stylar ridge/gynoecium ridge

[planteome-user]

The following terms have no definitions: PO:0009024
stylar ridge of lower floret of pedicellate spikelet of ear PO:0009076
stylar ridge of lower floret of sessile spikelet of ear PO:0009079
stylar ridge of upper floret of pedicellate spikelet of ear PO:0009092 stylar ridge of upper floret of sessile spikelet of ear

Even though the names are completely descriptive, we still need to have formal definitions for these terms.

Reported by: rlwalls2008

Original Ticket: obo/plant-ontology-po-term-requests/65

[planteome-user]

We can provide definitions for these until we have developed them for inflorescence.

Original comment by: dws409

[planteome-user]

Dennis, I guess you meant 'we can't provide def'ns for these....." But we will keep them in mind as we go along. Thanks for the heads up Justin and Ramona.

Original comment by: cooperl09

[planteome-user]

This term was introduced on request from maize. Check the maize definitions and modify accordingly to add appropriate ones for now. We can redo them once we revisit the inflorescence. Take a look the following defs from maize file available from

http://palea.cgrb.oregonstate.edu/viewsvn/Poc/trunk/ontology/collaborators\_ontology/maizegdb/Zea\_mays\_anatomy\_ontology\_definitions.txt?view=co&content-type=text/plain

term: stylar ridge (abortive) of lower floret of pedicellate spikelet of ear id: ZEA:0015102 definition: The gynoecium development of the lower floret begins with the production of a ridge on the abaxial surface of the apical meristem of the floret, distal to the third stamen (which later degenerates). This is the stylar ridge. While the development of this stylar ridge is very similar to that of the upper florets, the development does not proceed beyond the early ridge stage. definition_reference: MaizeGDB:lv (ID # 165572) definition_reference: MaizeGDB:60893

term: stylar ridge of upper floret of pedicellate spikelet of ear id: ZEA:0015101 definition: The gynoecium development of the upper floret begins with the production of a ridge on the abaxial surface of the apical meristem of the floret, distal to the third stamen (which later degenerates). This is the stylar ridge. Continued overgrowth of the shoot apex (which becomes the ovule primordium) by the ring of stylar tissue leads to the formation of the stylar canal, which is detected as a slight protruberance on the mature ovary. (Cheng & Pareddy, ID#60893, definition_reference: MaizeGDB:lv (ID # 165572) definition_reference: MaizeGDB:60893

Original comment by: jaiswalp

[planteome-user]

These terms raise the question the parentage of a ridge or groove (I've come across other examples). I suppose a ridge could be an organ part.

Original comment by: rlwalls2008

[planteome-user]

Could have one common parent "stylar ridge". According to the defintions below, the stylar ridge is part of the inflorescence meristem, which makes it a portion of plant tissue (since meristem is a portion of plant tissue).

We need to deal with the organization of meristem first, then come back to these terms.

Original comment by: rlwalls2008

[planteome-user]

Change name to stylar ridge.

None of these terms have is_a parents either, so we will need to deal with this for is_a completeness.

Original comment by: rlwalls2008

[planteome-user]

• priority: 3 --> 7
• summary: terms without definitions --> stylar ridge

Original comment by: rlwalls2008

[planteome-user]

update group to plant structure

Original comment by: rlwalls2008

[planteome-user]

• milestone: --> plant anatomy

Original comment by: rlwalls2008

[planteome-user]

For compositional classes like this we can define templates for auto-generating defs and synonyms - the important thing is to get the computable def in first

Original comment by: cmungall

[planteome-user]

This makes no sense to me. How can an part of the inflorescence meristem have a style or its precursor unless the definition of style and thus stylar ridge is different than the common definition of style.

Original comment by: dws409

[planteome-user]

Each of them occurs in a different structure, and has slightly different development, but they are all characterized by the following description from MaizeGDB: “The gynoecium development of the lower floret begins with the
production of a ridge on the abaxial surface of the apical meristem of the
floret, distal to the third stamen (which later degenerates). This is the
stylar ridge.” (MaizeGDB:60893). They cite Cheng & Pareddy, which is a book chapter in 'The Maize Handbook; by Freeling and Walbot.

LaRoux and Kellogg (1999) also clearly described floret development in a number of Poaceae species. They use the term gynoeocial ridge, rather than stylar ridge, so we may want to rename these terms gynoecial ridge instead of stylar ridge, or at least use it as a synonym.

According to LaRoux and Kellogg: "The gynoecial ridge, as defined by Cheng and Pareddy (1994) , is the stage at which the ovary begins to extend upwards around the nucellus, giving the appearance of an "egg" (the nucellus) in an "egg cup" (the ovary)." They also say that in multiple grass species, "The gynoecial primordium elongates faster on the side of the inner lemma, producing a gynoecial ridge, surrounding an obvious nucellus (Figs. 15, 18, 21, 24). This paper indicates that the stylar ridge is the early stage of gynoecium development and develops from the gynoecium primordium.

