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What are the bacteria doing? The metatranscriptomics (mRNA and transcriptome level) only record active genes (the total transcribed RNA) because the method only records the mRNA molecules. Since the bacterial rRNA is usually enriched beforehand, it does not provide any information on the bacterial species.
This sequencing method extracts all actively transcribed genes (studies the total transcribed RNA), not all existing genes, because some genes may not be sufficiently active at the time of sampling, and describes gene expression in microbial communities. This provides stronger evidence for the functional activity of genes than DNA-based community sequencing methods because many genes are conditionally expressed.
Deng et al. 2018b mSphere 3: e00262-e…