Moss Ontology

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This page is aimed to organize and coordinate the effort to create an ontology of specific terms to describe the life cycle, tissues, cell types of mosses. --Lang 13:58, 31 May 2010 (UTC)

Contents

MO Mailing list and new terms

Discussion concerning the MO is coordinated via the Moss Ontology mailing list

Request a term by mailing to: moss-ontology@cosmoss.org

Moss tissues and cell types

Tissues

amphithecium
The outer layer of cells of the sporangium, cf. endothecium. Celia Knight,Pierre-François Perroud,David Cove (2009): The moss Physcomitrella patens. The Annual Plant Review 36, Glossary
annulus
A band of specialized cells at the junction of the lid (operculum) and the mouth of a moss capsule.Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
antheridium
(pl. antheridia). Gametangium producing male gametes, antherozoids (sometimes referred to as ‘sperm’). Celia Knight,Pierre-François Perroud,David Cove (2009): The moss Physcomitrella patens. The Annual Plant Review 36, Glossary
archegonium
(pl. archegonia). Gametangium producing female gametes, ova (often referred to as ‘eggs’). Celia Knight,Pierre-François Perroud,David Cove (2009): The moss Physcomitrella patens. The Annual Plant Review 36, Glossary
archesporium
(pl. archesporia) Alias sporogenous layer. The layer of cells in an embryonic sporangium that later produces spores by meiosis. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
axillary hair
A small filament in an axil consisting of one long terminal cell atop a basal stalk (also called club-hair). Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
base
The sterile bottom of the sporangium. Also called neck or if swollen apophysis or hypophysis. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
bud
A structure produced by a caulonema and able to develop into a gametophore or a stem that includes an apical cell able to develop into a gametophore. The earliest recognizable stage of gametophore development. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition and altered by David Cove
calyptra
A membranous or hairy cap or hood that forms from the wall of the archegonium and protects the embryonic sporophyte. It is formed from the archegonium by mitotic divisions, and hence it is haploid. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition and altered from David Cove.
cardinal organ part
A plant structure that is a proper part of an organ and includes portions of tissues of at least two different types. Plant Ontology beta version sep2010
cauloid
Term for a haploid gametophore stem. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
collective phyllome structure
A collective plant structure that consists of two or more phyllomes originating from the same node or from one or more adjacent nodes with compressed internodes. Plant Ontology beta version sep2010
collective plant structure
A plant structure that is a proper part of a plant and is composed of two or more organs and any associated portions of plant tissue. Plant Ontology beta version sep2010
columella
A central column of sterile tissue in a sporangium, surrounded by spore-producing tissue. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
endothecium
The inner layers of a sporangium, cf. amphithecium. Celia Knight,Pierre-François Perroud,David Cove (2009): The moss Physcomitrella patens. The Annual Plant Review 36, Glossary
gametangium
Sex organ that forms gametes. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
gametophore
The leafy moss plant. The gametophore is the adult form of the moss gametophyte and bearer of the sex organs (gametangia). Reski (1998): Development, genetics and molecular biology of mosses. Botanica Acta 111, 1-15.
gametophyte
The haploid generation of plants that have a life cycle showing alternation of generations. Gametophytes produce gametes mitotically. Celia Knight,Pierre-François Perroud,David Cove (2009): The moss Physcomitrella patens. The Annual Plant Review 36, Glossary
lid
Also called operculum. Either the lid that blocks the capsule mouth or the apical portion of a sporangium that opens during dehiscence. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
midrib
Alias nerve, costa. The nerve of a phyllid. Altered from Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
paraphyllium
(pl. paraphyllia) Tiny filaments, scales or leaf-like structures scattered on the stems of some leafy bryophytes. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
paraphysis
(pl. paraphyses) Sterile, septate, usually uniseriate hairs intermixed with sex organs. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
perigonial bracts
(pl. perigonia) The specialized phyllids surrounding the antheridia. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
peristome
A single or double circle of teeth inside the mouth of a moss sporangium. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
phyllid
Alias phyllidium, leaflet. Term for a haploid moss leaf or lobe. The term leaf for mosses is missleading as this structure is not homologous to seed plants. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
phyllome
A collective term for all the different types of leaves appearing on plants. Plant Ontology release #0409 April 2009
plant axis
An axial plant organ. Plant Ontology beta version sep2010
protonema
(pl. protonemata). The filamentous stage of gametophyte development. Protonemal tissue is produced following spore germination or the regeneration of most tissues (whether gametophytic or sporophytic). In most moss species, protonemal filaments comprise two cell types, caulonema (q.v.) and chloronema (q.v.). Both types of filament extend by the serial division of their apical cells. Sub-apical cells may branch. Celia Knight,Pierre-François Perroud,David Cove (2009): The moss Physcomitrella patens. The Annual Plant Review 36, Glossary
rhizoid
Filamentous tissue protuding from the gametophore stem with a rooting function. Menand (2007): An Ancient Mechanism Controls the Development of Cells with a Rooting Function in Land Plants. Science 316, 5830, 1477-1480
seta
The stalk of a moss sporophyte. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
sporangium
The portion of a sporophyte containing the spores. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
spore
Propagating single haploid cell produced by meiosis.Reski (1998): Development, genetics and molecular biology of mosses. Botanica Acta 111, 1-15. and Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
theca
The main body (urn) of a sporangium. Altered from Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
tmema
An abscission cell at the base of a gemma (vegetative propagule). Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition

