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Molecular Ecology
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The Promise of Environmental RNA Research Beyond mRNA

Authors: Ehsan Pashay Ahi; Tamara Schenekar;

The Promise of Environmental RNA Research Beyond mRNA

Abstract

ABSTRACTEnvironmental RNA (eRNA) studies have primarily focused on species detection and community composition through metabarcoding or metatranscriptomics, and on gene expression through messenger RNA (mRNA) abundance analysis. While valuable, this focus overlooks the broader functional roles of other RNA types in cellular metabolism. Beyond mRNA, noncoding RNAs as well as structural RNAs play critical roles in gene regulation during stress responses, development and adaptation. Additionally, RNA processes like RNA methylation or alternative splicing also respond to similar environmental or developmental signals. When applied to eRNA research, these additional RNA types and RNA processes hold significant potential as powerful, noninvasive tools for monitoring the physiological state of entire species communities. In this roadmap, we present underexplored RNA types and processes relevant for eRNA research, outlining their functions and the challenges of integrating them into the field. Expanding eRNA research to include more diverse aspects of RNA biology will require improved experimental techniques for sensitive and reliable detection and quantification of specific RNAs in eRNA samples, along with enhanced tools for taxonomic and functional annotation and the expansion of genetic reference databases. Where species‐level resolution is not possible, functional inferences could be drawn at higher taxonomic levels. Expanding the scope of eRNA studies to encompass more diverse RNA types and RNA processes will provide additional insights into species communities' state, their adaptation potential and responses to stressors in a noninvasive way.

Related Organizations
Keywords

RNA, Untranslated, Gene Expression Regulation, RNA, RNA, Messenger, Environment

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    influence
    This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
5
Top 10%
Average
Top 10%
hybrid
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