Biology Forum Genetics What is a strand bias

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    • #13839
      bertstare
      Participant

      Hi all,

      I need help in understanding some article.Article is about transcription induced mutations.It is basically about cytosine deamination to thymine during transcription and this mutation(deamination) happens in the coding strand(non trancribing strand).The article says that it doesn’t get repaired by nucleotide excision repair system because the repair system is biased.I need help in understanding the whole paragraph.Please help.Here is the paragraph.

      ”If separation of DNA strands increases the risk of hydrolytic
      deamination, cellular processes such as transcription, replication,
      conjugation, and recombination have the potential of
      promoting C to T mutations. For example, in a simple model
      for transcription elongation, the nontranscribed strand should
      be transiently in single-strand form when the transcription
      bubble passes through. Such potential deamination risk for
      cytosines in the nontranscribed strand during transcription has
      been noted before (17–20), but has not been investigated in
      depth. A possible reason for this inattention is the existence of
      strand bias in nucleotide excision repair. In E. coli (21) and in
      mammalian cells (22), transcription-blocking lesions are repaired
      preferentially when present in the transcribed strand.
      Transcription-coupled nucleotide excision repair has helped
      explain the observed bias in mutations caused by mutagens
      such as UV light in favor of the nontranscribed strand (23–25),
      and has raised the possibility that all observations of strand
      bias in mutations may be explained by strand bias in DNA
      repair. In fact, Skandalis et al. (19) have argued that there is
      a strand bias in 5meC to T mutations in the human hprt gene
      and have suggested that this is the result of strand bias in a base
      excision repair process that repairs T:G mismatches.”

    • #101545
      canalon
      Participant

      I suggest reading references 21 to 25 of your paper.

    • #101556
      sorin
      Participant

      Hi,
      a strand bias in this case just means that one strand, here the transcribed one, is preferantially repaired by a certain DNA repair mechanism over the other one. Therefore mutations seem to be preferentially occuring at only one of the strands. I actually don’t know what is the reason of the repair bias regarding NER, but for example direct reversion of UV photoproducts by photolyases is slowed down by the presence of chromatin/nucleosomes, which causes a bias in repair between the transcribed and the non-transcribed strand.

    • #101560
      bertstare
      Participant
      quote sorin:

      Hi,
      \ Therefore mutations seem to be preferentially occuring at only one of the strands. b\

      which strand

    • #101561
      sorin
      Participant
      quote bertstare:

      …In E. coli (21) and in
      mammalian cells (22), transcription-blocking lesions are repaired
      preferentially when present in the transcribed strand.
      Transcription-coupled nucleotide excision repair has helped
      explain the observed bias in mutations caused by mutagens
      such as UV light in favor of the nontranscribed strand (23–25)…”

      at the non-transcribed strand, because here repair is slow/absent –> mutations

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