Based on my reading of LaRoux and Kellog, I would suggest a new parent term stylar ridge (sensu Zea) or gynoecial ridge (sensu Zea). Proposed definition: A gynoecium of ear floret in the early stages of development, characterized as a ridge on the abaxial surface of the floret meristem that develops_from gyneocium primordium (of ear floret?).

For consistency's sake, we should also add the term stylar ridge (sensue Poaceae), which could be the parent of stylar ridge (sensu Zea), since other grass species besides maize have stylar ridges.

Original comment by: rlwalls2008

[planteome-user]

Proposed definitions for children: stylar ridge of lower floret of pedicellate spikelet of ear: A stylar ridge that a gynoecium of lower floret of pedicellate spikelet of ear in the early stages of development. Comment: While the development of this stylar ridge is very similar to
that of the upper florets, the development does not proceed beyond the 
early ridge stage.

stylar ridge of lower floret of sessile spikelet of ear: A stylar ridge that is a gynoecium of a lower floret of sessile spikelet of ear in the early stages of development. Comment: Continued overgrowth of the shoot apex (which becomes the
ovule primordium) by the ring of stylar tissue leads to the formation of
the stylar canal, which is detected as a slight protruberance on the mature
ovary.

stylar ridge of upper floret of pedicellate spikelet of ear: A stylar ridge that is a gynoecium of upper floret of pedicellate spikelet of ear in the early stages of development.

stylar ridge of upper floret of sessile spikelet of ear: A stylar ridge that is a gynoecium of upper floret of sessile spikelet of ear in the early stages of development.

All of these terms would have two is_a parents: stylar or gynoecial ridge (sensu Zea) and their corresponding gynoecium. Don't need the part_of relationships, because the gynoecia already have part_of relationships to their respective florets.

Original comment by: rlwalls2008

[planteome-user]

I think it makes more sense to call this "gyneocial ridge" and include stylar ridge as a synonym.

See discussion http://wiki.plantontology.org:8080/index.php/POC\_Conf.\_Call\_10-26-10\#stylar\_ridge

Promoting for this weeks discussion

Original comment by: cooperl09

[planteome-user]

• priority: 7 --> 8

Original comment by: cooperl09

[planteome-user]

Gynoecial ridge makes more sense. The only way to have a stylar ridge on a gynoecium is to have gynobasic style. I do not know of any grasses (Poaceae) or otger members of the Poales with a gynobasic style. What is really being described here is the rim like apical growth of the gynoecium which is quite common in the monocots.

Original comment by: dws409

[planteome-user]

Proposed definitions from agenda for this week's meeting:

*Suggest new parent terms '''gynoecial ridge (sensu Zea)''', and '''gynoecial ridge (sensue Poaceae)'''

New proposed definitions:

gynoecial ridge (sensu Poaceae): A gynoecium (sensu Poaceae) in the early stages of development, characterized as a ridge on the abaxial surface of the floret meristem that develops_from a gynoecium primordium. is_a gynoecium of (sensu Poaceae) '''Note:''' do we want to add term gynoecium primordium (sensu Poaceae) or leave out the formal develops from relation?

gynoecial ridge (sensu Zea): A gynoecial ridge (sensu Poaceae) that is a gynoecium of an ear floret in the early stages of development. is_a gynoecial ridge (sensu Poaceae) and is_a gynoecium of ear floret

'''Proposed definitions for children''':

*gynoecial ridge of lower floret of pedicellate spikelet of ear: A gynoecial ridge (sensu Zea) that is a gynoecium of a lower floret of a pedicellate spikelet of ear in the early stages of development. Comment: While the development of this stylar ridge is very similar to
 that of the upper florets, the development does not proceed beyond the 
early ridge stage.

*gynoecial ridge of lower floret of sessile spikelet of ear: A gynoecial ridge (sensu Zea) that is a gynoecium of a lower floret of sessile spikelet of ear in the early stages of development. Comment: Continued overgrowth of the shoot apex (which becomes the
ovule primordium) by the ring of stylar tissue leads to the formation of
the stylar canal, which is detected as a slight protuberance on the mature
ovary.

*gynoecial ridge of upper floret of pedicellate spikelet of ear: A gynoecial ridge (sensu Zea) that is a gynoecium of an upper floret of pedicellate spikelet of ear in the early stages of development.

*gynoecial ridge of upper floret of sessile spikelet of ear: A gynoecial ridge (sensu Zea) that is a gynoecium of an upper floret of sessile spikelet of ear in the early stages of development.

All of these terms would have two is_a parents: gynoecial ridge (sensu Zea) and gynoecium of corresponding floret (PO:0006423-6426). The part_of relations to their corresponding floret (PO:000635-6453) are taken care of because their corresponding gynoecia already have part_of relationships to the florets.

Original comment by: rlwalls2008

[planteome-user]

At POC meeting on 10-26-10, we decided to change the name of these terms to gynoecium ridge, to be consistent with existing term names. Gynoecial ridge and stylar ridge will be synonyms.

We will also try to get away from using sensu in term names, but instead try the strategy of prefacing terms with their taxon names.