Cell types

alar cell
Specialized cells at both basal corners of a moss leaf that differ from the other leaf cells in ther size, shape, color or thickness and ornamentation of their walls. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
axillary hair base cell
Basal stalk of an axil filament consisting of two to a dozen cells. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
axillary hair terminal cell
A long terminal cell in an axil filament atop a basal stalk. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
brachycyte
Drought-tolerant cell with thick cell wall developed in protonemata under stress (also called brood cells). A type of gemma. Celia Knight,Pierre-François Perroud,David Cove (2009): The moss Physcomitrella patens. The Annual Plant Review 36, Glossary
caulonema cell
(pl. caulonemata). The adventitous filaments of the protonemal stage of gametophyte development. Compared to chloronemal filaments (q.v.), the cells of P. patens caulonemal filaments contain only fewer, less well developed chloroplasts. The cross walls of adjacent cells in caulonemal filaments are oblique to the filament axis. Celia Knight,Pierre-François Perroud,David Cove (2009): The moss Physcomitrella patens. The Annual Plant Review 36, Glossary
chloronema cell
(pl. chloronemata). The assimilatory filaments of the protonemal stage of gametophyte development. Compared to caulonemal filaments (q.v.), the cells of P. patens chloronemal filaments contain many well developed chloroplasts. The cross walls of adjacent cells in chloronemal filaments are perpendicular to the filament axis. Celia Knight,Pierre-François Perroud,David Cove (2009): The moss Physcomitrella patens. The Annual Plant Review 36, Glossary
egg cell
The haploid gamete produced by the female sex organ (archegonium). Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
guard cell
The specialized inflatable epithecial cell surrounding a bryophytic stoma. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
jacket layer cell
From the unistratose wall of an antheridium. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
neck canal cell
Cells in the neck of an immature archegonium neck (also called canal cells)
phyllid apical cell
A cell at the tip of the phyllid that divides to produce phyllid tissues. C. Jill Harrison et al. (2009): Local Cues and Asymmetric Cell Divisions Underpin Body Plan Transitions in the Moss Physcomitrella patens. Current Biology 19, 6, 461-471 and altered from Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
shoot apical cell
A cell at the tip of the shoot that divides to produces leave initial cells and ohter stem tissues. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
side branch initial
A single cell produced by the division of sub-apical cells of protonemata. Side branch initials may develop into chloronemata, caulonemata, buds and hence gametophores, or may not divide further. David Cove
spermatozoid
The haploid gamete produced by the male sex organ (antheridium). A motile biflagelate sperm (male gamete). Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
spore
A minure, haploid, usually spherical and unicellular body produced in a sporophyte by meiosis. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
sporocyte
Alias spore mother cell. A diploid cell in an embryonic sporangium that undergoes meiosis and produces haploid spores. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
tmema cell
An abscission cell at the base of a gemma (vegetative propagule). Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
transfer cell
Specialized cell at the junction of the gametophyte and sporophyte that function in nourishing the sporophyte. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
zygote
The diploid cell resulting from the fusion of thwo haploid gametes. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition

