Difference between revisions of "Details of Changes in PO Release 19"

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Back to [[Release_19]]
 
Back to [[Release_19]]
  
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=Modified or Updated definitions and/or comments: PAE terms=
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=Revised or Updated definitions and/or comments: PAE terms=
  
 
* basal axillary shoot system (PO:0005001)
 
* basal axillary shoot system (PO:0005001)
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* placenta (PO:0025078): made it broader (any interface between a gametophyte and a sporophyte with transfer cells)
 
* placenta (PO:0025078): made it broader (any interface between a gametophyte and a sporophyte with transfer cells)
  
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* second order inflorescence (PO:0025240): fixed def'n: changed 'second order inflorescence branch' to 'second order inflorescence axis', because that is the correct term name. Added PO ids
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* second order inflorescence (PO:0025240): fixed def'n: changed 'second order inflorescence branch' to 'second order inflorescence axis', because that is the correct term name.
  
 
* leaf sinus (PO:0025384): Added comment that it can be rounded or angled.
 
* leaf sinus (PO:0025384): Added comment that it can be rounded or angled.
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- Revised definition: axillary reproductive bud (PO:0025072): An axillary bud (PO:0004709) that develops into an reproductive shoot system (PO:0025082).
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* axillary reproductive bud (PO:0025072):revised def'n An axillary bud (PO:0004709) that develops into an reproductive shoot system (PO:0025082).
  
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-axillary shoot system (PO:0006343):revised def'n: A shoot-borne shoot system (PO:0004545) that develops from an axillary bud (PO:0004709). Added relation: axillary shoot system develops_from axillary bud
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* axillary shoot system (PO:0006343): revised def'n: A shoot-borne shoot system (PO:0004545) that develops from an axillary bud (PO:0004709). Added relation: axillary shoot system develops_from axillary bud
  
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- Updated the name and def'n of shoot meristem (PO:0006079):
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* shoot system meristem (PO:0006079): revised def'n: A portion of meristem tissue (PO:0009013) that is part of a shoot system (PO:0009006).
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changed to 'shoot system meristem' (PO:0006079):
 
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existing definition: A meristem that is part of a shoot system.
 
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Revised def'n: A portion of meristem tissue (PO:0009013) that is part of a shoot system (PO:0009006).
 
  
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* axillary bud meristem (PO:0000232): revised def'n: A shoot meristem (PO:0006079) formed in an axil (PO:0025224).
  
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- axillary bud meristem (PO:0000232): A shoot meristem formed in the axil of
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* shoot apical meristem (PO:0020148):revised def'n: A shoot meristem (PO:0006079) formed at the apex of the shoot axis (PO:0025029), including those originating from an axillary bud meristem (PO:0000232).
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the leaf.
 
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Revised def'n: A shoot meristem (PO:0006079) formed in an axil (PO:0025224).
 
  
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PO:0020148 shoot apical meristem
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==New or modified relations, PAE==
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<oldDef>A shoot meristem formed in the apex of the shoot, including meristems originating as axillary shoot meristems
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see also the notes above
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<newDef>A shoot meristem (PO:0006079) formed at the apex of the shoot axis (PO:0025029), including those originating from an axillary bud meristem (PO:0000232).
 
  
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==New or modified relations, PAE==
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* leaf develops_from vascular leaf primordium > vascular leaf develops_from vascular leaf primordium
  
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===Removed:===
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* archegonium egg cell part_of archegonium > archegonium egg cell located_in archegonium
  
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* peduncle part_of inflorescence (incorrect relation, does not work for cases of single flowers)
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* petiole lamina (PO:0025129)is_a leaf lamina > petiole lamina is_a lamina
  
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===Changed===
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* lamina (PO:0025060) is_a cardinal organ part > lamina is_a cardinal part of multi-tissue plant structure, (to allow for lamina on seeds and fruits)
  
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* 'leaf develops_from vascular leaf primordium' to 'vascular leaf develops_from vascular leaf primordium
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* tuber cortex (PO:0025055) is_a shoot axis cortex > tuber cortex is_a cortex
  
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* "archegonium egg cell part_of archegonium" to  "archegonium egg cell located_in archegonium"
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* tuber pith (PO:0025052) is_a shoot axis pith > tuber pith is_a pith
  
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* petiole lamina (PO:0025129) moved to is_a lamina, instead of is_a leaf lamina.
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* tuber storage parenchyma (PO:0025036) part_of shoot axis tuber > tuber storage parenchyma part_of tuber (PO:0025522).
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* lamina (PO:0025060) Moved from is_a cardinal organ part to is_a cardinal part of multi-tissue plant structure, (to allow for lamina on seeds and fruits)
 
  
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* tuber cortex (PO:0025055): moved to is a cortex, rather than a shoot axis cortex.
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Added comment: If you are annotating to this term, please add an additional annotation to either shoot axis tuber (PO:0004543) or tuberous root tuber (PO:0025476).
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A portion of cortex (PO:0005708) that is part of a tuber storage parenchyma (PO:0025036).
 
  
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* tuber pith PO:0025052: Moved to is a pith, rather than a shoot axis pith. Def'n did not need to be changed.
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* Removed peduncle part_of inflorescence (incorrect relation, does not work for cases of single flowers)
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A portion of pith (PO:0006109) that is part of a tuber storage parenchyma (PO:0025036).
 
  
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* tuber storage parenchyma moved to part_of a tuber (PO:0025522), added comment: 3005637
 
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If you are annotating to this term, please add an additional annotation to either shoot axis tuber (PO:0004543) or tuberous root tuber (PO:0025476).
 
