vol. 21, Issue 2-3
Trend-Surface Analysis of Ecological Data
journal, November 1968
- Gittins, R.
- The Journal of Ecology, Vol. 56, Issue 3
Phyllosphere Fungal Communities Differentiate More Thoroughly than Bacterial Communities Along an Elevation Gradient
journal, March 2016
- Vacher, Corinne; Cordier, Tristan; Vallance, Jessica
- Microbial Ecology, Vol. 72, Issue 1
The seasonal occurrence of endophytic fungus, Mycosphaerella buna, in Japanese beech, Fagus crenata
journal, August 2003
- Kaneko, Reiko; Kakishima, Makoto; Tokumasu, Seiji
- Mycoscience, Vol. 44, Issue 4
Species and organ specificity of fungal endophytes in herbaceous grassland plants
journal, July 2012
- Wearn, James A.; Sutton, Brian C.; Morley, Neil J.
- Journal of Ecology, Vol. 100, Issue 5
Fungal endophyte communities reflect environmental structuring across a Hawaiian landscape
journal, July 2012
- Zimmerman, N. B.; Vitousek, P. M.
- Proceedings of the National Academy of Sciences, Vol. 109, Issue 32
Integrating internal and external dispersal in metacommunity assembly: preliminary theoretical analyses
journal, July 2005
- Fukami, Tadashi
- Ecological Research, Vol. 20, Issue 6
Plant traits and taxonomy drive host associations in tropical phyllosphere fungal communities
journal, April 2014
- Kembel, Steven W.; Mueller, Rebecca C.
- Botany, Vol. 92, Issue 4
Vertical stratification of the foliar fungal community in the world’s tallest trees
journal, December 2016
- Harrison, Joshua G.; Forister, Matthew L.; Parchman, Thomas L.
- American Journal of Botany, Vol. 103, Issue 12
Mycosphaerella chaenomelis sp. nov.: the teleomorph of Cercosporella sp., the causal fungus of frosty mildew in Chaenomeles sinensis, and its role as the primary infection source
journal, December 1999
- Suto, Yasuo
- Mycoscience, Vol. 40, Issue 6
Indices, Graphs and Null Models: Analyzing Bipartite Ecological Networks
journal, February 2009
- Dormann, Carsten F.; Frund, Jochen; Bluthgen, Nico
- The Open Ecology Journal, Vol. 2, Issue 1
Can leaf degrading enzymes provide evidence that endophytic fungi becoming saprobes?
journal, February 2010
- Promputtha, Itthayakorn; Hyde, Kevin D.; McKenzie, Eric H. C.
- Fungal Diversity, Vol. 41, Issue 1
Endemism and functional convergence across the North American soil mycobiome
journal, April 2014
- Talbot, J. M.; Bruns, T. D.; Taylor, J. W.
- Proceedings of the National Academy of Sciences, Vol. 111, Issue 17
UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi: Methods
journal, March 2005
- Kõljalg, Urmas; Larsson, Karl-Henrik; Abarenkov, Kessy
- New Phytologist, Vol. 166, Issue 3
E VOLUTIONARY E COLOGY OF P LANT D ISEASES IN N ATURAL E COSYSTEMS
journal, September 2002
- Gilbert, Gregory S.
- Annual Review of Phytopathology, Vol. 40, Issue 1
Plant Host and Geographic Location Drive Endophyte Community Composition in the Face of Perturbation
journal, June 2016
- Christian, Natalie; Sullivan, Courtney; Visser, Noelle D.
- Microbial Ecology, Vol. 72, Issue 3
Fungal identification using a Bayesian classifier and the Warcup training set of internal transcribed spacer sequences
journal, January 2016
- Deshpande, Vinita; Wang, Qiong; Greenfield, Paul
- Mycologia, Vol. 108, Issue 1