Life cycle - developmental stages

dormancy
A suspension of physiological activity that can be reactivated once it is broken. Plant Ontology release #0409 April 2009
formation of sporangium
Formation of the spore-bearing structure. altered from Plant Ontology release #0409 April 2009
gametangia development stages
Stages of development of gametangia defined by characteristic morphological, structural, histological or other visible features. altered from Plant Ontology release #0409 April 2009
gametangia visible
The stage at which plant is producing gametangia. altered from Plant Ontology release #0409 April 2009
gametophore development stages
Stages of development of an gametophore defined by characteristic morphological, structural, histological or other visible features. altered from Plant Ontology release #0409 April 2009
gametophore growth
The stage at which vegetative structures are being produced by the apical cell. altered from Plant Ontology release #0409 April 2009
juvenile gametophore
Gametophores not bearing gametangia yet. --Lang 10:07, 5 December 2011 (UTC)
gametophytic phase
A plant life cycle phase that arises through meiosis. Plant Ontology beta version sep2010
germination
The beginning of growth of a spore or other previously dormant structure. Bill and Nancy Malcolm (2006): Mosses and other Bryophytes, an illustrated glossary, second edition
phyllid development stages
Stages of development of a leaf/phyllid defined by characteristic morphological, structural, histological or other visible features. altered from Plant Ontology release #0409 April 2009
plant life cycle phase
plant growth and development stage
protonema developmental stages
Stages of development of protnema defined by characteristic morphological, structural, histological or other visible features. Altered from altered from Plant Ontology release #0409 April 2009
protonema growth
Stages of development of protonemata defined by characteristic morphological, structural, histological or other visible features. altered from Plant Ontology release #0409 April 2009
reproductive growth
Stage of growth when reproductive structures are being produced. Plant Ontology release #0409 April 2009
rhizoid development stages
Stages of development of a root/rhizoid defined by characteristic morphological, structural, histological or other visible features. altered from Plant Ontology release #0409 April 2009
ripening
Maturation of the sporangium. altered from Plant Ontology release #0409 April 2009
senescence
The processes that occur near the end of a plant's active life that are associated with the dismantling of cell components and membranes, loss of functional chloroplasts, and an overall decline in metabolism. Plant Ontology release #0409 April 2009
sporangium development stages
Stages of development of a sporangium defined by characteristic morphological, structural, histological or other visible features. altered from Plant Ontology release #0409 April 2009
spore development stages
Stages of development of a spore defined by characteristic morphological, structural, histological or other visible features. [altered from Plant Ontology release #0409 April 2009]
sporophyte growht
The stage at which plant is producing a sporophyte. Altered from Plant Ontology release #0409 April 2009
sporophytic phase
A plant life cycle phase that is the product of fertilization. Plant Ontology release #0409 April 2009
vegetative growth
Stage of growth when vegetative structures are being produced. Plant Ontology release #0409 April 2009

Mutant phenotypes

Experimental conditions

long day
16 hours light, 8 hours dark
ultraviolet light
Plants were treated with light in the range of 400 nm - 100 nm wavelength. Enzyclopaedia Britannica (september 2010)
ultraviolet A
Plants were treated with light in the range of 400 nm - 315 nm wavelength. Enzyclopaedia Britannica (september 2010)
ultraviolet B
Plants were treated with light in the range of 315 nm - 280 nm wavelength. Enzyclopaedia Britannica (september 2010)
ultraviolet C
Plants were treated with light in the range of 280 nm - 100 nm wavelength. Enzyclopaedia Britannica (september 2010)
high temperature
Conditions with temperatures higher than the room temperature
low temperature
Conditions with temperatures lower than the room temperature
room temperature
20°C - 25°C
flooding
XXX
dehydration
XXX
substrate additives
Every substance that is present in the substrate of the plant
nutrients
Substances that an organism must obtain from its surroundings for growth and the sustenance of life. Enzyclopaedia Britannica (september 2010)
vitamins
XXX
salts
XXX
hormones
Organic compound that is produced in one part of a multicellular organism and travels to another part to exert its action. Enzyclopaedia Britannica (september 2010)

