Hello to everyone.
In my group, we are using RNA-Seq to study the expression of bacteria under different conditions, isolated or as dual-transcriptome when in association with plants.
When checking the table of total counts for each gene, I can observe an important number of reads mapping against the rrna genes, mostly 16S and 23S. I also found a similar amount of read counts mapping against rrnas when analyzing a dual experiment where no bacteria was present, just plant material.
Illumina reads from HiSeq200 were treated by TopHat and Cufflinks. Library preparations followed a RiboZero Gold treatment + TruSeq Stranded Total RNA kit. Additionally, rrna depletion was verified by running Bioanalyzer.
Have any one an idea where this mapping might come?
Thanks in advance for your help.
In my group, we are using RNA-Seq to study the expression of bacteria under different conditions, isolated or as dual-transcriptome when in association with plants.
When checking the table of total counts for each gene, I can observe an important number of reads mapping against the rrna genes, mostly 16S and 23S. I also found a similar amount of read counts mapping against rrnas when analyzing a dual experiment where no bacteria was present, just plant material.
Illumina reads from HiSeq200 were treated by TopHat and Cufflinks. Library preparations followed a RiboZero Gold treatment + TruSeq Stranded Total RNA kit. Additionally, rrna depletion was verified by running Bioanalyzer.
Have any one an idea where this mapping might come?
Thanks in advance for your help.
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