Isolate mRNA from eukaryotic
cells by lysing cells and making use of the fact that at the 3' end of
nearly all eukaryotic mRNAs there is a stretch of 50 - 250 adenylate residues
the polyA tail. This allows them to
be purified away from the more abundant tRNAs and rRNAs.
Purification can be performed by binding mRNAs on a solid matrix to which short strings of thymidylate residues are attached (oligo dT matrix). The mRNAs are removed again by washing in a low salt buffer.
Fig 7-14 Lodish et al, 4th ed
To convert the mRNA into cDNA, we have to go through a number of steps:
Fig 7-15 Lodish et al, 4th ed
First
strand synthesis requires the use of reverse
transcriptase (a viral enzyme) and an oligo
dT primer.
The enzyme terminal
transferase adds nucleotides to the 3' end of single- or double-stranded
nucleic acids (without requirement for a template).
If only one nucleotide is
provided (e.g. dGTP) then a homopolymeric
tail
is added to the 3' ends of the duplex.
To prepare the cDNA for cloning,
a number of further steps can be taken. The cDNA ends can be made flush
by treating with a single strand specific nuclease (e.g. S1
nuclease) to remove 3' overhangs, and Klenow
enzyme to fill in any missing 3' nucleotides. At this stage,
can ligate the cDNAs by blunt-end ligation. However, we can also ligate
linkers
to either end of the cDNAs using DNA ligase.
Thelinkers are short oligonucleotides
incorporating restriction enzyme sites (e.g.
EcoRI). If the 5' ends
of the linkers are not phosphorylated, only one can be added to each cDNA
end. The cDNAs can then be digested with
EcoRI to leave cohesive
ends for efficient cloning into an
EcoRI-digested vector.