PO-MO term mapping

  • Please feel free to edit the moss ontology terms on the right column but keep the plant ontology terms on the left coulmn.
  • Mark unsuitable terms in the moss ontology with a XXX (like for cultured callus).
  • If you add a completely new term to the moss ontology side, add a <br> on the plant ontology side to keep up the symmetry.
  • When adding or changing a term you should also include a definition in the upper part of the page and add your reference.
  • There are three types of relationships: is_a, part_of and participates_in


Plant Ontology Terms Moss Ontology Terms
  • PO:0009012 : plant growth and development stages
    • is_a PO:0007021 : plant structure development stages
      • is_a PO:0007615 : flower development stages
      • is_a PO:0001002 : fruit development stages
      • is_a PO:0001083 : inflorescence development stages
      • is_a PO:0001050 : leaf development stages
        • is_a PO:0001051 : 1 leaf initiation stage
        • is_a PO:0001052 : 2 leaf expansion stage
        • is_a PO:0001053 : 3 leaf fully expanded
        • is_a PO:0001054 : 4 leaf senescence stage
        • is_a PO:0007039 : leaf trichome development stage
      • is_a PO:0007520 : root development stages
      • is_a PO:0001170 : seed development stages








    • is_a PO:0028001 : plant life cycle phase
      • is_a PO:0028003 : gametophytic phase
      • is_a PO:0028002 : sporophytic phase

    • is_a PO:0007033 : whole plant growth stages
      • is_a PO:0007134 : A vegetative growth
        • is_a PO:0007057 : 0 germination
        • is_a PO:0007112 : 1 main shoot growth</span>


        • is_a PO:0007073 : 2 formation of axillary shoot


      • is_a PO:0007130 : B reproductive growth
        • is_a PO:0007047 : 3 inflorescence visible


        • is_a PO:0007016 : 4 flowering
        • is_a PO:0007042 : 5 fruit formation
        • is_a PO:0007010 : 6 ripening
      • is_a PO:0007017 : C senescence
      • is_a PO:0007132 : D dormancy
  • MO:0011000 : plant growth and development stages
    • is_a MO:0011000 : plant structure development stages
      • is_a MO:0011001 : gametangia development stages
      • is_a MO:0011002 : sporangium development stages
      • is_a MO:0011003 : gametophore development stages
      • is_a MO:0011004 : phyllid development stages
        • is_a MO:0011005 : initiation
        • is_a juvenile MO:0011006 : phyllid
        • is_a adult MO:0011008 : phyllid
        • is_a MO:0011009 : XXX
        • is_a MO:0011010 : XXX
      • is_a MO:0011011 : rhizoid development stages
      • is_a MO:0011012 : XXX
      • is_a MO:0011013 : spore development stages
      • is_a MO:0011014 : protonema development stages
        • is_a MO:0011015 : chloronema stage
        • is_a MO:0011016 : caulonema stage
        • is_a MO:0011017 : tmema visible
        • is_a MO:0011018 : brachycyte visible

    • is_a MO:0012000 : plant life cycle phase
      • is_a MO:0012001 : gametophytic phase
      • is_a MO:0012002 : sporophytic phase