New parent terms:

Gynoecium ridge: proposed definition: A gynoecium in the early stages of development, characterized as a ridge on the abaxial surface of the floral meristem that develops from a gynoecium primordium. is_a gynoecium, develops_from gynoecium primordium. synonyms: gynoecial ridge, stylar ridge

Should we add comment that this is common in monocots?

Poaceae gynoecium ridge: proposed definition: A gynoecium ridge that is a Poacese gynoecium in the early stages of development and is characterized as a ridge on the abaxial surface of the Poaceae floret meristem. is_a Poaceae gynoecium, is_a gynoecium ridge synonyms: Poaceae gynoecial ridge, Poaceae stylar ridge

Zea gynoecium ridge: proposed definition: A Poaceae gynoecium ridge that is a gynoecium of an ear floret in the early stages of development and is characterized as a ridge on the abaxial surface of the ear floret meristem. is_a gynoecium of ear floret, is_a Poaceae gynoecium ridge synonyms: Zea gynoecial ridge, Zea stylar ridge

Original comment by: rlwalls2008

[planteome-user]

• summary: stylar ridge --> stylar ridge/gynoecium ridge

Original comment by: rlwalls2008

[planteome-user]

New proposed defintions for child terms (from POC meeing, 10-26-10):

*gynoecium ridge of lower floret of pedicellate spikelet of ear: A Zea gynoecium ridge that is a gynoecium of a lower floret of a pedicellate spikelet of ear in the early stages of development. Comment: While the development of this stylar ridge is very similar to
 that of the upper florets, the development does not proceed beyond the 
early ridge stage.

*gynoecium ridge of lower floret of sessile spikelet of ear: A Zea gynoecium ridge that is a gynoecium of a lower floret of sessile spikelet of ear in the early stages of development. Comment: Continued overgrowth of the shoot apex (which becomes the
ovule primordium) by the ring of stylar tissue leads to the formation of
the stylar canal, which is detected as a slight protuberance on the mature
ovary.

*gynoecium ridge of upper floret of pedicellate spikelet of ear: A Zea gynoecium ridge that is a gynoecium of an upper floret of pedicellate spikelet of ear in the early stages of development.

*gynoecium ridge of upper floret of sessile spikelet of ear: A Zea gynoecium ridge that is a gynoecium of an upper floret of sessile spikelet of ear in the early stages of development.

All of these terms would have two is_a parents: Zea gynoecium ridge and gynoecium of corresponding floret (PO:0006423-6426). The part_of relations to their corresponding floret (PO:000635-6453) are taken care of because their corresponding gynoecia already have part_of relationships to the florets. All terms will have the corresponding synonyms gynoecial ridge of... and stylar ridge of ...

These definitions were accepted at the POC conference call.

Will put a comment on these terms that they have multiple inheritance because we are dealing with an entity at a certain stage in its developlment. Need re-examine this once we know how we are going to deal with developmental stages for gynoecium.

Original comment by: rlwalls2008

[planteome-user]

These definitions look fine to me. Although the term "gynoecial ridge" is usually applied only in Zea, in fact gynoecial development is similar throughout the grasses. As Dennis notes below, this sort of rim-like growth is quite common in angiosperms, especially monocots; there is simply no standard term applied to it.

Toby Kellogg

Original comment by: nobody

[planteome-user]

I am closing this item.

Original comment by: rlwalls2008

[planteome-user]

• priority: 8 --> 5
• status: open --> closed-fixed

Original comment by: rlwalls2008

[planteome-user]

At the POC meeting on 8-23-11, we decided to merge all of the gynoecium ridge terms into PO:0025088.

New comment for PO:0025088: Def.: A gynoecium in the early stages of development, characterized as a ridge on the abaxial surface of the floral meristem that develops from a gynoecium primordium. Comment: Common in monocots, including species of Poaceae such as Zea mays. If you are annotating to this structure for Zea mays, please also add an annotation to the corresponding floret type. Choose the most specific term possible from: spikelet floret (PO:0009082), ear floret (PO:0006354), lower floret of pedicellate spikelet of ear (PO:0006353), lower floret of sessile spikelet of ear (PO:0006351), upper floret of pedicellate spikelet of ear (PO:0006350), upper floret of sessile spikelet of ear (PO:0006352). In Zea mays, development of the gynoecium ridge of the upper floret of pedicellate spikelet of ear occurs via continued overgrowth of the shoot apex (which becomes the ovule primordium) by a ring of gynoecial tissue, leading to the formation of a stylar canal that is detected as a slight protuberance on the mature ovary. Early development of the gynoecium ridge of the lower floret of pedicellate spikelet of ear is very similar to that of the upper floret of the pedicellate spikelet of ear, except the development does not proceed beyond the early ridge stage. This term has multiple inheritance because describes an entity at a certain stage in its development.

PO:0009024, PO:0009076, PO:0009079, PO:0009092, PO:0025086, PO:0025087 are now alternate IDs, with corresponding synonyms.

Original comment by: rlwalls2008

[planteome-user]

• priority: 5 --> 8
• status: closed-fixed --> open-later

Original comment by: rlwalls2008

[planteome-user]

• priority: 8 --> 1
• status: open-later --> closed-fixed

Original comment by: rlwalls2008