454 Pyrosequencing analyses of forest soils reveal an unexpectedly high fungal diversity - PubMed (original) (raw)

. 2009 Oct;184(2):449-456.

doi: 10.1111/j.1469-8137.2009.03003.x. Epub 2009 Aug 22.

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• PMID: 19703112
• DOI: 10.1111/j.1469-8137.2009.03003.x

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454 Pyrosequencing analyses of forest soils reveal an unexpectedly high fungal diversity

M Buée et al. New Phytol. 2009 Oct.

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Abstract

* Soil fungi play a major role in ecological and biogeochemical processes in forests. Little is known, however, about the structure and richness of different fungal communities and the distribution of functional ecological groups (pathogens, saprobes and symbionts). * Here, we assessed the fungal diversity in six different forest soils using tag-encoded 454 pyrosequencing of the nuclear ribosomal internal transcribed spacer-1 (ITS-1). No less than 166 350 ITS reads were obtained from all samples. In each forest soil sample (4 g), approximately 30 000 reads were recovered, corresponding to around 1000 molecular operational taxonomic units. * Most operational taxonomic units (81%) belonged to the Dikarya subkingdom (Ascomycota and Basidiomycota). Richness, abundance and taxonomic analyses identified the Agaricomycetes as the dominant fungal class. The ITS-1 sequences (73%) analysed corresponded to only 26 taxa. The most abundant operational taxonomic units showed the highest sequence similarity to Ceratobasidium sp., Cryptococcus podzolicus, Lactarius sp. and Scleroderma sp. * This study validates the effectiveness of high-throughput 454 sequencing technology for the survey of soil fungal diversity. The large proportion of unidentified sequences, however, calls for curated sequence databases. The use of pyrosequencing on soil samples will accelerate the study of the spatiotemporal dynamics of fungal communities in forest ecosystems.

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Comment in

• Fungal ecology catches fire.
  Hibbett DS, Ohman A, Kirk PM. Hibbett DS, et al. New Phytol. 2009 Oct;184(2):279-282. doi: 10.1111/j.1469-8137.2009.03042.x. New Phytol. 2009. PMID: 19796334 No abstract available.

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