NTR: mannose sensitive co-flocculation

[fypoadmin]

Ok, going to request a few terms, let me know what you think

1. mannose sensitive co-flocculation

suggested def: A cell population phenotype that reflects an increased occurrence of coflocculation, which can be blocked by the addition of alpha-mannose or alpha-mannosides. In coflocculation, yeast cells coaggregate with cells of another species, usually bacteria.

Mannose sensitive coflocculation appears to be an 'accepted' term - they discuss it in the introduction and it completely inhibits co-flocculation of the pombe gms1delta mutant with e. coli - WT coflocculation is 3.4%, gms1delta is 48.3% and gms1delta+mannose is 0%

Then they test a number of other substances: Addition of galactose and glucose has absolutely no effect on coflocculation -->

2. galactose insensitive coflocculation?
3. glucose insensitive coflocculation? i,e. A cell population phenotype that reflects an increased occurrence of coflocculation, which can not be blocked by the addition of galactose/glucose

Addition of plant lectins decrease co-flocculation of pombe with e. coli slightly to moderately depending on the lectin HHA = 31.7% coflocculation GNA = 42.2% co-flocculation NPA = 38% co-flocculation ConA (Concanavalin A) = 19.4%

would these be sensitive? Partially sensitive?

Thirdly, addition of certain cations increase coflocculation Li+ / Na+ / K+ / Mg2+ / Mn2+

certain cations have no effect: Co2+, Zn2+, Ca2+

And some completely abolish coflocculation (sensitive I suppose?) Cu2+, Hg2+

(from testing these different substances they could draw the conclusion that in order for coflocculation to occur, non-branched alpha-1,6-linked polymannose chains are needed, but alpha-1,3-linked mannosyl residues in the core structure of the polysaccharide may be involved to a minor extent)

So, basically I'm asking what way is best to structure these terms PMID 11693916 (short paper)

Original comment by: Antonialock

[fypoadmin]

For this one I'd be tempted just go for some broad sugar sensitive co-flocculation terms and leave it because probably of fairly minimal interest to the general fission yeast community.

This shows which sugars "block"t he flocculins The exogenous stuff is probably not so interesting. I'll leave it to you though, if you think its useful to capture more go ahead.

Val

Original comment by: ValWood

[fypoadmin]

I don't know if it is useful or not, or I would just have requested the terms without asking ;p

Original comment by: Antonialock

[fypoadmin]

I'd do the bear minimum, and then if co flocculation suddenly becomes the thing we can go back and do the detail. It seems like a lot of pain for not much gain... v

Original comment by: ValWood

[fypoadmin]

I've just had a quick look at the paper, and it seems to me that, because they really only looked at the gms1delta allele, all of these specifics are features of the same co-flocculation phenomenon. That makes it feel like it's all one phenotype phenotype, and it would be over-the-top to annotate to a lot of separate very-specific terms.

m

Original comment by: mah11

[fypoadmin]

yeah, makes sense

Original comment by: Antonialock

[fypoadmin]

OK, cool. I've added a comment to the existing coflocculation term (FYPO:00001203) with those details.

Original comment by: mah11

[fypoadmin]

• status: open --> open-works-for-me

Original comment by: mah11

[fypoadmin]

closing - now in curation tool

Original comment by: mah11

[fypoadmin]

• status: open-works-for-me --> closed-works-for-me

Original comment by: mah11