Details of Changes in PO Release 19

See also New_terms_and_obsolete_terms_Release_19

Back to Release_19

Revised or Updated definitions and/or comments: PAE terms

Children of shoot axis tuber:(PO:0004543)

• shoot axis tuber (PO:0004543): A tuber (PO:0025522) that develops from a branch (PO:0025073).
  • shoot axis tuber axillary bud meristem (PO:0025068): An axillary bud meristem (PO:0000232) that is part of a shoot axis tuber (PO:0004543).
  • shoot axis tuber axillary vegetative bud: An axillary vegetative bud (PO:0004712) that is part of a shoot axis tuber (PO:0004543).
  • shoot axis tuber epidermis (PO:0025046): A portion of shoot axis epidermis (PO:0000112) that is part of a shoot axis tuber (PO:0004543).
  • shoot axis tuber periderm: A portion of shoot axis periderm (PO:0005048) that is part of a shoot axis tuber (PO:0004543).
  • aerial tuber (PO:0004548): A shoot axis tuber (PO:0004543) that develops above ground.
  • subterranean tuber (PO:0004547): A shoot axis tuber (PO:0004543) that develops below ground.

Children of multicellular plant gametangium (PO:0025124)

• multicellular plant gametangium (PO:0025124): A plant organ (PO:0009008) that produces one or more gametes (PO:0025006) and is part of a whole plant (PO:0000003) in the gametophyte development stage (PO:0028003).

• archegonium (PO:0025126): A multicellular plant gametangium (PO:0025124) that develops from an archegonium initial cell (PO:0025510) and has as parts a venter (PO:0030038) and an archegonium neck (PO:0030039).
  • archegonium initial cell (PO:0025510): An initial cell (PO:0004011) that divides asymmetrically to form an archegonium central cell (PO:0025509) and a smaller archegonium neck canal cell (PO:0030035).
  • venter (PO:0030038): A cardinal organ part (PO:0025001) that is the enlarged basal part of an archegonium (PO:0025126) and has an archegonium egg cell (PO:0025122) located in it.
  • archegonium neck (PO:0030039): A cardinal organ part (PO:0025001) that is the elongated, apical part of an archegonium (PO:0025126).
  • archegonium neck canal (PO:0030066): A canal (PO:0025132) in the center of an archegonium neck (PO:0030039). Comment: Forms after the archegonium neck canal cells disintegrate.
  • archegonium neck canal cell (PO:0030065): A plant cell that is one of the axial row of cells in an immature archegonium neck. Comment: As the archegonium matures, the archegonium neck canal cells disintegrate to form the archegonium neck canal.
  • archegoniophore (PO:0030034): revised def'n: A stalk (PO:0025066) that supports an archegonium head (PO:0030034).
  • archegonium central cell (PO:0025509): A plant cell (PO:0009002) that is the larger, distal cell arising from the first division of an archegonial initial cell (PO:0025510)

• antheridium (PO:0025125): A multicellular plant gametangium (PO:0025124) that produces antheridium sperm cells (PO:0025120) and has as parts an antheridium jacket layer (PO:0030053) and an antheridium stalk (PO:0030035). Revised comment: An antheridium has a sterile jacket layer (PO:0030052). In both gymnosperms and angiosperms, the antheridium (PO:0025125) is replaced by pollen (PO:0025281).
  • antheridium sperm cell (PO:0025120): A plant sperm cell (PO:0000084) that develops from a spermatogenous cell (PO:0025525) and is located in an antheridium (PO:0025125). Revised comment: Antheridium sperm cells are motile.
  • 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)

• • spore capsule calyptra (PO:0030037): A cardinal organ part (PO:0025001) that develops from an archegonium venter (PO:0030038) and is a cap or hood enclosing the sporangium (syn: spore capsule; PO:0025094).comment: Found in bryophytes. The spore capsule calyptra is a membranous or hairy cap or hood, composed of gametophytic tissue (venter; PO:0030038) that protects the embryonic sporophyte within the archegonium (PO:0025126). In some species, it may persist after the sporophyte develops and gets carried upward as the seta (PO:0030032) elongates. The spore capsule calyptra is usually lost before the spores are released, and its shape can be used for identification purposes.