    • is_a MO:0013000 : whole plant growth stages
      • is_a MO:0013001 : A vegetative growth
        • is_a MO:0013002 : 0 germination
        • is_a MO:0013003 : 1 protonema growth
          • is_a MO:0013004 : chloronema growth
          • is_a MO:0013005 : caulonema growth
        • is_a MO:0013006 : 2 gametophore growth
          • is_a MO:0013007 : bud visible
          • is_a MO:0013008 : phyllid production
      • is_a MO:0013009 : B reproductive growth
        • is_a MO:0013010 : 3 gametangia visible
          • is_a MO:0013011 : antheridia visible
          • is_a MO:0013012 : archegonia visible
        • is_a MO:0013013 : 4 sporophyte growth
        • is_a MO:0013014 : 5 formation of sporangium
        • is_a MO:0013015 : 6 ripening
      • is_a MO:0013016 : C senescence
      • is_a MO:0013017 : D dormancy
  • PO:0009011 : plant structure
    • is_a PO:0000004 : in vitro plant structure
      • is_a PO:0000009 : cultured callus
      • is_a PO:0000005 : cultured cell
        • is_a PO:0000007 : cultured leaf cell
        • is_a PO:0000006 : cultured protoplast
        • is_a PO:0000008 : cultured root cell
      • is_a PO:0000010 : cultured embryo

  • MO:0020000 : plant structure
    • is_a MO:0021000 : in vitro plant structure
      • is_a MO:0021001 : cultured XXX
      • is_a MO:0021002 : cultured cell
        • is_a MO:0021003 : cultured XXX
        • is_a MO:0021004 : cultured protoplast
        • is_a MO:0021005 : cultured XXX
      • is_a MO:0021006 : cultured XXX

    • is_a PO:0009008 : organ
      • part_of PO:0025001 : cardinal organ part
      • is_a PO:0006001 : phyllome
        • is_a PO:0025034 : leaf
          • is_a PO:0009055 : bract
          • part_of PO:0005060 : leaf endodermis
          • part_of PO:0006016 : leaf epidermis
          • is_a PO:0025075 : non-vascular leaf





          • is_a PO:0009025 : vascular leaf
        • is_a PO:0009032 : petal
        • is_a PO:0009042 : prophyll
        • is_a PO:0006003 : scale leaf
        • is_a PO:0009031 : sepal
        • is_a PO:0009026 : sporophyll
        • is_a PO:0020041 : stipule
        • is_a PO:0009033 : tepal
      • is_a PO:0025004 : plant axis
        • is_a PO:0019018 : embryo axis
        • part_of PO:0005046 : periderm
        • is_a PO:0009005 : root
        • is_a PO:0025029 : shoot axis

    • is_a MO:0022000 : organ
      • is_a MO:0022002 : cardinal organ part
      • is_a MO:0022003 : phyllome
        • is_a MO:0022005 : leaf
          • is_a MO:0022006 : bract
          • part_of MO:0022007 : leaf endodermis
          • part_of MO:0022008 : leaf epidermis
          • is_a MO:0022009 : non-vascular leaf
            • is_a MO:0022010 : juvenile leaf
            • is_a MO:0022011 : adult leaf
              • part_of MO:0022012 : midrib
              • part_of MO:0022013 : apical cell
              • part_of MO:0022014 : alar cell
          • is_a MO:0022015 : XXX
        • is_a MO:0022016 : XXX
        • is_a XXX
        • is_a XXX
        • is_a XXX
        • is_a XXX
        • is_a XXX
        • is_a XXX
      • is_a MO:0022004 : plant axis
        • is_a MO:0022017 : embryo axis
        • part_of MO:0022018 : XXX
        • is_a MO:0022019 : rhizoid
        • is_a MO:0022020 : stem axis

