GO:0010196 : nonphotochemical quenching

[gocentral]

I think a synonym 'thermal dissipation' should be added. I'm not 100% sure though that termal dissipation = nonphotochemical quenching or whether it is a type of nonphotochemical quenching.

Reported by: syrhee

Original Ticket: "geneontology/ontology-requests/1625":https://sourceforge.net/p/geneontology/ontology-requests/1625

[gocentral]

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I'll find out.

Ta,

Jen

Original comment by: jenclark

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• assigned_to: nobody --> jenclark

Original comment by: jenclark

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I just found PMID: 10667783 http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list\_uids=10667783 and it seems as if nonphotochemical quenching is a type of thermal dissipation.

If you agree I can go ahead and add the synonym.

Jen

Original comment by: jenclark

[gocentral]

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Good article. Yes, I agree. There is another reference that I found: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi? cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=15045668

I've been reading up on this briefly and I think it would be good to group three existing terms in GO (nonphotochemical quenching, xanthophyll cycle, and Photosystem II repair) under a new term called 'photoprotection'.

Photoprotection Def: Processes that prevent or minimize generation of oxidizing molecules, scavenge reactive oxygen species efficiently, and repair damage that inevitably occurs. Source: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi? cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=15012213

This term could be placed as a sibling of photosynthesis.

Original comment by: syrhee

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Hi Sue,

Yes that's a good idea. We did loads on this at university and so it shouldn't take much for me to find out the details. I'll make up some terms and post them here for your comments.

Jen

Original comment by: jenclark

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The introduction of PMID: 12237386 is very helpful.

Jen

Original comment by: jenclark

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Hi Sue,

All the articles I've found only mention PSII being damaged during photodamage and not PSI, and so I wondered about putting the terms as a child of %photosynthesis light harvesting in photosystem II ; GO:0009769. What would you think about that? I also made a couple of adjustments to your def but that's just a suggestion and very open for further improvement.

%photosynthesis ; GO:0015979 -<photosynthesis, light reaction ; GO:0019684 --<photosynthesis light harvesting ; GO:0009765 ---%photosynthesis light harvesting in photosystem II ; GO:0009769 ----<photoprotection ; GO:new -----%xanthophyll cycle ; GO:0010028 -----%Photosystem II repair ; GO:0010206 -----%nonphotochemical quenching ; GO:new ; Broad_synonym: thermal dissipation

Photoprotection Def: Under excessive illumination reactive singlet oxygen can be created during photosynthesis, resulting in damage to Photosystem II. Photoprotection includes processes that prevent or minimize generation of oxidizing molecules during photosynthesis, scavenge reactive oxygen species efficiently, and repair the damage to Photosystem II that inevitably occurs.

Thanks,

Jen

Original comment by: jenclark

[gocentral]

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Jen,

Although the three children terms are part of photoprotection that involve PSII, there are other types of photoprotection processses that are independent from PSII and even from photosynthesis. See the following review and other reviews cited there if you want to get more information. I don't think it is necessary to get the complete photoprotection terms in the ontology now, but grouping existing terms under this higher-level process would be good in addition to their current places in the ontology. Nonphotochemical quenching is an existing term (GO:0010196).

The definition of photoprotection you have is too limiting in my opinion. The review is:

http://www.ncbi.nlm.nih.gov/entrez/query.fcgi? cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=15012213

Let me know if you want a PDF file of this article.

Original comment by: syrhee

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Hi Sue,

Thanks for the offer of the pdf. Could you send me that please? That would be really helpful.

Thanks,

Jen

Original comment by: jenclark

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• priority: 5 --> 9

Original comment by: jenclark

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• priority: 9 --> 5

Original comment by: jenclark

[gocentral]

review paper on NPQ

Original comment by: nobody

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Hi,

This item has been open for a long time. Please comment to let us know whether you would like it to remain assigned to you, or would prefer it to be reassigned. (You don't necessarily have to work on it immediately if you keep it; we just need to know whether it's still on your list.)

Thanks, Midori & David Ontology development group managers

Original comment by: mah11

[gocentral]

• labels: --> New term request
• status: open --> closed-out-of-date

Original comment by: jenclark