Difference between revisions of "Summary of Changes to PO October 2011"
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Anther and anther theca are both collective plant structures (see [http://sourceforge.net/tracker/index.php?func=detail&aid=3195060&group_id=76834&atid=835555 SF tracker for anther theca]), but their definitions were not updated. Fixed them. Added comment to anther. | Anther and anther theca are both collective plant structures (see [http://sourceforge.net/tracker/index.php?func=detail&aid=3195060&group_id=76834&atid=835555 SF tracker for anther theca]), but their definitions were not updated. Fixed them. Added comment to anther. | ||
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| + | Added comments to juvenile, transition and adult leaf, to give more details of these types of leaves. | ||
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| + | Added subset for plant cells for the Cell Ontology (CL). Includes plant cell () and all subtypes (is_a descendants). | ||
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| + | Added Spanish synonyms for most of the PAO terms. | ||
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| + | Renamed PO:0020136 from Zea ear to ear inflorescence. | ||
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| + | Renamed PO:0020126 from tassel to tassel inflorescence. | ||
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| + | Made floret part_of spikelet (instead of Poaceae floret part_of spikelet). Ref. for cyperaceae having florets in spikelets: PMID:20197291 (Vrijdahgs et al. 2010) For spikelet in Cyperaceae (but uses flower instead of floret): PMID:12234148 (Richards 2002) | ||
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| + | Renamed "spikelet" (PO:0009082) to "spikelet floret" and added "ray flower", "disk flower", and "floret" as narrow synonyms of flower. | ||
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| + | Changed lateral root primordium from derives_from pericycle to develops_from pericycle. Now derives_from is only used between an ''in vitro'' and an ''in vivo'' plant strucure. | ||
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| + | Made lemma and palea part of spikelet instead of part of spikelet floret (b/c a bract is defined as not being part of a flower, but subtending it). Added to comments of lemma, palea, and glume. Updated definitions of glume, glume of tassel spikelet, glume of ear spikelet. | ||
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| + | Removed all xrefs to obsolete CL terms (47 refs for 45 PO terms), plus xref to CL plant cell | ||
| + | Added xref for PO: meristematic cell to CL:0000034 stem cell. | ||
| + | Add header: treat-xrefs-as-genus-differntia: CL part_of NCBITaxon:3193 (Embryophyta) | ||
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| + | New name and definition for 3 inflorescence visible | ||
| + | New definition and comment for IL.00 inflorescence just visible. Also reworded definitions of siblings. Also added them to the subset for maize. | ||
| + | merged Poaceae inflorescence visible (PO:0007012) into 3 inflorescence detectable phase (PO:0007047) | ||
| + | Made booting (PO:0007014) a subtype of IL.00 inflorescence just visible phase (PO:0007006) | ||
| + | new name and definition for PO:0007041 (inflorescence emergence phase, was inflorescence emergence phase from flag leaf sheath) | ||
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| + | Added stolon (PO:0003024) and subterranean tuber cortex (PO:0025057) to | ||
| + | potato subset | ||
=Merging terms to get rid of Zea/Poaceae terms= | =Merging terms to get rid of Zea/Poaceae terms= | ||
Revision as of 12:23, 8 September 2011
general
Added new term flower fascicle (PO:0025323)
Made embryo apical cell (PO:0025284) is_a sporophyte m.a.c., rather than is_a m.a.c., to fix redundancy.
Added OBSOLETE as prefix to the definitions of all recently obsoleted terms.
Anther and anther theca are both collective plant structures (see SF tracker for anther theca), but their definitions were not updated. Fixed them. Added comment to anther.
Added comments to juvenile, transition and adult leaf, to give more details of these types of leaves.
Added subset for plant cells for the Cell Ontology (CL). Includes plant cell () and all subtypes (is_a descendants).
Added Spanish synonyms for most of the PAO terms.
Renamed PO:0020136 from Zea ear to ear inflorescence.
Renamed PO:0020126 from tassel to tassel inflorescence.
