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Genetic mapping in Escherichia coli


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#1 pDNA

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Posted 23 July 2014 - 04:00 AM

Dear people,

 

 

    i'm currently curious about the meaning of a special genotype abbreviation in E. coli. Particularly, i'm looking for the meaning of zig-12.

What i have revealed so far is that zig refers to the approximate deletion at 87 minutes in the E. coli chromosome (aa is 00, ab is 01, and so on ...ig therefore refers to 87). All these zih-traits (there are alos zih-35, zih-219, zih-3088, zih-3166) seem to be associated with the gene deletion mapping.

 

Unfortunately i have no clue what the -12 should mean?

 

Maybe someone of the  experienced "old fellows" can help me out?

 

Many thanks in advance!

 

Best,



#2 pito

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Posted 23 July 2014 - 11:55 AM

Its the allele number.


If you don't know it, then ask it! Better to ask and look foolish to some than not ask and stay stupid.


#3 pDNA

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Posted 23 July 2014 - 12:57 PM

many thanks!!!

 

This means zih-12::Tn10 tells me that some transposon is sitting in the genome at 87 minutes ...this means in this particular strain the Tn10 was mapped to 87 minutes ...the paper is from 1979 ...back in those days people did not know about a gene at this position ...therefore they gave the map position using "zih".

 

If i would nowadays try to figure out what gene got hit in 1979 ...i have to sequence a portion of the genome to figure out what exactley happenend ...am i right? Or does the allele number gives me some information that is useless in that sense?

 

Best,

p


Edited by pDNA, 23 July 2014 - 12:58 PM.


#4 pito

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Posted 23 July 2014 - 09:21 PM

yeah, sequence it.

To be 100% sure what it is, you need that specific strain with that genotype. its just "number 12" of mutations (or insertions) (variant)...

 

The allele number is just a variant of the gene due to mutation.... so its actually useless if you do not have that specific strain with that "allele number".


If you don't know it, then ask it! Better to ask and look foolish to some than not ask and stay stupid.





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