Does prokaryotic RNA sequencing require a reference genome?
Yes, the reference genome information of studied species is needed for prokaryotic RNA sequencing. Since there are a large number of gene overlapping regions, operons and polycistronicmRNA structures in prokaryotic genome. It is difficult to assemble transcripts Without reference genome in prokaryotes. In addition, there will be many strains in prokaryotes at the species level, and great differences of genome exists between different strains. Therefore, it is necessary for prokaryotic RNA sequencing with a reference genome.
what are the differences of strand specific library and non-strand specific library on on prokaryotic RNA sequencing?
The strand specific library can provide RNA direction information to distinguish whether the transcripts come from the sense strand or the antisense strand, which can also avoid the interference of the overlapping of complementary strand transcripts to obtain more accurate gene quantification. The strand specific library can improve the detection of noncoding transcripts on the antisense strand, and their location between genes. In addition, new transcripts prediction, small RNA analysis, antisense transcripts and other structural analysis can only be carried out on the basis of strand specific libraries.