• seta: A stalk (PO:0025066)that supports a spore capsule, the sporangium (PO:0025094).

Other PAE terms

• axillary shoot system (PO:0006343): A shoot-borne shoot system (PO:0004545) that develops_from an axillary bud (PO:0004709). (was develops_from a vegetative axillary bud).

• axillary reproductive bud (PO:0025072): An axillary bud (PO:0004709) that develops into an reproductive shoot system (PO:0025082).
• basal axillary shoot system (PO:0005001):An axillary shoot system (PO:0006343) that develops from an axillary vegetative bud (PO:0004712) that is part of a stem base (PO:0008039). (Needs further revision - Items_for_future_meetings page.
• axillary bud meristem (PO:0000232): A shoot meristem (PO:0006079) formed in an axil (PO:0025224)
• shoot system meristem (PO:0006079): A portion of meristem tissue (PO:0009013) that is part of a shoot system (PO:0009006).
• shoot apical meristem (PO:0020148): 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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• embryo sac egg cell (PO:0025123): A plant egg cell (PO:0020094) that is part of an egg apparatus (PO:0020096). Comment: The egg apparatus is part of an embryo sac (PO:0025074).

• embryo sac (PO:0025074): A megagametophyte (PO:0025279) that is located in a plant ovary ovule (PO:0025490). Comment: Produces an embryo sac egg cell (PO:0025123).

• embryo sac central cell (PO:0020090): An embryo sac cell (PO:0025026) that is largest cell in a mature embryo sac (PO:0025074).

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• laticifer cell (PO:0025031): A ground tissue cell (PO:0025030) that contains latex. Comment: May be simple or branched.

• articulated laticifer cell (PO:0006221): A laticifer cell (PO:0025031) that is joined longitudinally to other articulated laticifer cells to form a tube.

• non-articulated laticifer cell (PO:0006222): A laticifer cell (PO:0025031) that is not joined longitudinally to other laticifer cells to form a tube.

• articulated laticifer (PO:0005008): A portion of secretory tissue (PO:0005656) that has as parts articulated laticifer cells (PO:0006221).

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• 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).

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• 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.

• tubercle (PO:0025352): An enlarged leaf base (PO:0020040) that is fused with adjacent shoot axis (PO:0025029) tissue. Modified comment: "In species with tubercles, the areole bud (PO:0025353) is often found at the distal end of the tubercle. The areole bud originates in the leaf axil (PO:0009023) of the leaf that becomes the tubercle, but is displaced to the tip through elongation of the tubercle."

• microgametophyte (PO:0025280): A whole plant (PO:0000003) in the gametophyte development stage (PO:0028003) that produces only plant sperm cells (PO:0000084).

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 (PO:0025122) part_of archegonium > archegonium egg cell located_in archegonium >archegonium egg cell located_in venter
• 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)

• antheridium sperm cell (PO:0025120) part_of antheridium > antheridium sperm cell (PO:0025120) located_in antheridium

• shoot axis tuber: (PO:0004543) is_a tuber (PO:0025522)

• axillary shoot system (PO:0006343) develops_from axillary bud
• 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)
• stele (PO:0025197) part_of plant axis (PO:0025004)
• tuberous root tuber (PO:0025476) develops_from tuberous root (PO:0025523)
• archegonium (PO:0025126) develops_from archegonium initial cell (PO:0025510)
• ventral canal cell (PO:0025524) part_of the venter (PO:0030038)
• ventral canal cell (PO:0025524) develops_from archegonium central cell (PO:0025509)
• archegonium initial cell (PO:0025510) part_of archegonium megagametophyte (PO:0025282)
• archegonium central cell (PO:0025509) develops_from archegonium initial cell (PO:0025510)
• archegonium neck canal cell (PO:0030035) develops_from archegonium initial cell (PO:0025510)

Updated definitions and/or comments: PSDS terms

• gametophyte development stage (PO:0028003): removed the phrase "or fertilization" from the definition, added PO ids. Added new sentence to comment.

