GO Vs Traits

[Leonore Reiser]

Pankaj- a few comments about elongation as a process

- will add cell elongation as a cellular process- in the works.
-a process might be internode elongation as a developmental process.
Leonore

On Fri, 7 Sep 2001, Pankaj Jaiswal wrote:

> Ni,
>
> I have the comments as follows:###
>
> Jun Jian Ni wrote:
> >
> > Hi,
> >
> > I have three points.
> >
> > 1. photoperiod sensitivity  is not light stress related trait. It is related with
> > maturity and also called as "environmental related trait". However, it is not related
> > stress.
>
> ### I will call it a light related since it represents the affect on plant due
> to Day length period. Now this change in day length period, is one of the
> component which affect the maturity of plant in terms of "Days to
> heading/flowering /maturity" i.e either there is a delay /early flowering.
>
> > 2. Kneeling ability and submergence tolerance and elongation ability are traits. So, no
> > need put "trait" after those again and again.
> >
>
> ### Accepted, but have a look at Michael's e mail , he suggests that elongation
> is a biological process.
>
> > 3. I suggest to remove   "physicochemical stress ", " chemical stress " and
> > "physiological stress". We can directly use "response to water stress" "response to
> > temperature stress", etc.
>
> ### Again try to resolve, response is a process/trait. I have changed the above
> terms as broad trait categories.
>
>
> ### Here comes the contradiction between the Molecular biologist/Biochemist and
> the plant breeder/Geneticist, on how he percieves the response. Whether as a
> trait or as a Bilogical process ??
>
> pankaj
>
> >
> > Ni
> >
> > Pankaj Jaiswal wrote:
> >
> > > Wait wait,
> > >
> > > let me rephrase the things here. What actually Michael did here and I can do the
> > > same too. (i apologise for not doing it earlier).....
> > >  in trait ontologies, instead of framing the term as "deep water stress" , which
> > > is rightly pointed out by Midori and Micheal as physiological stress type.
> > > Michael reframed it as "response to deep water" which then becomes the
> > > biological process. Now what?  if I reframe it as
> > >
> > > "deep water related trait"
> > >
> > > then will it fit the traits ontology. This is to curate a group of defined
> > > classes of trait factors (on a  higher note) which the people will be looking in
> > > for. They later become the parent for X-tolerance/X-resistance type of trait,
> > > otherwise the higher nodes of biotic/abiotic stress related traits will have a
> > > long list of children.
> > >
> > > > These, as Midori says, are environmental conditions:
> > > >
> > > >       %physicochemical stress ; GO:0301797
> > > >       %chemical stress ; GO:0301774
> > > >       %physiological stress ; GO:0301775
> > > >       %deepwater stress ; GO:0302189 ; synonym:flooding
> > > >       %drought stress ; GO:0302193
> > > >       %light stress ; GO:0301777
> > > >       %temperature stress ; GO:0302206
> > >
> > >  I change them to :
> > >
> > >
> > > >       %physicochemical stress related trait ; GO:0301797
> > > >       %chemical stress related trait; GO:0301774
> > > >       %physiological stress related trait; GO:0301775
> > > >       %deepwater stress related trait; GO:0302189 ; synonym:flooding related trait
> > >          %kneeling ability trait ; GO:0302185 ; ICIS:1212 ; synonym:KnA
> > >          %submergence tolerance  trait; GO:0302187 ; ICIS:1215 ; synonym:Sub
> > >          %elongation trait; GO:0302188 ; ICIS:1209 ; synonym:Elon
> > > >       %drought stress related trait; GO:0302193
> > >          %drought sensitivity ; GO:0302192 ; synonym:DRS
> > >          %drought tolerance ; GO:0302191
> > >          %drought recovery ; GO:0302190 ; synonym:DRR
> > > >       %light stress related trait; GO:0301777
> > >          %photoperiod sensitivity ; GO:0301776
> > > >       %temperature stress related trait; GO:0302206
> > >          %cold tolerance ; GO:0302204 ; synonym:CTol
> > >          %heat tolerance ; GO:0302194 ; ICIS:1210 ; synonym:HTol
> > >
> > >
> > > pankaj
> > >
> > > Lincoln Stein wrote:
> > > >
> > > >  >       %response to deepwater stress ; GO:0302189 ; synonym:flooding
> > > >
> > > > "synonym: response to flooding" no?
> > > >
> > > > Lincoln
> > > >
> > > > --
> > > -
>
> --
>
> **************************************************************
> Pankaj Jaiswal, Ph.D.
> Postdoctoral Associate
> Dept. of plant Breeding
> Cornell University
> Ithaca, NY-14853, USA
>
> Tel:+1-607-255-3103 / Fax:+1-607-255-6683
> E mail: pj37 at cornell.edu
> http://www.gramene.org   http://ars-genome.cornell.edu/rice
> **************************************************************
>
>

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Leonore Reiser, Ph.D.                   lreiser at acoma.stanford.edu
The Arabidopsis Information Resource	FAX: (650) 325-6857
Carnegie Institution of Washington	Tel: (650) 325-1521 ext. 311
Department of Plant Biology		URL: http://arabidopsis.org/
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Stanford, CA 94305
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