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shoot system development stages and child terms #517

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planteome-user opened this issue Dec 13, 2012 · 6 comments

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commented Dec 13, 2012

We are deficient in terms to describe the stages of development of the shoot system (PO:0009006).
We currently have collective plant organ structure development stage (PO:0025338) with two direct child terms: flower development stage (PO:0007615) and inflorescence development stage (PO:0001083).

I suggest we should have shoot system development stage (new PO id): A plant structure development stage (PO:0009012) that has as primary participant a shoot system (PO:0009006).

Then we could add: bud development stage (new PO id): A shoot system development stage (new PO id) that has as primary participant a bud (PO:0009006).

And then.... we can make a term for bud dormancy stage, which we need for annotating the grape data set.

bud dormancy stage (new PO id):
proposed def'n: A bud development stage (new PO id) during which a bud (PO:0009006) participates in a bud dormancy process (GO:0097207).

there is an existing GO: bud dormancy process GO:0097207

Definition
A dormancy process in which dormancy (sometimes called a dormant state) is induced, maintained or broken in a bud. Bud dormancy is a suspension of most physiological activity and growth that can be reactivated. It may be a response to environmental conditions such as seasonality or extreme heat, drought, or cold. The exit from bud dormancy is marked by the resumed growth of the bud.
Source: GOC:PO_curators, PO_REF:00009
Comment
Bud dormancy may precede dormancy of the whole plant.

Reported by: cooperl09

Original Ticket: obo/plant-ontology-po-term-requests/517

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commented Dec 20, 2012

These terms have been added so I am closing this tracker, but will leave open for comments.

shoot system development stage PO:0025527: A plant structure development stage (PO:0009012) that has as primary participant a shoot system (PO:0009006).

bud development stage (PO:0025528): A shoot system development stage (PO:0025527) that has as primary participant a bud (PO:0009006).

bud dormancy stage (PO:0025529): A bud development stage (PO:0025528) during which a bud (PO:0009006) participates in a bud dormancy process (GO:0097207).

Also created reproductive shoot system development stage (PO:0025530) as a new parent for flower development stage (PO:0007615) and inflorescence development stage (PO:0001083).

reproductive shoot system development stage (PO:0025530) : A shoot system development stage (PO:0025527) that has as primary participant a reproductive shoot system (PO:0025082).

For the bud development stages please see: [plant-ontology-po-term-requests:#523]

Original comment by: cooperl09

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commented Feb 20, 2013

Based on the discussions at the POC conf call: 2-19-13

revised def'n: A plant structure development stage (PO:0009012) that begins with the plant organ development stage (PO:0025339) and ends with either gametophyte senescent stage (PO:0025343) or sporophyte senescent stage (PO:0007017) or death.

Added comment: The shoot system (PO:0009006) develops fron the shoot apical meristem (PO:0020148) in the plant embryo (PO:0009009) in vascular plants. In lower plants the gametophore (PO:0030018) arises from a gametophore meristematic apical cell (PO:0030019) in the protonema (PO:0030003).

Changed relation: shoot system development stage has_participant shoot system.

Original comment by: cooperl09

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commented Feb 26, 2013

Made plant organ development stage (PO:0025339) part_of shoot system development stage.

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commented Feb 26, 2013

Moved the bud development terms to new tracker:
https://sourceforge.net/tracker/?func=detail&aid=3606093&group\_id=76834&atid=835555

Original comment by: cooperl09

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commented Apr 1, 2013

On the Feb 26, 2013 PO conf call we decided on this revised def'n: A collective plant organ structure development stage (PO:0025338) that begins with the onset of the plant organ development stage (PO:0025339) and ends with either gametophyte senescent stage (PO:0025343) or sporophyte senescent stage (PO:0007017) or death.

Added "begins with the onset of" and corrected the parent name in the definition.

Should this also be "ends with 'the onset of' either gametophyte senescent stage (PO:0025343) or sporophyte senescent stage (PO:0007017) or death."

Both gametophyte senescent stage (PO:0025343) and sporophyte senescent stage (PO:0007017) are whole plant development stages (PO:0007033). Perhaps shoot system development stage should end with the onset of the "plant organ senescent stage" (a new term)?

Original comment by: cooperl09

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commented Apr 2, 2013

ok

Original comment by: dws409

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