New node in the Plant Structure Ontology

[Katica Ilic]

Hi all,

I finally put together In vitro (experimental) node for the Plant
Structure Ontology.

Additional terms can be introduced later, these are the terms needed for
annotations in TAIR, Gramene and maizeGDB. I've had second thoughts about
terms that have 'culture' in the name, but these are already existing
terms, at least in TAIR and MaizeDGB.

I would greatly appreciate your suggestions and comments, especially
regarding the definitions.

The top node term is 'In vitro cell, tissue and organ culture' and this
term will go under the 'plant structure', as sibling to the four top
nodes:

PO:0009002 : cell
PO:0009004 : gametophyte
PO:0009003 : sporophyte
PO:0009007 : tissue
New term: In vitro cell, tissue and organ culture
	(i) protoplast culture
	(i) cell culture
		(i) leaf cell culture
		(i) root cell culture
	(i) callus
		(i) callus culture
	(i) embryo culture
		(i) somatic embryo


Suggested definitions for the new terms:

Term: in vitro cell, tissue and organ culture
Definition:
Experimentaly isolated and grown plant protoplast, cell, tissue and
organ, that involves, as a common factor, growth of microbe-free
plant material in an aseptic (sterile) environment, such as
sterilized nutrient medium in a test tube or petri dish.

Term: protoplast culture
Def: In vitro isolation and maintenance of the cells from which the entire
cell wall has been enzymatically removed.

Term: cell culture
Synonym: Cell suspension culture (cell suspension, carrot cell suspension,
tobacco cell suspension, maize cell suspension)
Def: In vitro grown isolated cells and small cell aggregates that
proliferate while suspended in liquid sterile medium or spread on a solid
agar medium.
Comment:  In cell cultures, the cells are no longer organized into
tissues.

Term: leaf cell culture
Def: In vitro grown isolated cells and small cell aggregates that
originated from isolated leaf protoplasts (after they re-established cell
wall, or from callus that was induced from leaf tissue).

Term: root cell culture
Def: In vitro grown isolated cells and small cell aggregates that
originated from isolated protoplasts after they re-established cell wall,
or from callus that was induced from segment of root.

Term: somatic embryo:
Def: An embryo arising from previously differentiated somatic cells in
vitro, rather than from fused haploid gametes, i.e., zygote.

Term: Callus: An unorganized, proliferative mass of large, thin-walled
cells; a wound response.

Term: Callus culture
Def: In vitro grown cell aggregates that originated from isolated
protoplasts, cell suspensions, or from callus that was induced in sterile
medium the supplemented by plant growth regulators.

Term: embryo culture:
Def: In vitro development or maintenance of isolated mature or
immature zygotic embryos, or somatic embryos.


Katica

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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/
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