  
 
===Added:===
 
===Added:===

Revision as of 15:19, 4 January 2013

See also New_terms_and_obsolete_terms_Release_19

Back to Release_19

Revised or Updated definitions and/or comments: PAE terms

  • basal axillary shoot system (PO:0005001)
  • embryo sac egg cell (PO:0025123)
  • embryo sac (PO:0025074)
  • embryo sac central cell (PO:0020090)
  • laticifer cell (PO:0025031)
  • articulated laticifer cell (PO:0006221)
  • non-articulated laticifer cell (PO:0006222)
  • articulated laticifer (PO:0005008)
  • gametophyte development stage (PO:0028003): removed the phrase "or fertilization" from the definition, added PO ids. Added new sentence to comment.
  • placenta (PO:0025078): made it broader (any interface between a gametophyte and a sporophyte with transfer cells)
  • second order inflorescence (PO:0025240): fixed def'n: changed 'second order inflorescence branch' to 'second order inflorescence axis', because that is the correct term name.
  • leaf sinus (PO:0025384): Added comment that it can be rounded or angled.
  • pericarp and child terms exocarp, mesocarp, endocarp- Updated definitions:
    • pericarp (PO:0009084): A portion of plant tissue (PO:0009007) that is the outer layer (wall) of a fruit (PO:0009001), and develops from a plant ovary (PO:0009072) or a carpel (PO:0009030) wall.Added comment: May be fleshy in fruits such as grape.
    • exocarp (PO:0009085): A portion of plant tissue (PO:0009007) that is the outer layer of a pericarp (PO:0009084). Added fruit epidermis as a synonym.
    • mesocarp (PO:0009087): A portion of plant tissue (PO:0009007) that is the middle layer of a pericarp (PO:0009084).
    • endocarp (PO:0009086): A portion of plant tissue (PO:0009007) that is the innermost differentiated layer of a pericarp (PO:0009084).
  • antheridiophore (PO:0030033): revised def'n: A stalk (PO:0025066) that supports an antheridium head (PO:0030075). Added relation has_part antheridium head (PO:0030075)
  • archegoniophore (PO:0030034): revised def'n: A stalk (PO:0025066) that supports an archegonium head (PO:0030034). Added relation has_part archegonium head (PO:0030034)


  • axillary reproductive bud (PO:0025072):revised def'n An axillary bud (PO:0004709) that develops into an reproductive shoot system (PO:0025082).
  • axillary shoot system (PO:0006343): revised def'n: A shoot-borne shoot system (PO:0004545) that develops from an axillary bud (PO:0004709). Added relation: axillary shoot system develops_from axillary bud
  • shoot system meristem (PO:0006079): revised def'n: A portion of meristem tissue (PO:0009013) that is part of a shoot system (PO:0009006).
  • axillary bud meristem (PO:0000232): revised def'n: A shoot meristem (PO:0006079) formed in an axil (PO:0025224).
  • shoot apical meristem (PO:0020148):revised def'n: A shoot meristem (PO:0006079) formed at the apex of the shoot axis (PO:0025029), including those originating from an axillary bud meristem (PO:0000232).

New or modified relations, PAE

see also the notes above

  • leaf develops_from vascular leaf primordium > vascular leaf develops_from vascular leaf primordium
  • archegonium egg cell part_of archegonium > archegonium egg cell located_in archegonium
  • petiole lamina (PO:0025129)is_a leaf lamina > petiole lamina is_a lamina
  • lamina (PO:0025060) is_a cardinal organ part > lamina is_a cardinal part of multi-tissue plant structure, (to allow for lamina on seeds and fruits)
  • tuber cortex (PO:0025055) is_a shoot axis cortex > tuber cortex is_a cortex
  • tuber pith (PO:0025052) is_a shoot axis pith > tuber pith is_a pith
  • tuber storage parenchyma (PO:0025036) part_of shoot axis tuber > tuber storage parenchyma part_of tuber (PO:0025522).

Added comment: If you are annotating to this term, please add an additional annotation to either shoot axis tuber (PO:0004543) or tuberous root tuber (PO:0025476).

  • Removed peduncle part_of inflorescence (incorrect relation, does not work for cases of single flowers)


Added:

  • cardinal organ part (is_a cardinal part of MTPS and part_of plant organ); added cross product to definition
  • organ margin (PO:0025005) part_of organ lamina
  • phyllome margin (PO:0025018) part_of phyllome lamina (latter as XP).
  • laticiferous cell (PO:0004005, obsolete) replaced_by laticifer cell (PO:0025031)

Updated definitions and/or comments: PSDS terms

  • flower development stage (PO:0007615)
  • fruit development stage (PO:0001002)-
  • collective plant organ structure development stage (PO:0025338)- modified definition and comment to include PO:ids.
  • whole plant fruit formation stage (PO:0007042)
  • whole plant fruit ripening stage (PO:0007010)
  • whole plant flowering stage (PO:0007016)


New or modified relations, PSDS

  • Made fruit development stage is_a plant structure development stage (instead of collective plant organ structure development stage)

Added relation collective plant organ structure development stage has_participant collective plant organ structure, using intersection_of tags.

Made whole plant fruit formation stage (PO:0007042) and whole plant fruit ripening stage (PO:0007010) subclasses of whole plant fruit development stage and updated their definitions.

Updated names and definitions of:

  • (PO:0007032) whole plant fruit formation stage up to 10%
  • (PO:0007009) whole plant fruit formation stage 10 to 30%
  • (PO:0007029) whole plant fruit formation stage 30 to 50%
  • (PO:0007007) whole plant fruit formation stage 50 to 70%
  • (PO:0007027) whole plant fruit formation stage 70% to final size
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