• 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)

• K second mitotic division stage (PO:0001015)

• (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

New or modified relations, PSDS

• fruit development stage is_a collective plant organ structure development stage > fruit development stage is_a plant structure development stage

• 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.

Added PO IDs to the definitions of the following terms:

• megagametophyte (PO:0025279)
• antheridium jacket layer (PO:0030053)
• antheridium stalk (PO:0030035)
• antheridium sperm cell (PO:0025120)
• antheridium head (PO:0030075)
• antheridiophore (PO:0030033)
• archegonium initial cell (PO:0025510)
• archegonium neck (PO:0030039)
• archegonium neck canal (PO:0030066)
• venter PO:0030038
• shoot sytem PO:0009006
• axillary bud PO:0004709
• antheridium jacket layer cell PO:0030052
• anther PO:0009066
• anther theca PO:0009069
• root system PO:0025025
• collective phyllome structure PO:0025023
• root system PO:0025025
• sorus PO:0025359
• leaf PO:0025034
• vascular leaf PO:0009025
• collective plant organ structure PO:0025007
• children of plant organ:PO:0009008
• floral organ PO:0025395
• subterranean tuber storage parenchyma PO:0025038
• tuber storage parenchyma (PO:0025035)
• ground tissue (PO:0025059)
• parenchyma (PO:0005421)
• portion of ground tissue (PO:0025059)
• shoot axis cortex (PO:0000223)
• aerial tuber storage parenchyma PO:0025039
• pith (PO:0006109)
• tuber pith PO:0025052
• aerial tuber pith (PO:0025054)
• subterranean tuber pith PO:0025053
• perimedullary zone (PO:0025058)
• shoot axis pith PO:0005041
• root pith PO:0005040
• shoot axis perimedullary zonePO:0025064
• leaf tip (PO:0025142)
• leaf apex (PO:0020137)
• laticifer cell (PO:0025031)
• articulated laticifer cell (PO:0006221)
• non-articulated laticifer cell (PO:0006222)
• articulated laticifer (PO:0005008)
• gametophyte development stage (PO:0028003)
• fruit development stage (PO:0001002)
• fruit initiation stage (PO:0025503)
• fruit size up to 10% stage (PO:0025504)
• whole plant fruit development stage (PO:0025500)
• whole plant fruit formation stage (PO:0007042)
• whole plant fruit ripening stage (PO:0007010)
• embryo sac egg cell (PO:0025123)
• embryo sac (PO:0025074)
• placenta (PO:0025078)
• embryo sac central cell (PO:0020090)
• leaf lamina (PO:0020039)
• leaf lamina abaxial epidermis (PO:0000049)
• leaf lamina adaxial epidermis (PO:0000050)
• leaf lamina areole (PO:0025392)
• leaf lamina base (PO:0008019)
• leaf lamina crena (PO:0025519)
• leaf lamina epidermis (PO:0000047)
• leaf lamina intramarginal vein (PO:0025520)
• leaf lamina lobe (PO:0025517)
• leaf lamina margin (PO:0025009)
• leaf lamina stomatal complex (PO:0025185)
• leaf lamina tooth (PO:0025518)
• leaf lamina vascular system (PO:0000048)
• leaf lamina vein (PO:0020138)
• leaf tip (PO:0025142)
• organ lamina (PO:0025513)
• petiole lamina (PO:0025129)
• phyllome lamina (PO:0025396)
• phyllome lamina areole (PO:0025391)
• phyllome lamina crena (PO:0025516)
• phyllome lamina lobe (PO:0025514)
• phyllome lamina tooth (PO:0025515)
• phyllome lamina vein (PO:0025348)
• tubercle (PO:0025352)
• leaf base PO:0020040
• phyllome base (PO:0025140)
• leaf (PO:0025034)

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