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What is the typical arrangement of amplified genes in archaea genome?

Biology Asked on August 19, 2021

I have to check if some genes are amplified with bioinformatics tools, but, in order to do it, I need to know what this means from a biological point of view.

It seems not so difficult to understand, in fact the definition from NIH is simply the following:

Gene amplification is an increase in the number of copies of a gene sequence. Cancer cells sometimes produce multiple copies of genes in response to signals from other cells or their environment. The term also can refer to polymerase chain reaction (PCR), a laboratory technique that is used by scientists to amplify gene sequences in a test tube.

So my question is: if I have the complete DNA sequence of the organism’s genome that I am studying (like this), that belongs to Archaea domain, what I should do to check for gene amplification is to see if the sequence of the gene (that I suspect that it is amplified) is repeated more times ?

I thank you in advance.

One Answer

You ask "so in the sequence that I linked, should I simply find the sequence of a gene more times if it has been amplified ?"

Yes. There are many ways, both natural and artificial, to end up with more copies of a certain gene or genes without a proportional increase in copies of the other genes in the cell. Thus, there is no generally expected arrangement of the amplified genes.

One aspect to think about is the criteria for determining whether two given genes are copies of the same gene or are two distinct genes.

Correct answer by Armand on August 19, 2021

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