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When reading a paper, I came across the following statement

Standard vectors were constructed, flanked by pairs of homology sequences derived from yeast barcodes at the ends of each expression cassette. We reasoned that as these barcode sequences were designed to be orthogonal, they could serve a dual purpose of reducing the probability of mis-annealing and dictating the assembly order of multiple cassettes.

I am not sure what the "orthogonal" means here. I think it is about synthetic biology.

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  • $\begingroup$ Could you please put your question in contact? What is the reason for asking? How does this relate to your research area? Otherwise Google it $\endgroup$
    – M__ ♦
    Commented Oct 22, 2019 at 6:12
  • $\begingroup$ Could you be referring to orthologous? We can't answer this without more context. $\endgroup$
    – terdon ♦
    Commented Oct 22, 2019 at 12:02
  • $\begingroup$ You are talking about synthetic biology, right? If you mean the orthogonal Shine-Dalgano sequences, it depends on the system and all are experimental and not as established as Amber supression codons. See wiki $\endgroup$
    – Matteo Ferla
    Commented Oct 22, 2019 at 16:57
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    $\begingroup$ Thank you all very much! When I read a paper, it says, "Standard vectors were constructed, flanked by pairs of homology sequences derived from yeast barcodes at the ends of each expression cassette. We reasoned that as these barcode sequences were designed to be orthogonal, they could serve a dual purpose of reducing the probability of mis-annealing and dictating the assembly order of multiple cassettes." I am not sure what the "orthogonal" means here. I think it is about synthetic biology. Thanks! $\endgroup$
    – Luhui Zhang
    Commented Oct 25, 2019 at 3:47
  • $\begingroup$ Orthogonal in that case means what it means normally. Namely, different enough to not cross-talk. Say A interacts with a and B with b, but A does not with b. If A did interact with b, it would not be orthogonal but it be non-orthogonal/cross-talking/cross-reaction (if chemical). $\endgroup$
    – Matteo Ferla
    Commented Dec 3, 2019 at 9:48

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Orthogonal DNA sequences are the shortest possible single stranded nucleotide stretches constructed. These sequences are used as probes in DNA hybridization. Because of its length and construction it has least chance of binding with other probes.

This technique improves the efficacy and specificity and is clinically used to detect genetic disorders in shortest time duration.

Via: https://www.nature.com/articles/srep24650

https://www.pnas.org/content/106/7/2289

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  • $\begingroup$ Thank you! @Twinkle Sheen $\endgroup$
    – Luhui Zhang
    Commented Dec 6, 2019 at 4:26
  • $\begingroup$ Please upvote if you found it useful :) $\endgroup$
    – Twinkle Sheen
    Commented Dec 6, 2019 at 4:46
  • $\begingroup$ No problem! I have upvoted. I was told that my vote was recorded, but it wouldn't change the publicly post score because my reputation in the system was less than 15. $\endgroup$
    – Luhui Zhang
    Commented Dec 7, 2019 at 5:16

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