Made floret part_of spikelet (instead of Poaceae floret part_of spikelet). Ref. for cyperaceae having florets in spikelets: PMID:20197291 (Vrijdahgs et al. 2010) For spikelet in Cyperaceae (but uses flower instead of floret): PMID:12234148 (Richards 2002)
Renamed "spikelet" (PO:0009082) to "spikelet floret" and added "ray flower", "disk flower", and "floret" as narrow synonyms of flower.
Changed lateral root primordium from derives_from pericycle to develops_from pericycle. Now derives_from is only used between an in vitro and an in vivo plant strucure.
Made lemma and palea part of spikelet instead of part of spikelet floret (b/c a bract is defined as not being part of a flower, but subtending it). Added to comments of lemma, palea, and glume. Updated definitions of glume, glume of tassel spikelet, glume of ear spikelet.
Removed all xrefs to obsolete CL terms (47 refs for 45 PO terms), plus xref to CL plant cell Added xref for PO: meristematic cell to CL:0000034 stem cell. Add header: treat-xrefs-as-genus-differntia: CL part_of NCBITaxon:3193 (Embryophyta)
New name and definition for 3 inflorescence visible New definition and comment for IL.00 inflorescence just visible. Also reworded definitions of siblings. Also added them to the subset for maize. merged Poaceae inflorescence visible (PO:0007012) into 3 inflorescence detectable phase (PO:0007047) Made booting (PO:0007014) a subtype of IL.00 inflorescence just visible phase (PO:0007006) new name and definition for PO:0007041 (inflorescence emergence phase, was inflorescence emergence phase from flag leaf sheath)
Added stolon (PO:0003024) and subterranean tuber cortex (PO:0025057) to potato subset
Merging terms to get rid of Zea/Poaceae terms
Existing PO structure for Poaceae anther is below. All of these terms had to be merged, in order to merge zea anther into anther.
Back to Upcoming_2011_Release_Page
made the following merges:
First, got rid of part_of relations. After merging, changed Zea and Poaceae terms to narrow (rather than exact) synonyms. Also, merging gets rid of the "Type: Spanish synonym" tag. Got rid of the extra Spanish synonyms.
PO:0006481 Zea endothecium > PO:0006446 Poaceae endothecium > PO:0020002 anther wall endothecium
PO:0006482 Zea exothecium > PO:0006447 Poaceae exothecium > PO:0020004 anther wall exothecium
PO:0006475 Zea connective > PO:0006443 Poaceae connective > PO:0009068 connective
PO:0006483 Zea placentoid > PO:0006448 Poaceae placentoid > PO:0020005 placentoid
PO:0006485 Zea stomium > PO:0006449 Poaceae stomium > PO:0020101 stomium
PO:0006484 Zea tapetum > PO:0006450 Poaceae tapetum > PO:0009071 anther wall tapetum
PO:0006478 Zea theca > PO:0006453 Poaceae theca > PO:0009069 anther theca
PO:0006477 Zea anther wall > PO:0006445 Poaceae anther wall > PO:0000002 anther wall
PO:0006480 Zea microspore > PO:0006452 Poaceae microspore > PO:0020048 microspore
PO:0006479 Zea microsporocyte > PO:0006451 Poaceae microsporocyte > PO:0020047 microsporocyte
PO:0006476 Zea microsporangium > PO:0006444 Poaceae microsporangium > PO:0025277 pollen sac
and finally
PO:0006473 Zea anther > PO:0006442 Poaceae anther > PO:0009066 anther
PO:0006337 inflorescence bract of ear > PO:0009054 inflorescence bract (added comment to inflorescence bract: Includes the leaf subtending and acting as outer envelope of an ear in Zea mays.)
PO:0006488 silk > PO:0006469 Poaceae style > PO:0009074 style
PO:0006498 Poaceae style epidermis > PO:0006062 style epidermis
PO:0006499 Poaceae transmitting tissue > PO:0020102 portion of transmitting tissue
