Delhomme, Nicolas
- Umeå University
Abstract
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.
Published in
PLoS ONE
2015, volume: 10, number: 9, article number: e0139080
Publisher: PUBLIC LIBRARY SCIENCE
SLU Authors
Sundström, Görel
- Umeå University
Lantz, Henrik
- Uppsala University
UKÄ Subject classification
Bioinformatics and Computational Biology (Methods development to be 10203)
Forest Science
Genetics and Breeding in Agricultural Sciences
Publication identifier
- DOI: https://doi.org/10.1371/journal.pone.0139080
Permanent link to this page (URI)
https://res.slu.se/id/publ/80805