New terms in PO

[Leonore Reiser]

On Thu, 2 Sep 2004, Felipe Zapata wrote:

> Cauline leaf:
>  From the definition it looks like it refers to a regular leaf. Only it
> has a particular name because "is before flowering" and "lacks a
> petiole".  Lacking a petiole shouldn't pose a problem as not all the
> parts of leaf have to be present (we still follow the sometimes part of
> rule, right?). So a leaf may or may not have petiole.  In regards to
> "before flowering" I wonder if this event makes a "regular leaf" (in
> terms of anatomy and structure) a different type of leaf. I don't think
> so.  This is more like a...developmental stage term?

This term typically refers to the leaves which are borne on the elongated
inflorescence branches in Arabidopsis. It is a VERY commonly used term in
desrcribing Arabidopsis both wild type and mutant form.They almost always
have 'adult' characteristics.

>
> Rosette leaf:
> Once again, from the definition, it looks like it refers to a regular
> (normal) leaf growing in certain arrangement, not to a different type
> of leaf.  If the internodes between leaves elongate or not, that's a
> different issue.  Some plants grow characteristically as rosette plants
> (e.g. plants in the high peaks), nonetheless the leaves are "normal
> leaves".  If rosette leaf is introduced to POC, why not alternate leaf?
> opposite leaf?
Again- this is a very commonly used term to describe leaves that are
formed prior to elongation of the primary stem. Well, actually, I think
Fred Hempell may have shown that some of these leaves are initiated before
stem elongation. So maybe defining as leaves which are below the elongated
internode.

>
> Hypocothyl hook:
> I am not what it refers to, but if it is indispensable...
>

Oh yes- it is indespensable- particularly when describing ethylene
responses. Part of the so called triple response is hypocotyl hook
curvature. This would be an example of a term that refers to a region
(defined by a physiological response).
Leonore

> F
>
> On Sep 2, 2004, at 8:47 PM, Katica Ilic wrote:
>
> > Hi all,
> >
> > We have a user's request to introduce the following terms in PO:
> >
> > Cauline leaf
> > Rosette leaf
> > Hypocotyl hook
> >
> >
> > Cauline leaf and rosette leaf are both present in TAIR (with several
> > annotations for both)
> >
> > Term name: Cauline leaf
> > ID: TAIR:0000090 (currently 5 genes associated with this term, 5
> > annotations)
> > Def: Stem leaf, produced before the transition to flowering, lacking a
> > petiole.
> >
> > Term name: Rosette leaf
> > ID: TAIR:0000089 (currently 11 genes associated with this term, 11
> > annotations)
> > Def: Leaf that is part of phyllotactic spiral with little internode
> > elongation between successive leaves. In Arabidopsis, vegetative
> > development is characterized by the production of the rosette leaves.
> >
> > Both terms could be children of 'leaf' or 'simple leaf' (instance
> > of).
> > These are the existing terms in PO (under phyllome node), and to my
> > knowledge, synonymy may not work here:
> >
> >   PO:0009025 : leaf
> >   PO:0006340 : adult leaf
> >   PO:0020103 : flag leaf
> >   PO:0020043 : compound leaf
> >   PO:0006338 : embryonic leaf
> >   PO:0006339 : juvenile leaf
> >   PO:0020042 : simple leaf
> >
> >
> > I myself am not very sure about the third proposed term, hypocotyl
> > hook; it's referring to the region of the seedling in early seedling
> > development, but this is not dev stage term.
> >
> > There are few publications (often ethylene response genes) in which the
> > authors are referring to 'hypocotyl hook'. Here are some:
> >
> > http://dev.biologists.org/cgi/reprint/126/16/3661
> > http://www.blackwell-synergy.com/links/doi/10.1046/j.1365
> > -313x.1999.00607.x/full/
> >
> > What do you think about introducing these three terms?
> >
> > Pankaj, this node is currently assigned to you.
> >
> > Katica
> > -----------------------------------------------------------------------
> > ---
> > Katica Ilic             		katica at acoma.stanford.edu
> > The Arabidopsis Information Resource 	Tel: (650) 325-1521 ext. 253
> > Carnegie Institution of Washington 	FAX: (650) 325-6857
> > Department of Plant Biology 		URL: http://arabidopsis.org/
> > 260 Panama St.
> > Stanford, CA 94305
> > U.S.A.
> > -----------------------------------------------------------------------
> > ---
> >
> >
>

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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/
260 Panama St.
Stanford, CA 94305
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