Publications

Publications in peer reviewed journals

1 Publication found
  • The Signal and the Noise: Characteristics of Antisense RNA in Complex Microbial Communities

    Michaelsen TY, Brandt J, Singleton CM, Kirkegaard RH, Wiesinger J, Segata N, Albertsen M
    2020 - mSystems, 5: e00587-19

    Abstract: 

    High-throughput sequencing has allowed unprecedented insight into the composition and function of complex microbial communities. With metatran- scriptomics, it is possible to interrogate the transcriptomes of multiple organisms si- multaneously to get an overview of the gene expression of the entire community. Studies have successfully used metatranscriptomics to identify and describe rela- tionships between gene expression levels and community characteristics. How- ever, metatranscriptomic data sets contain a rich suite of additional information that is just beginning to be explored. Here, we focus on antisense expression in meta- transcriptomics, discuss the different computational strategies for handling it, and highlight the strengths but also potentially detrimental effects on downstream anal- ysis and interpretation. We also analyzed the antisense transcriptomes of multiple genomes and metagenome-assembled genomes (MAGs) from five different data sets and found high variability in the levels of antisense transcription for individual spe- cies, which were consistent across samples. Importantly, we challenged the concep- tual framework that antisense transcription is primarily the product of transcriptional noise and found mixed support, suggesting that the total observed antisense RNA in complex communities arises from the combined effect of unknown biological and technical factors. Antisense transcription can be highly informative, including techni- cal details about data quality and novel insight into the biology of complex micro- bial communities.

Book chapters and other publications

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