    • is_a PO:0025001 : cardinal organ part
      • is_a PO:0009066 : anther
      • is_a PO:0020028 : antiraphe
      • is_a PO:0000012 : apical hook
      • is_a PO:0020106 : auricle
      • is_a PO:0006032 : awn
      • is_a PO:0008020 : central zone of the leaf lamina
      • is_a PO:0008025 : central zone of the petiole
      • is_a PO:0009068 : connective
      • is_a PO:0008001 : fruit distal end
      • is_a PO:0008002 : fruit proximal end
      • is_a PO:0009065 : hypanthium
      • is_a PO:0020044 : hyperphyll
      • is_a PO:0020100 : hypocotyl
      • is_a PO:0025060 : lamina
      • is_a PO:0020137 : leaf apex
      • is_a PO:0020040 : leaf base
      • is_a PO:0008019 : leaf lamina base
      • is_a PO:0020104 : leaf sheath
      • is_a PO:0020049 : leaflet
      • is_a PO:0020105 : ligule
      • is_a PO:0025005 : organ margin
      • is_a PO:0009072 : ovary
      • is_a PO:0005022 : ovary wall
      • is_a PO:0020003 : ovule
      • is_a PO:0006033 : paleal apiculus
      • is_a PO:0008026 : petiole distal end
      • is_a PO:0008024 : petiole proximal end
      • is_a PO:0009000 : pulvinus
      • is_a PO:0020027 : raphe
      • is_a PO:0009064 : receptacle
      • is_a PO:0000025 : root tip
      • is_a PO:0005005 : shoot internode
      • is_a PO:0005004 : shoot node
      • is_a PO:0025066 : stalk
      • is_a PO:0008039 : stem base
      • is_a PO:0008042 : stem internode differentiation zone
      • is_a PO:0008041 : stem internode elongation zone
      • is_a PO:0009073 : stigma
      • is_a PO:0020051 : stipel
      • is_a PO:0009074 : style
      • is_a PO:0003000 : transition zone

    • is_a MO:0023000 : cardinal organ part
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a MO:0023001 : phyllid apex
      • is_a MO:0023002 : phyllid base
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a MO:0023003 : stem base
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX

    • is_a PO:0025007 : collective plant structure
      • is_a PO:0025023 : collective phyllome structure
      • is_a PO:0009001 : fruit
      • is_a PO:0025025 : root system
      • is_a PO:0009006 : shoot system
        • is_a PO:0000055 : bud
        • part_of PO:0004724 : hypocotyl-root junction
        • is_a PO:0006342 : infructescence


















        • part_of PO:0009035 : nectary
        • part_of PO:0006001 : phyllome
        • is_a PO:0006341 : primary shoot
        • part_of PO:0009000 : pulvinus
        • is_a PO:0025082 : reproductive shoot system
          • is_a PO:0009046 : flower
            • part_of PO:0009061 : androecium


            • part_of PO:0009063 : epicalyx
            • part_of PO:0008043 : floral epidermis
            • part_of PO:0009056 : floral nectary
            • is_a PO:0009082 : floret
            • part_of PO:0006502 : flower abscission zone
            • is_a PO:0004706 : flower primordium
            • part_of PO:0005017 : flower vascular system
            • part_of PO:0009062 : gynoecium


            • part_of PO:0006330 : gynophore
            • has_part PO:0009049 : inflorescence
            • part_of PO:0009058 : perianth
          • is_a PO:0025084 : reproductive bud
          • is_a PO:0009051 : spikelet
          • is_a PO:0025083 : strobilus
        • is_a PO:0004544 : root-borne shoot system
        • part_of PO:0000037 : shoot apex
        • part_of PO:0025029 : shoot axis


        • part_of PO:0006035 : shoot epidermis
        • part_of PO:0006079 : shoot meristem
        • is_a PO:0004545 : shoot-borne shoot system

