Serendipitous Meta-Transcriptomics: The Fungal Community of Norway Spruce (Picea abies).

• Main Authors: Nicolas Delhomme, Görel Sundström, Neda Zamani, Henrik Lantz, Yao-Cheng Lin, Torgeir R Hvidsten, Marc P Höppner, Patric Jern, Yves Van de Peer, Joakim Lundeberg, Manfred G Grabherr, Nathaniel R Street
• Format: Article
• Language: English
• Published: Public Library of Science (PLoS) 2015-01-01
• Series: PLoS ONE
• Online Access: http://europepmc.org/articles/PMC4586145?pdf=render

After performing de novo transcript assembly of >1 billion RNA-Sequencing reads obtained from 22 samples of different Norway spruce (Picea abies) tissues that were not surface sterilized, we found that assembled sequences captured a mix of plant, lichen, and fungal transcripts. The latter were likely expressed by endophytic and epiphytic symbionts, indicating that these organisms were present, alive, and metabolically active. Here, we show that these serendipitously sequenced transcripts need not be considered merely as contamination, as is common, but that they provide insight into the plant's phyllosphere. Notably, we could classify these transcripts as originating predominantly from Dothideomycetes and Leotiomycetes species, with functional annotation of gene families indicating active growth and metabolism, with particular regards to glucose intake and processing, as well as gene regulation.