New terms: conditional site labelling, BiLC, CODA-RET

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Dear all,

I have created a batch of new terms to address some of the questions that arose during the PSI meeting. Any feedback is welcomed.

[Term] id: MI:2168 name: conditional site labelling def: "The interaction is detected through labelling of a specific site -which can be an active site- that is only accessible once the participants are interacting. This conditional site is then marked with a chemical label for detection." [PMID:19416890] subset: PSI-MI_slim synonym: "active site labelling" RELATED [] is_a: MI:1313 ! proximity labelling technology created_by: ppm creation_date: 2015-04-29T10:19:28Z

This one was created for the active site labelling experiments shown by Sara from PMID:19416890. I created a more generic term to cover a few more use cases, where the site labelled just needs to come from the interactions between the participants, it does not need to be an active site.

[Term] id: MI:2171 name: complemented donor-acceptor resonance energy transfer def: "This technology is based on quantifying the BRET between a pair of participants bearing complementation tags and a participant tagged with a bioluminescent enzyme or a fluorescent tag. The tags held by the pair of participants are complementary halves of either a fluorescent tag (N- and C- fragments of the Venus fluorescent protein, for example) or a bioluminescent enzyme (N- and C- fragments of Renilla luciferase, for example). Interaction between the pair of participants leads to reconstruction of the bioluminescent enzyme/fluorescent protein, which can then emit/accept photons that are accepted/emitted by the tag in the third participant, generating the signal used to detect the interaction. The signals emitted by the bioluminescent enzyme and the fluorescent tag have different wavelengths, so they can be distinguished." [PMID:21785426, PMID:25706338] subset: PSI-MI_slim synonym: "bret complementation" EXACT PSI-MI-alternate [] synonym: "bret complementation assay" EXACT PSI-MI-alternate [] synonym: "copa-ret" EXACT PSI-MI-short [] is_a: MI:0051 ! fluorescence technology is_a: MI:2169 ! luminiscence technology created_by: ppm creation_date: 2015-04-29T13:25:55Z

This covers the BRET complementation assay case that Sara brought up. I have not found any use cases for the FRET complementation assay, but if somebody can send any over I will create children terms to address the use cases specifically. The creation fo this term required adding the two following parent terms:

[Term] id: MI:2169 name: luminiscence technology def: "Techniques based upon the measurement of the emission of one or more photons in a bioluminescent reaction. Such reactions are typically catalyzed by two groups of enzymes: photoproteins and luciferases. Photoproteins emit light in proportion to the concentration of the protein itself, while in a luciferin-luciferase reaction, photon emission is directly proportional to the amount of luciferin." [PMID:24166364] is_a: MI:0013 ! biophysical created_by: ppm creation_date: 2015-04-29T11:50:41Z

[Term] id: MI:2170 name: bimolecular luminiscence complementation def: "The bimolecular luminescence complementation (BiLC) is an assay for determination of protein interactions and/or their location in living cells. This approach is based on complementation between two fragments of a bioluminescent enzyme such as luciferin or aequorin. Interactions between proteins fused to each fragment bring the fragments together resulting in the reconstitution of a fully functional bioluminescent enzyme that can be identified through microscopy or luminescence detection." [PMID:25859972] synonym: "bilc" EXACT PSI-MI-short [] synonym: "bioluminescence complementation" EXACT PSI-MI-alternate [] synonym: "bioluminescence complementation assay" EXACT PSI-MI-alternate [] synonym: "luminescence complementation assay" EXACT PSI-MI-alternate [] synonym: "luminiscence complementation" EXACT PSI-MI-alternate [] synonym: "split-luciferase complementation" RELATED [] synonym: "split-luciferase complementation assay" RELATED [] is_a: MI:2169 ! luminiscence technology created_by: ppm creation_date: 2015-04-29T12:03:27Z

Although the terms have not been used before, I could find use cases for them (see PMID:25859972), so they can be used as needed.

Cheers,

Pablo.

Reported by: pporras

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• labels: --> New terms MI
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Original comment by: pporras

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• status: open --> closed

Original comment by: pporras