Difference between revisions of "POC Conf. Call 6-7-11"

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THIS PART IS STILL UNDER CONSTRUCTION
 
THIS PART IS STILL UNDER CONSTRUCTION
==conductive and related cell types for bryophytes and vascular plants==
 
 
===Current parent: axial cell===
 
 
'''axial cell (PO:0000081):''' A vascular cell derived from the fusiform cambial initial and oriented with its longest diameter parallel with the main axis of stem or root. [source: ISBN:0471245208]
 
 
Comment: These cells make up the axial system, also known as vertical or longitudinal system.
 
 
'''Existing descendents of axial cell:'''
 
 
sieve tube member (PO:0000289, alt: PO:0000286)
 
 
phloem fiber (PO:0004519)
 
 
xylem element (PO:0000273)
 
 
>tracheary element (PO:0000273)
 
 
>>tracheid (PO:0000301)
 
 
>>vessel member (PO:0002003)
 
 
>xylem fiber (PO:0000274)
 
 
>>fiber tracheid (PO:0000355)
 
 
>>libriform fiber (PO:0004520)
 
 
>>septate fiber (PO:0004521)
 
 
 
The term axial cell, and the current definition, describe a particular type of vascular cells found in wood. This is not appropriate as the parent for xylem and phloem cells. Also, the term axial cell is not widely used. "Axial system" is widely used to describe the vascular tissue in wood (in contrast to the radial system).
 
 
Suggest that we obsolete this term, possibly replace with new terms for axial system and radial system
 
 
 
At the bryophyte term meeting on 4-25-2011 (RW and MAG present), we decided that axial cell was not the correct term to use to describe all of the elongated cells associated with conducting tissue in plants. They are different cell types and have different origins, so they should not all be grouped together.
 
 
 
===New proposed hierarchy (children of plant cell):===
 
 
plant cell
 
 
>hydroid
 
 
>leptoid
 
 
>vascular cell (new term)
 
 
>>sieve tube member
 
 
>>tracheary element
 
 
>>>tracheid
 
 
>>>vessel member
 
 
>>phloem fiber cell
 
 
>>xylem fiber cell
 
 
>>other kinds of fiber cells
 
 
>ground tissue cell (PO:0025030)
 
 
>>stereid
 
 
>>collenchyma cell
 
 
>>sclerenchyma cell (PO:0000077)
 
 
>>>fiber cell (new term)
 
 
>>>sclerid (new term)
 
 
 
 
'''Proposed definitions:'''
 
 
'''fiber cell:'''
 
 
'''vascular cell:'''
 
  
 
=Upcoming meetings 2011:=
 
=Upcoming meetings 2011:=

Revision as of 13:21, 3 June 2011

POC meeting, Webex Conference Call; Date: Tuesday June 7th, 2011 10am (PDT)

In attendance:

POC members:

Absent:

Collaborators:


Acceptance of the minutes from the POC_Conf._Call_5-24-11?



Priorities for the Next Round of Revisions

Target date for the next release

Next release should come out in mid-September????


Defining Goals and Priorities for the next round of revisions:

Tech Issues: -Upgrade to new version AmiGO browser


Report from the Phenotype RCN Meeting: June 1-3rd, Boulder CO

PJ, LC and RW will attend

From preliminary agenda:

Overall goals for this plant working group meeting:

Discuss how PO (Plant Ontology) can serve as the reference ontology for all plants and come up with a list of specific changes that will be needed. Explore how links can be made to taxanomic databases like RegNum to define the taxonomic scope of terms. Clarify the role of TO (trait ontology) - should it be used as a set of pre-composed EQ terms for all plant taxa and all areas of plant biology including systematics?

See discussion: POC_Conf._Call_5-24-11#Review_of_leaf_terms_for_Phenotype_RCN_meeting_next_week

Items arising from the reviews:

Conductive cells and tissues for vascular and non-vascular plants

THIS PART IS STILL UNDER CONSTRUCTION

Upcoming meetings 2011:

2011 Semantic Web Workshop June 6th and 7th, Santa Fe, NM.

Hosted by Damian Gessler and the iPlant Collaborative, this two-day workshop will focus on biological applications for semantic web services.

-JE and JP will be attending

-JE has already worked with Damian to implement a SSWAP web service for PO terms, so further collaboration with him and iPlant will benefit the POC going forward.

For more Workshop details: Semantic web.


Botany 2011 Meeting [Botany 2011] St. Louis, MO at the Chase Park Plaza, July 9-13.

Societies participating: Society for Economic Botany, the American Fern Society (AFS), the American Society of Plant Taxonomists (ASPT), and the Botanical Society of America (BSA).

Anybody going??


* ICBO 2011 Second International Conference on Biomedical Ontology July 26-30, 2011 Buffalo, New York

ICBO

LC is co-organizing the workshop "From Fins to Limbs to Leaves: Facilitating anatomy ontology interoperability" along with Melissa Haendel, Chris Mungall, Alan Ruttenberg, David Osumi-Sutherland.

Full-Day Workshops Schedule:

July 26 9am-6pm The Ontological Representation of Adverse Events: Working with Multiple Biomedical Ontologies

July 27 8.30am-4pm Facilitating Anatomy Ontology Interoperability

July 26 6.30pm-9pm Evening Workshop: Common Logic

July 27 4pm-8pm Evening Workshop: Doctoral and Post-Doctoral Consortium

- LC will attend and represent the PO. Invite other plant people?


*Plant Biology 2011, Aug 6-10th, Minneapolis, Minn

Plant Biology 2011


For inclusion on the program memory stick and in the program book, abstracts must be submitted by May 27.

Gramene will be putting together a workshop again, focusing on pathways. LC and PJ will present a PO poster.

TAIR (Kate Dreher) is organizing an Outreach Booth and we are invited to take part.



* International Botanical Congress (IBC2011)

July 23rd-30th 2011, Melbourne, Australia

Registration is open Important dates

Symposium 'Bio-Ontologies for the Plant Sciences' under the Genetics, Genomics and Bioinformatics theme, wiil be held on Thursday, 27 July, from 13:30 to 15:30.

Dennis, Alejandra, Pankaj and Ramona are planning to attend.

See IBC 2011 Bio-Ontologies Symposium wiki page for more details