    • is_a MO:0024000 : collective plant structure
      • is_a MO:0024001 : collective phyllome structure
      • is_a MO:0024002 : fruit
      • is_a MO:0024003 : root system
      • is_a MO:0024004 : shoot system
        • is_a MO:0024005 : bud
        • part_of MO:0024006 : hypocotyl-root junction
        • is_a MO:0024007 : infructescence
          • part_of MO:0024008 : sporangium
          • part_of MO:0024009 : calyptra
            • part_of MO:0024010 : base
            • part_of MO:0024011 : theca
              • part_of MO:0024012 : archesporium
              • part_of MO:0024013 : columella
              • part_of MO:0024014 : peristome
            • part_of MO:0024015 : annulus
            • part_of MO:0024016 : lid
            • part_of MO:0024017 : amphithecium
            • part_of MO:0024018 : endothecium
          • part_of MO:0024019 : foot
          • part_of MO:0024020 : seta
          • part_of MO:0024021 : stomatal complex
            • part_of MO:0024022 : guard cell
            • part_of MO:0024023 : stomatal pore
        • part_of MO:0024024 : nectary
        • part_of MO:0024025 : phyllome
        • is_a MO:0024026 : primary shoot
        • part_of MO:0024027 : pulvinus
        • is_a MO:0024028 : reproductive shoot system
          • is_a MO:0024029 : flower
            • part_of MO:0024030 : antheridium
              • part_of MO:0024031 : spermatozoid
              • part_of MO:0024032 : jacket layer
            • part_of MO:0024034 : XXX
            • part_of MO:0024035 : XXX
            • part_of MO:0024033 : XXX
            • is_a MO:0024036 : XXX
            • part_of XXX
            • is_a MO:0024037 : XXX
            • part_of MO:00240 : XXX
            • part_of MO:0024038 : archegonium
              • part_of MO:0024039 : egg cell
              • part_of MO:0024040 : neck canal
            • part_of XXX
            • has_part MO:0024041 : inflorescence
            • part_of XXX
          • is_a MO:0024042 : reproductive bud
          • is_a MO:0024043 : spikelet
          • is_a MO:0024044 : strobilus
        • is_a MO:0024045 : root-borne shoot system
        • part_of MO:0024046 : shoot apex
        • part_of MO:0024047 : shoot axis
          • part_of MO:0024048 : paraphysis
          • part_of MO:0024049 : auxillary hair
        • part_of MO:0024050 : shoot epidermis
        • part_of MO:0024051 : shoot meristem
        • is_a MO:0024052 : shoot-borne shoot system

    • is_a PO:0009002 : plant cell
      • is_a PO:0000081 : axial cell
      • is_a PO:0025028 : embryonic cell
      • is_a PO:0004013 : epidermal cell
      • is_a PO:0006015 : female archesporial cell
      • is_a PO:0025006 : gamete
        • is_a PO:0020094 : egg cell
        • is_a PO:0000084 : sperm cell
      • is_a PO:0025030 : ground tissue cell
      • is_a PO:0006014 : male archesporial cell
      • is_a PO:0025026 : megagametophytic cell
      • is_a PO:0004010 : meristematic cell
      • is_a PO:0000070 : meristemoid
      • is_a PO:0025027 : microgametophytic cell
      • is_a PO:0006010 : primary parietal cell
      • is_a PO:0006088 : primary sporogenous cell
      • is_a PO:0025017 : spore
      • is_a PO:0006204 : sporocyte
      • is_a PO:0008030 : trichome cell
        • is_a PO:0006504 : leaf trichome
        • is_a PO:0004510 : non-secretory trichome
        • is_a PO:0004509 : secretory trichome
        • is_a PO:0004511 : seed hair
        • is_a PO:0005003 : stem trichome
        • is_a PO:0008031 : trichome branch
        • is_a PO:0008030 : trichome cell
      • is_a PO:0000423 : zygote











    • is_a MO:0025000 : plant cell
      • is_a MO:0025001 : axial cell
      • is_a MO:0025002 : embryonic cell
      • is_a MO:0025003 : XXX
      • is_a MO:0025004 : archesporical cell
      • is_a MO:0025005 : gamete
        • is_a MO:0025006 : egg cell
        • is_a MO:0025007 : spermatozoid
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a XXX
      • is_a MO:0025008 : spore
      • is_a MO:0025009 : sporocyte
      • is_a MO:0025010 : trichome
        • is_a MO:0025011 : phyllid trichome
        • is_a MO:0025012 : non-secretory trichome
        • is_a MO:0025013 : secretory trichome
        • is_a MO:0025014 : XXX
        • is_a MO:0025015 : stem trichome
        • part_of MO:0025016 : trichome branch
        • part_of MO:0025017 : trichome cell
      • is_a MO:0025018 : zygote
      • is_a MO:0025019 : brachycyte
      • is_a MO:0025020 : chloronema cell
      • is_a MO:0025021 : caulonema cell
      • is_a MO:0025022 : tmema cell
      • is_a MO:0025023 : jacket layer cell
      • is_a MO:0025024 : axillary hair terminal cell
      • is_a MO:0025025 : axillary hair base cell
      • is_a MO:0025026 : shoot apical cell
      • is_a MO:0025027 : phyllid apical cell
      • is_a MO:0025028 : neck canal cell

