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| − | ==Continuing User requests: for PSO==
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| − | - Deal with and complete the list of user requests on SourceForge, continued from last week
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| − | ==TraitNet requests==
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| − | [https://sourceforge.net/tracker/?func=detail&aid=3080906&group_id=76834&atid=835555 corm]
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| − | proposed def: A short, enlarged storage stem in which the internodes do not elongate. Comment: usually underground.
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| − | child of stem (PO:0009047).
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| − | [https://sourceforge.net/tracker/?func=detail&aid=3080911&group_id=76834&atid=835555 podarium]
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| − | Their comment: is synonym to Tubercle
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| − | podarium (from Beentje 2010): (in cacti or other succulents) a modified leaf base functioning as the photosynthesising organ.
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| − | tubercle (from Beentje 2010): (in ball- or barrel- shaped cacti), cone-shaped protuberances that are elnarge modified leaf bases fused with adjacent stem tissue (tubercle has two other definitions as well).
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| − | proposed def:
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| − | [https://sourceforge.net/tracker/?func=detail&aid=3080913&group_id=76834&atid=835555 pneumatophore]
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| − | definition from Beentje (2010): erect (breathing) root protruding above the soil, encountered especially in mangroves
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| − | proposed def: A root that is erect and protrudes above the soil, found in trees that live in flooded habitats such as mangroves. Comment: Pneumatophores may provide oxygen to below ground roots growing in flooded soils.
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| − | [https://sourceforge.net/tracker/?func=detail&aid=3080916&group_id=76834&atid=835555 diaspore]
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| − | definition from Beentje (2010): reproductive portion of a plant, such as a seed, fruit or fragment of fruit, that is dispersed and may give rise to a new plant.
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| − | We could add this term as a kind of upper level bin term (similar to trichome)
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| − | [https://sourceforge.net/tracker/?func=detail&aid=3080919&group_id=76834&atid=835555 cone]
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| − | Should probably be a synonym of strobilus (PO:0025083). Narrow or exact?
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| − | [https://sourceforge.net/tracker/?func=detail&aid=3080922&group_id=76834&atid=835555 sorus]
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| − | from Crum (2001): a cluster of fern sporangia
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| − | from Beentje (2010): (of pteridophytes) structure bearing or containing groups of sporangia.
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| − | Proposed definition: A cardinal organ part composed of a cluster of two or more adjacent sporagia on the surface of a leaf. Comment: May be enclosed by an indusium.
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| − | Part_of vascular leaf, has_part sporangium
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| − | [https://sourceforge.net/tracker/?func=detail&aid=3080925&group_id=76834&atid=835555 tendril]
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| − | Defintion from Beentje (2010): a slender, coiling structure derived from a branch, leaf or inflorescence and used for climbing.
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| − | tendrils can derived from multiple types of structures. Suggest we make separate terms:
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| − | branch tendril (child of branch): A branch that is slender and coiling. Comment: Aids plant in climbing.
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| − | leaf tendril (child of leaf): A leaf that is slender and coiling and lacks a lamina. Comment: Aids plant in climbing.
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| − | leaflet tendril (child of leaflet): A leaflet that is slender and coiling. Comment: Aids plant in climbing.
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| − | leaf apex tendril (child of leaf apex): A leaf apex that is slender and coiling. Comment: Aids plant in climbing.
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| − | Can add other types of tendrils if they come up or users need them.
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| − | ===[https://sourceforge.net/tracker/index.php?func=detail&aid=2899934&group_id=76834&atid=835555 root terms]===
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| − | submitted by Rich Zobel (Nov 2009)
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| − | ==User requests still open on Source Forge; PGDSO ==
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| − | ===[http://sourceforge.net/tracker/index.php?func=detail&aid=2812238&group_id=76834&atid=835555 tuber growth and development stages]===
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| − | This item has been open on SF since 6/2009
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| − | I have a bunch of potato genes which are expressed in different tuber developmental stages (e.g. the potato pmt gene is expressed in small sprouts only (http://www.ncbi.nlm.nih.gov/pubmed/16088399).
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| − | Suggested stages:
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| − | -sprout development (does this correspond to tube axillary bud development? Should come after tuber maturation)
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| − | -tuber initiation
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| − | -tuber growth
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| − | -tuber maturation
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| − | How we work these in will depend on restructuring of PGDSO
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| − | l development in legumes (Plant Physiol, March 2003, Vol. 131, pp. 911-926
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| − | ===[https://sourceforge.net/tracker/index.php?func=detail&aid=3035688&group_id=76834&atid=835555 terms for seed development stages]===
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| − | This is a fairly new request for terms for cotton
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| | ==Upcoming meetings 2011:== | | ==Upcoming meetings 2011:== |
POC meeting, Webex Conference Call; Date: Tuesday Mar 1st, 2011 10am (PST)
In attendance:
POC members:
Absent:
Collaborators:
Acceptance of the minutes from the POC_Conf._Call_2-22-11?
Report from the Phenotype Ontology RCN Summit
The Phenotype Ontology RCN
February 25-27, 2010 at the National Evolutionary Synthesis Center in Durham, NC,
Laurel and Pankaj will be attending.
From RW:
-What is official PO strategy for dealing with phenotypes?
-Should it differ between description of mutant phenotypes and descriptions needed for systematic studies?
-Should PO develop a list of terms to be submitted to PATO (rather than our current piecemeal suggestions)?
-Possible case study: description of inflorescence types.
Upcoming meetings 2011:
* ICBO 2011 Second International Conference on Biomedical Ontology
July 26-30, 2011
Buffalo, New York
ICBO
CALL FOR WORKSHOP AND TUTORIAL PROPOSALS:
Melissa, Alan and Chris are organizing an anatomy ontology workshop.
- LC will attend and represent the PO. Invite other plant people?
-BS suggested we might want to submit a short paper which could be published in longer form later- see above
* International Botanical Congress (IBC2011)
July 23rd-30th 2011, Melbourne, Australia
Registration is open Important dates
Symposium proposal was accepted, 'Bio-Ontologies for the Plant Sciences' under the Genetics, Genomics and Bioinformatics theme.
Dennis, Alejandra, Pankaj and Ramona are planning to attend.
Next meeting scheduled for Tues, Mar. 8th, 2011 at 10am PST
See IBC 2011 Bio-Ontologies Symposium wiki page for more details
