rg: response to carrageenan(CHEBI:3435

[gocentral]

Hi

I am including a mail from Kirill.

I have a paper :PMID:17095757

which indicates that Bcl10 is involved in a response to carrageenan found in food. I requested a chebi term which will be there next week: CHEBI:3435.

At the moment I have curated response to chemical stimulus. so I need:

>response to chemical stimulus. >>>(GO:new)response to carrageenan???(its an E number??)

Not sure what you would have between..I thought of 'response to food additive' as you also have response to food???? hmmmmmm

cheers,

Evelyn

Hi Evelyn

The entry for carrageenans (CHEBI:3435) will be visible in next release. Galactans (CHEBI:24134) is available now.

> 'Carrageenan is a high molecular weight sulfated polygalactan used to > improve the texture of commercial food products'

Where this definition is coming from? "Polygalactan" is kind of tautology since "galactan" already means a polysaccharide composed of galactose residues.

Here's my definition (comments welcome):

'A family of sulfated polysaccharides extracted from red seaweeds. The name is derived from a common name of red algae Chondrus crispus, "carrageen moss" (Irish moss).'

Now we have carrageenans is_a galactans however carrageenan is not quite a galactan since the residues are modified. Probably it has to be "functional parent" relationship here.

See http://www.chem.qmul.ac.uk/iubmb/enzyme/reaction/polysacc/321157.html

Kirill

> > 17095757 > > Not sure if that would be included in chebi..but I was looking for > Carrageenan or polygalactan > so that I could request a GO terms 'response to Carrageenan or > polygalactan' > > Evelyn >

Reported by: camon

Original Ticket: "geneontology/ontology-requests/3704":https://sourceforge.net/p/geneontology/ontology-requests/3704

[gocentral]

Logged In: YES user_id=436423 Originator: NO

Although this is interesting, I'm not convinced that this is a 'normal' role for Bcl10 in the sense that GO uses -- from the paper abstract it sounds like a pathological response.

We could a term if there is evidence that some organism(s) normally encounter and respond to galactans (maybe they eat the algae?), but I still don't think I'd use it to annotate Bcl10.

We certainly cannot add 'response to food additive', for the same reasons that 'response to drug' is slated for obsolescence.

m

Original comment by: mah11

[gocentral]

Logged In: YES user_id=865072 Originator: NO

I essentially agree with Midori,

Alex

Original comment by: addiehl

[gocentral]

Logged In: YES user_id=436423 Originator: NO

will reconsider if someone annotates anything that has a non-pathological response to galactan

Original comment by: mah11

[gocentral]

• status: open --> closed-rejected

Original comment by: mah11