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Synonymous/nonsynonymous susbstitution - (Jan/16/2007 )

Hi people,

I have been reading a few things about synonymous and non-synoymous substitutions in nucleic acids and as to what their rates of substitutions might mean....but there are few things which i could not understand like

1. what does saturation of Synoymous/non synonymous substitution means ?. In what scenarios is such an observation made ?

2. How can one test for saturation of susbstitution.....i mean how does one know saturation has occurred ?

3. I understand that there are many caveats in estimation of these rates like sequence alignment, and how evolutionarily close the sequences are.....Is there any good review which describes as to how i can overcome these problems ?

have a good day!!!.

-string-

QUOTE (string @ Jan 16 2007, 11:05 AM)
Hi people,

I have been reading a few things about synonymous and non-synoymous substitutions in nucleic acids and as to what their rates of substitutions might mean....but there are few things which i could not understand like

1. what does saturation of Synoymous/non synonymous substitution means ?. In what scenarios is such an observation made ?

2. How can one test for saturation of susbstitution.....i mean how does one know saturation has occurred ?

3. I understand that there are many caveats in estimation of these rates like sequence alignment, and how evolutionarily close the sequences are.....Is there any good review which describes as to how i can overcome these problems ?

have a good day!!!.


If you could overcome these problems then I think you would really achieve something special. As far as I am aware such problems are non-trivial and continue to cause divides in the evolutionary field.

I suggest looking at papers by:
Goldman N
Zhang Z
Goldstein R
Hein J

-perlmunky-

Thanks perl munky....

I will be glad if you have any more inputs on what saturation of substitutions might mean ? and how to test for them ?

have a good day!!

-string-