The contractor shall suggest how traditional epidemiological strain markers, e.g

Question

The contractor shall suggest how traditional epidemiological strain markers, e.g., from Pulsed-Field Gel Electrophoresis (PFGE), correlate with results obtained using NGS methods. In other words, how could you use NGS results to compare with PFGE results? References for PFGE will be given below.

Here are some links for more information about PulseNet and PFGE:

http://www.cdc.gov/pulsenet/

http://www.cdc.gov/pulsenet/whatis.htm

http://www.pulsenetinternational.org/Pages/default.aspx

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2631779/pdf/11384513.pdf

http://en.wikipedia.org/wiki/Pulsed_field_gel_electrophoresis

Explanation / Answer

PulseNet(1996) is a national laboratory network that identify outbreaks offoodborne illness cases.In PulseNet uses to detect local and multistate outbreaks it uses DNA fingerprinting, or patterns . It has improved our food safety systems through identifying outbreaks early.It is helpful to alert the public and identify gaps in our food safety systems that would not otherwise be recognized.

Pulsed-field gel electrophoresis (PFGE) is a highly discriminative molecular typing technique that is used in epidemiological studies worldwide. PFGE is based upon the variable migration of large DNA restriction fragments in an electrical field of alternating polarity. By comparing the fingerprints of any two isolates, one can investigate if they belong to the same strain (i.e. the two isolates are clonal) or if they are genetically unrelated. The implementation of PFGE in international surveillance networks, such asPulseNet

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