POC Conf. Call 4-16-13 - Revision history

Cooperl: /* branch */

2013-06-18T01:41:13Z

branch

Cooperl: /* accessory branch or accessaory paraclade */

2013-06-18T01:31:40Z

accessory branch or accessaory paraclade

Cooperl: /* trichome tip */

2013-05-24T17:27:58Z

trichome tip

Cooperl: /* trichome tip */

2013-05-24T17:27:30Z

trichome tip

Cooperl: /* trichome tip */

2013-05-24T17:26:12Z

trichome tip

Cooperl: /* trichome tip */

2013-05-24T17:25:02Z

trichome tip

Cooperl: /* trichome tip */

2013-05-24T17:22:57Z

trichome tip

Cooperl: /* trichome tip */

2013-05-24T17:22:23Z

trichome tip

Cooperl: /* trichome tip */

2013-05-24T17:21:10Z

trichome tip

Cooperl: /* Other Items */

2013-04-20T17:06:50Z

Other Items

← Older revision		Revision as of 01:41, 18 June 2013
Line 61:		Line 61:
	revised comment: In vascular plants, branches arise from an axillary bud meristem (PO:0000232) and from divisions of the meristematic apical cell (PO:0030007) in non-vascular plants.		revised comment: In vascular plants, branches arise from an axillary bud meristem (PO:0000232) and from divisions of the meristematic apical cell (PO:0030007) in non-vascular plants.

		+
		+	==Changes that were made to the [https://sourceforge.net/tracker/?func=detail&atid=835555&aid=3150504&group_id=76834 inflorescence branch] terms==
		+
		+	[[File:Inflorescence branches.jpg]]
		+
		+	'''* primary inflorescence branch (PO:0006321):''' An inflorescence branch (PO:0009081) arising from a first order inflorescence axis (PO:0025104).
		+	was 'second order inflorescence axis' - swapped name and exact synonym and removed the related synonym: second order inflorescence branch as it was inconsistent.
		+
		+	'''* second order inflorescence branch (PO:0006322)'''- An inflorescence branch (PO:0009081) arising from a primary inflorescence branch (PO:0006321). (was third order inflorescence axis).
		+	Added exact synonyms: second order paraclade, secondary inflorescence branch, third order inflorescence axis, Removed the related synonym: second order inflorescence branch as it was inconsistent.
		+
		+	'''* third order inflorescence branch (PO:0025105):''' An inflorescence branch (PO:0009081) arising from a secondary inflorescence branch (PO:0006322). (was fourth order third order inflorescence axis (PO:0025105).
		+
		+	Added exact synonyms: third order paraclade, third order inflorescence branch, fourth order inflorescence axis, tertiary inflorescence branch
		+
		+	Please see https://sourceforge.net/tracker/index.php?func=detail&aid=3609161&group_id=76834&atid=835555
		+	for details about the paraclade terms
		+
		+	see this paper for additional information http://aob.oxfordjournals.org/content/early/2011/03/01/aob.mcr039.full

	==[https://sourceforge.net/tracker/?func=detail&aid=3610120&group_id=76834&atid=835555 trichome tip]==		==[https://sourceforge.net/tracker/?func=detail&aid=3610120&group_id=76834&atid=835555 trichome tip]==

← Older revision		Revision as of 01:31, 18 June 2013
Line 37:		Line 37:

	http://aob.oxfordjournals.org/content/early/2011/03/01/aob.mcr039.full		http://aob.oxfordjournals.org/content/early/2011/03/01/aob.mcr039.full
		+
		+
		+	==[https://sourceforge.net/tracker/?func=detail&aid=3609161&group_id=76834&atid=835555 accessary paraclade] etc==
		+	Request from JL for the Plant Phenotype project for the term 'accessory branch' or accessory paraclade:
		+
		+	Suggested term and def'n: accessory branch (new PO:ID): A shoot axis (PO:00025029) that develops from a shoot node (PO:0005004) that has produced at least one axillary branch (PO:0006343)
		+
		+	Literature citation: The term 'accessory branch' is used in the description of the different types of phytomers (pg. 2724, top of left column):
		+
		+	"...In both of these phytomer types, a second branch (accessory branch) may later develop '''between the axillary branch and its subtending leaf''' (Fig. 1A)." [http://dev.biologists.org/content/121/9/2723.long Talbert et al, 1995]
		+
		+	This figure is actually referring to an accessory paraclade, not simply an accessory branch.
		+
		+	We had an extensive discussion last week, so to help clarify things I took the figure from last week and labelled it with the new terms
		+
		+	Annotated figure:
		+
		+	[[File:Talbert-paraclade terms.jpg]]

	== [https://sourceforge.net/tracker/index.php?func=detail&aid=3028442&group_id=76834&atid=835555 branch]==		== [https://sourceforge.net/tracker/index.php?func=detail&aid=3028442&group_id=76834&atid=835555 branch]==

@@ Line 79: / Line 79: @@
 [[File:Screen Shot 2013-05-24 at 10.15.07 AM.png]]
-''Done, This results in adding two new terms as direct children of plant structure; plus muticellular trichome (is_a portion of plant tissue) and unicellular trichome has dual parentage. Not ideal. see tracker for details''
+''Done, This results in adding two new terms as direct children of plant structure; plus muticellular trichome (is_a portion of plant tissue) and unicellular trichome have dual parentage. Not ideal. see tracker for details''
 =Upcoming meetings and Presentations 2013:=

