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ITS as an environmental DNA barcode for fungi: an in silico approach reveals potential PCR biases
- E. Bellemain, T. Carlsen, C. Brochmann, E. Coissac, P. Taberlet, H. Kauserud
- BiologyBMC Microbiology
- 9 July 2010
It is found that ascomycetes will more easily amplify than basidiomycete ITS sequences using these regions as targets, and this bias can be avoided by using primers amplifying ITS1 only, but this would imply preferential amplification of 'non-dikarya' fungi.
Fungal community analysis by high-throughput sequencing of amplified markers – a user's guide
Taking advantage of the collective experience of six research groups, the different stages involved in fungal community analysis are reviewed, from field sampling via laboratory procedures to bioinformatics and data interpretation, and potential pitfalls, alternatives, and solutions are discussed.
ITS1 versus ITS2 as DNA metabarcodes for fungi
- R. Blaalid, S. Kumar, R. H. Nilsson, K. Abarenkov, P. Kirk, H. Kauserud
- BiologyMolecular ecology resources
- 1 March 2013
This methodological study evaluates the usability of ITS1 vs. ITS2 as a DNA metabarcoding marker for fungi and indicates that ITS1 and ITS2 to a large extent yield similar results when used asDNA metabarcodes for fungi.
The Plant Cell Wall–Decomposing Machinery Underlies the Functional Diversity of Forest Fungi
Fungal nutritional mode diversification suggests that the boreal forest biome originated via genetic coevolution of above- and below-ground biota through convergent evolution and divergence among fungal decomposers.
Changes in the root‐associated fungal communities along a primary succession gradient analysed by 454 pyrosequencing
There was a high patchiness in distribution of fungal OTUs across root systems, indicating that stochastic processes to a large extent structure the fungal communities, as a systematic shift in the community composition was observed along the chronosequence.
Mushroom fruiting and climate change
- H. Kauserud, L. C. Stige, J. Vik, R. H. Økland, K. Høiland, N. Stenseth
- Environmental ScienceProceedings of the National Academy of Sciences
- 11 March 2008
It is shown that the time of fruiting has changed considerably over this time period, with an average delay in fruiting since 1980 of 12.9 days, and early-fruiting species have experienced a stronger delay than late fruiters, resulting in a more compressed fruiting season.
New environmental metabarcodes for analysing soil DNA: potential for studying past and present ecosystems
Large variation in the level of detection among the groups and between modern and ancient samples is found, and the in silico approach offered a reliable estimate of the suitability of a marker.
Don't make a mista(g)ke: is tag switching an overlooked source of error in amplicon pyrosequencing studies?
Amplicon‐pyrosequencing‐based detection of compositional shifts in bryophyte‐associated fungal communities along an elevation gradient
- M. Davey, E. Heegaard, R. Halvorsen, H. Kauserud, M. Ohlson
- Environmental ScienceMolecular ecology
- 1 January 2013
The detection of distinct fungal assemblages associated with a single host growing in different elevation zones along an elevational gradient is of particular relevance in the light of the ongoing changes in vegetation patterns in boreal and alpine systems due to global climate warming.
High diversity of root associated fungi in both alpine and arctic Dryas octopetala
- Marit F. M. Bjorbækmo, T. Carlsen, H. Kauserud
- Environmental ScienceBMC Plant Biology
- 11 November 2010
The diversity of fungi associated with D. octopetala does not decrease in high latitude arctic regions, which contrasts observations made in a wide spectrum of other organism groups.