    • is_a PO:0009007 : portion of plant tissue
    • is_a PO:0000003 : whole plant
      • part_of PO:0025007 : collective plant structure
      • is_a PO:0009009 : embryo
      • is_a PO:0020092 : female gametophyte
      • is_a PO:0020091 : male gametophyte
      • part_of PO:0009002 : plant cell
      • part_of PO:0009008 : plant organ
      • part_of PO:0009007 : portion of plant tissue
      • is_a PO:0009010 : seed
      • part_of PO:0000034 : vascular system












    • is_a MO:0026000 : portion of plant tissue
    • is_a MO:0027000 : whole plant
      • part_of MO:0027001 : collective plant structure
      • is_a MO:0027002 : embryo
      • is_a MO:0027003 : female gametophyte
      • is_a MO:0027004 : male gametophyte
      • part_of MO:0027005 : plant cell
      • part_of MO:0027006 : plant organ
      • part_of MO:0027007 : portion of plant tissue
      • is_a MO:0027009 : XXX
      • part_of MO:0027008 : XXX
      • is_a MO:0027010 : protonemata
        • part_of MO:0027011 : side branch initial
        • is_a MO:0027012 : chloronema
        • is_a MO:0027013 : caulonema
          • part_of MO:0027014 : bud
        • part_of MO:0027015 : tmema
        • part_of MO:0027016 : brachycyte
      • part_of MO:0027017 : gametophore
        • part_of MO:0027018 : phyllid
        • part_of MO:0027019 : stem
        • part_of MO:0027020 : rhizoid
        • part_of MO:0027022 : gametangia

Experimental conditions tree

Experimental conditions
  • light treatment
    • high intensity
    • low intensity
    • dark
    • far red
    • red
    • green
    • blue
    • ultraviolet
      • ultraviolet A
      • ultraviolet B
      • ultraviolet C
  • temperature treatment
    • room temperature
    • high temperature
    • low temperature
  • substrate water content
    • flooding
    • dehydration
    • rehydration
  • substrate additives
    • nutrients
      • vitamins
        • specific vitamin missing
      • salts
        • specific salt/ion missing
        • high ion strength
        • low ion strength
    • sugars
      • Glucose
      • Mannose
    • hormones
      • auxins
      • jasmonates
      • cytokinins
  • fungal infection
    • symbiotic
    • parasitic
  • injury of the plant
    • injury of the phylloid
    • injury of the cauloid
  • gas availability
    • oxygen
      • low oxygen level
      • high oxygen level
    • carbon dioxide
      • low carbon dioxide level
      • high carbon dioxide level

Additional remarks

Oct 28, 2010; Manuel
The term flower should contain "or other reproductive structure"


Oct 28, 2010; Manuel
The term non-vascular leaf should contain "phyllid" as alias


Oct 09, 2010; Manuel
We need an appropriate term describing the shoot/stem/gametophore axis that fits for seed plants and bryophytes. Leaf will stay as a higher level term and the bryophyte phyllid will be with the term non-vascular leaf.


Sep 28, 2010; Manuel
The plant structures that were summarized under the terms sporophyte and gametophyte have been distributed to other terms and will later be referred to as "participates_in" sporophytic or gametophytic phase.


Aug 16, 2010; Manuel
The latest release of the PO is available and at the moment I try to fit the old terms into the new Ontology.
A feedback would be much appreciated. Especially for the sporophyte, as there is no longer such a term within the plant structures.
Summary of changes to the PO

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