The ISME Journal · 2018 · 112 citations · 76 references
Life SciencesPlant BiologyPlant SciencesPhylogeneticsPlant EvolutionSoil MicrobiologyForest BiodiversityPhylogenetic Tree ReconstructionPlant MicrobiomePlant PhylogenyPlant-associated Microbial CommunitiesSoil Microbial GeneticsMycobiota DiversityMycorrhizal DiversityMycorrhizal EvolutionPhylogenetic Tree InferenceSoil Biodiversity PatternsWoody Stems
Recent studies have detected strong phylogenetic signals in tree-fungus associations for diseased leaves and mycorrhizal symbioses. However, the extent of plant phylogenetic constraints on the free-living soil mycobiome remains unknown, especially at broad geographic scales. Here, 343 soil samples were collected adjacent to individual tree trunks, representing 58 woody plant species located in five mountain forests of eastern China. Integrating plant species identity and phylogenetic information, we aimed to unravel the relative contributions of phylogenetic relationships among tree species, abiotic environmental filtering, and geographic isolation to the geographic distribution of soil mycobiome. We found that the community dissimilarities of total fungi and each dominant guild (viz. saprotrophs, plant pathogens, and ectomycorrhizal fungi) significantly increased with increasing plant phylogenetic distance. Plant phylogenetic eigenvectors explained 11.4% of the variation in community composition, whereas environmental and spatial factors explained 24.1% and 7.2% of the variation, respectively. The communities of ectomycorrhizal fungi and plant pathogens were relatively more strongly affected by plant phylogeny than those of saprotrophs (13.7% and 10.4% vs. 8.5%). Overall, our results demonstrate how plant phylogeny, environment, and geographic space contribute to forest soil fungal distributions and suggest that the influence of plant phylogeny on fungal association may differ by guilds.
76
R: A Language and Environment for Statistical Computing
R Core Team · 2000 · 353K citations · Full text
Natural Sciences, Computer Science, Statistical Computing +10
MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0
Koichiro Tamura, Glen Stecher, Daniel S. Peterson et al. · Molecular Biology and Evolution · 2013 · 47.9K citations · Full text
Search and clustering orders of magnitude faster than BLAST
R. C. Edgar · Bioinformatics · 2010 · 21.7K citations · Full text
FLASH: fast length adjustment of short reads to improve genome assemblies
Tanja Magoč, Steven L. Salzberg · Bioinformatics · 2011 · 15.7K citations · Full text