@@ Line 79: / Line 79: @@
 [[File:Screen Shot 2013-05-24 at 10.15.07 AM.png]]
-''Done, This results in adding two new terms as direct children of plant structure; plus muticellular trichome and unicellular trichome has dual parentage. Not ideal. see tracker for details''
+''Done, This results in adding two new terms as direct children of plant structure; plus muticellular trichome (is_a portion of plant tissue) and unicellular trichome has dual parentage. Not ideal. see tracker for details''
 =Upcoming meetings and Presentations 2013:=

@@ Line 79: / Line 79: @@
 [[File:Screen Shot 2013-05-24 at 10.15.07 AM.png]]
-''Done, This results in adding two new terms as direct children of plant structure and unicellular trichome has dual parentage. Not ideal. see tracker for details''
+''Done, This results in adding two new terms as direct children of plant structure; plus muticellular trichome and unicellular trichome has dual parentage. Not ideal. see tracker for details''
 =Upcoming meetings and Presentations 2013:=

← Older revision		Revision as of 17:22, 24 May 2013
Line 77:		Line 77:
	See the [https://sourceforge.net/p/geneontology/ontology-requests/10138/ GO tracker] for these terms.		See the [https://sourceforge.net/p/geneontology/ontology-requests/10138/ GO tracker] for these terms.

		+	[[File:Screen Shot 2013-05-24 at 10.15.07 AM.png]]

	''Done, This results in adding two new terms as direct children of plant structure; ''		''Done, This results in adding two new terms as direct children of plant structure; ''

← Older revision		Revision as of 17:21, 24 May 2013
Line 58:		Line 58:

	''Decided to make new term: unicellular trichome, rather than having it a synonym of trichome cell. The we will make general terms trichome tip and trichome apex to be the parents of the parts of the multicellular trichome. Will request the parts of the unicellular trichome from GO.''		''Decided to make new term: unicellular trichome, rather than having it a synonym of trichome cell. The we will make general terms trichome tip and trichome apex to be the parents of the parts of the multicellular trichome. Will request the parts of the unicellular trichome from GO.''
		+
		+	Made new term:
		+	* trichome apex (new PO:0025550): A plant structure (PO:0009011) that is the apical most portion of a trichome (PO:0000282).
		+	comment: An apex of a unicellular trichome is a GO sub-cellular component GO:xxxxxxx. Will be requested from GO. Added dbxref to OBO_SF_PO:3610120 is_a plant structure, part_of trichome
		+	* multicellular trichome apex (new PO:0025551): A portion of plant tissue (PO:0009007) that is the apical most portion of a multicellular trichome (PO:0025162). added exact synonym: apex of a multicellular trichome; Added dbxref to OBO_SF_PO:3610120
		+	is_a trichome apex, part_of multicellular trichome (PO:0025551)
		+
		+	* trichome tip (new PO:0025549): A plant structure (PO:0009011) that is the apical most portion of trichome apex (PO:0025550).
		+	is_a plant structure, part of trichome apex. Comment: A tip of a unicellular trichome is a GO cellular component GO:xxxxxxx. Will be requested from GO. Added dbxref to OBO_SF_PO:3610120, added exact synonym: tip of a multicellular trichome
		+
		+	* Made multicellular trichome tip (PO:0025535) is_a trichome tip and is_a A portion of plant tissue (PO:0009007). part_of multicellular trichome (PO:0025551), Added dbxref to OBO_SF_PO:3610120
		+
		+	'''New GO terms:'''
		+	* unicellular trichome apex GO:0090552: "A cell projection part that is the apical most portion of a unicellular trichome." [GOC:PO_curators, PO:0025537]; is_a: GO:0044463 ! cell projection part
		+
		+	* unicellular trichome tip GO:0090553: "A cell projection part that is the apical most portion of a unicellular trichome apex." [GOC:PO_curators]; relationship: part_of GO:0090552 ! unicellular trichome apex
		+
		+	See the [https://sourceforge.net/p/geneontology/ontology-requests/10138/ GO tracker] for these terms.
		+
		+
		+	''Done, This results in adding two new terms as direct children of plant structure; ''
		+	please see tracker for details''

	=Upcoming meetings and Presentations 2013:=		=Upcoming meetings and Presentations 2013:=

← Older revision		Revision as of 17:06, 20 April 2013
Line 58:		Line 58:

	''Decided to make new term: unicellular trichome, rather than having it a synonym of trichome cell. The we will make general terms trichome tip and trichome apex to be the parents of the parts of the multicellular trichome. Will request the parts of the unicellular trichome from GO.''		''Decided to make new term: unicellular trichome, rather than having it a synonym of trichome cell. The we will make general terms trichome tip and trichome apex to be the parents of the parts of the multicellular trichome. Will request the parts of the unicellular trichome from GO.''
−
−	~~=Other Items=~~
−	Chelsea Specht (http://spechtlab.berkeley.edu/) will be visiting OSU to give the Templeton Lecture. Her talk is entitled Petaloidy, polarity, and pollination: the evolution and diversification of floral form in the Zingiberales.
−
−	~~She will be on campus all day Thursday(4/25) and Friday morning (4/26). Should we plan to meet with her?~~
−

	=Upcoming meetings and Presentations 2013:=		=Upcoming meetings and Presentations 2013:=