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Towards a unified paradigm for sequence‐based identification of fungi
All fungal species represented by at least two ITS sequences in the international nucleotide sequence databases are now given a unique, stable name of the accession number type, and the term ‘species hypothesis’ (SH) is introduced for the taxa discovered in clustering on different similarity thresholds.
Global diversity and geography of soil fungi
Diversity of most fungal groups peaked in tropical ecosystems, but ectomycorrhizal fungi and several fungal classes were most diverse in temperate or boreal ecosystems, and manyfungal groups exhibited distinct preferences for specific edaphic conditions (such as pH, calcium, or phosphorus).
Structure and function of the global topsoil microbiome
It is shown that bacterial, but not fungal, genetic diversity is highest in temperate habitats and that microbial gene composition varies more strongly with environmental variables than with geographic distance, and that the relative contributions of these microorganisms to global nutrient cycling varies spatially.
454 Pyrosequencing and Sanger sequencing of tropical mycorrhizal fungi provide similar results but reveal substantial methodological biases.
It was found that most pyrosequencing singletons were artifactual and contained a strongly elevated proportion of insertions compared with natural intra- and interspecific variation, which influenced the richness and community composition as recovered by pyro sequencing.
Low diversity and high host preference of ectomycorrhizal fungi in Western Amazonia, a neotropical biodiversity hotspot
- L. Tedersoo, Ave Sadam, Milton Zambrano, R. Valencia, M. Bahram
- Environmental ScienceThe ISME Journal
- 1 April 2010
It is demonstrated that the diversity of plants and their mycorrhizal fungi is not always related and host preference among EcMF can be substantial outside the temperate zone.
Functional implications of microbial and viral gut metagenome changes in early stage L-DOPA-naïve Parkinson’s disease patients
Differences of colonic microbiota and of microbiota metabolism between PD patients and controls are revealed at an unprecedented detail not achievable through 16S sequencing, point to a yet unappreciated aspect of PD, possibly involving the intestinal barrier function and immune function in PD patients.
Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi
Overall, the metagenomics data set recovered a similar taxonomic overview, but resulted in much lower fungal rDNA sequencing depth, inability to infer OTUs, and high levels of bias in fungal community ecology.
Mycobiome diversity: high-throughput sequencing and identification of fungi
- R. H. Nilsson, S. Anslan, M. Bahram, C. Wurzbacher, P. Baldrian, L. Tedersoo
- BiologyNature Reviews Microbiology
- 26 October 2018
An overview and practical recommendations for aspects of HTS studies ranging from sampling and laboratory practices to data processing and analysis are provided, and advice for leveraging next-generation technologies to explore mycobiome diversity in different habitats is provided.
Towards global patterns in the diversity and community structure of ectomycorrhizal fungi.
A global analysis to disentangle the global determinants of diversity and community composition for ectomycorrhizal fungi-microbial symbionts that play key roles in plant nutrition in most temperate and many tropical forest ecosystems provides useful biogeographic and ecological hypotheses for explaining the distribution of fungi.