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ITS as an environmental DNA barcode for fungi: an in silico approach reveals potential PCR biases
BackgroundDuring the last 15 years the internal transcribed spacer (ITS) of nuclear DNA has been used as a target for analyzing fungal diversity in environmental samples, and has recently beenExpand
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Fungal community analysis by high-throughput sequencing of amplified markers – a user's guide
Novel high-throughput sequencing methods outperform earlier approaches in terms of resolution and magnitude. They enable identification and relative quantification of community members and offer newExpand
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Changes in the root‐associated fungal communities along a primary succession gradient analysed by 454 pyrosequencing
We investigated changes in the root‐associated fungal communities associated with the ectomycorrhizal herb Bistorta vivipara along a primary succession gradient using 454 amplicon sequencing. OurExpand
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Don't make a mista(g)ke: is tag switching an overlooked source of error in amplicon pyrosequencing studies?
Summary High throughput sequencing has become a powerful tool for fungal ecologists to explore the diversity and composition of fungal communities. However, various biases and errors are associatedExpand
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High diversity of root associated fungi in both alpine and arctic Dryas octopetala
BackgroundDryas octopetala is a widespread dwarf shrub in alpine and arctic regions that forms ectomycorrhizal (ECM) symbiotic relationships with fungi. In this study we investigated the fungalExpand
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Arctic root‐associated fungal community composition reflects environmental filtering
There is growing evidence that root‐associated fungi have important roles in Arctic ecosystems. Here, we assess the diversity of fungal communities associated with roots of the ectomycorrhizalExpand
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Evolutionary history of Serpulaceae (Basidiomycota): molecular phylogeny, historical biogeography and evidence for a single transition of nutritional mode
BackgroundThe fungal genus Serpula (Serpulaceae, Boletales) comprises several saprotrophic (brown rot) taxa, including the aggressive house-infecting dry rot fungus Serpula lacrymans. RecentExpand
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Towards standardization of the description and publication of next-generation sequencing datasets of fungal communities.
Bonfante P, Genre A. 2008. Plants and arbuscular mycorrhizal fungi: an evolutionary-developmental perspective. Trends in Plant Science 13: 492–498. Bonfante P, Selosse MA. 2010. A glimpse into theExpand
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CLOTU: An online pipeline for processing and clustering of 454 amplicon reads into OTUs followed by taxonomic annotation
TLDR
We introduce CLOTU, an online and open access bioinformatics pipeline that includes different options for filtering, trimming, clustering and taxonomic annotation of high throughput sequence reads. Expand
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Different bacterial communities in ectomycorrhizae and surrounding soil
Several eukaryotic symbioses have shown to host a rich diversity of prokaryotes that interact with their hosts. Here, we study bacterial communities associated with ectomycorrhizal root systems ofExpand
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